Query 014118
Match_columns 430
No_of_seqs 339 out of 1468
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 02:01:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014118.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014118hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0011 Nucleotide excision re 100.0 2.9E-92 6.4E-97 691.5 32.2 338 1-427 1-339 (340)
2 TIGR00601 rad23 UV excision re 100.0 1.6E-91 3.4E-96 713.9 38.6 364 1-427 1-378 (378)
3 PF09280 XPC-binding: XPC-bind 99.8 1.3E-19 2.9E-24 139.5 6.1 50 313-362 9-58 (59)
4 cd01807 GDX_N ubiquitin-like d 99.7 4.5E-18 9.7E-23 135.9 9.1 73 1-76 1-73 (74)
5 cd01805 RAD23_N Ubiquitin-like 99.7 1.9E-17 4.1E-22 132.6 9.8 75 1-78 1-77 (77)
6 cd01797 NIRF_N amino-terminal 99.7 2.4E-17 5.2E-22 133.8 8.9 74 1-77 1-76 (78)
7 cd01793 Fubi Fubi ubiquitin-li 99.7 5E-17 1.1E-21 130.0 9.1 73 1-78 1-73 (74)
8 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 4.2E-17 9.1E-22 130.9 8.4 71 1-74 2-72 (73)
9 PTZ00044 ubiquitin; Provisiona 99.7 8.4E-17 1.8E-21 128.6 9.3 75 1-78 1-75 (76)
10 cd01802 AN1_N ubiquitin-like d 99.7 1.3E-16 2.8E-21 136.2 9.2 75 1-78 28-102 (103)
11 cd01804 midnolin_N Ubiquitin-l 99.7 1.5E-16 3.2E-21 128.9 8.8 73 1-77 2-74 (78)
12 cd01806 Nedd8 Nebb8-like ubiq 99.7 3.6E-16 7.9E-21 124.2 10.0 75 1-78 1-75 (76)
13 cd01810 ISG15_repeat2 ISG15 ub 99.7 2.5E-16 5.4E-21 125.9 8.5 73 3-78 1-73 (74)
14 cd01803 Ubiquitin Ubiquitin. U 99.7 3.7E-16 8E-21 124.2 9.3 75 1-78 1-75 (76)
15 cd01792 ISG15_repeat1 ISG15 ub 99.7 2.3E-16 5.1E-21 128.1 8.1 74 1-77 3-78 (80)
16 cd01794 DC_UbP_C dendritic cel 99.7 3E-16 6.5E-21 124.8 7.6 70 3-75 1-70 (70)
17 cd01809 Scythe_N Ubiquitin-lik 99.6 6.1E-16 1.3E-20 121.7 9.1 72 1-75 1-72 (72)
18 cd01790 Herp_N Homocysteine-re 99.6 3.8E-16 8.3E-21 127.1 8.0 73 1-74 2-78 (79)
19 cd01798 parkin_N amino-termina 99.6 4.2E-16 9E-21 123.2 7.8 70 3-75 1-70 (70)
20 KOG0010 Ubiquitin-like protein 99.6 1.8E-15 3.8E-20 156.8 13.5 76 1-80 16-91 (493)
21 cd01808 hPLIC_N Ubiquitin-like 99.6 8.8E-16 1.9E-20 121.7 8.4 71 1-75 1-71 (71)
22 PF00240 ubiquitin: Ubiquitin 99.6 1.4E-15 3.1E-20 119.0 7.7 69 6-77 1-69 (69)
23 cd01813 UBP_N UBP ubiquitin pr 99.6 2.9E-15 6.3E-20 120.4 8.0 70 1-74 1-73 (74)
24 cd01796 DDI1_N DNA damage indu 99.6 5.8E-15 1.2E-19 117.5 7.4 67 3-72 1-69 (71)
25 cd01812 BAG1_N Ubiquitin-like 99.5 1.8E-14 3.9E-19 113.3 8.2 70 1-74 1-70 (71)
26 cd01800 SF3a120_C Ubiquitin-li 99.5 3.1E-14 6.8E-19 114.5 8.1 68 8-78 5-72 (76)
27 KOG0005 Ubiquitin-like protein 99.5 1.7E-14 3.6E-19 110.0 5.1 70 1-73 1-70 (70)
28 KOG0003 Ubiquitin/60s ribosoma 99.4 2.1E-14 4.5E-19 121.5 0.2 76 1-79 1-76 (128)
29 smart00213 UBQ Ubiquitin homol 99.4 5.1E-13 1.1E-17 101.9 7.5 64 1-68 1-64 (64)
30 KOG0004 Ubiquitin/40S ribosoma 99.4 2.4E-13 5.2E-18 122.3 5.2 79 1-82 1-79 (156)
31 cd01763 Sumo Small ubiquitin-r 99.4 1.7E-12 3.7E-17 107.3 9.8 75 1-78 12-86 (87)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 6.2E-13 1.3E-17 107.1 5.7 55 19-74 19-74 (75)
33 cd01814 NTGP5 Ubiquitin-like N 99.3 3.2E-12 6.9E-17 109.9 6.8 77 2-78 6-93 (113)
34 cd01769 UBL Ubiquitin-like dom 99.3 1.8E-11 3.9E-16 94.6 7.8 68 4-74 1-68 (69)
35 cd01799 Hoil1_N Ubiquitin-like 99.2 3.3E-11 7.1E-16 97.3 7.4 65 6-74 8-74 (75)
36 PF11976 Rad60-SLD: Ubiquitin- 99.1 1.9E-10 4.1E-15 90.9 7.9 71 1-74 1-72 (72)
37 cd01795 USP48_C USP ubiquitin- 99.0 1.5E-09 3.3E-14 91.4 7.0 63 12-77 16-79 (107)
38 PF00627 UBA: UBA/TS-N domain; 98.9 1.2E-09 2.7E-14 76.3 5.0 36 172-210 2-37 (37)
39 PF13881 Rad60-SLD_2: Ubiquiti 98.9 1.1E-08 2.5E-13 88.6 10.1 76 2-77 4-90 (111)
40 KOG0001 Ubiquitin and ubiquiti 98.8 2.4E-08 5.2E-13 76.4 9.3 72 3-77 2-73 (75)
41 cd01789 Alp11_N Ubiquitin-like 98.8 2.1E-08 4.5E-13 82.5 8.7 71 2-75 3-81 (84)
42 KOG4248 Ubiquitin-like protein 98.8 6.5E-09 1.4E-13 115.7 6.8 70 2-75 4-73 (1143)
43 PLN02560 enoyl-CoA reductase 98.7 2.7E-08 5.8E-13 100.3 8.4 70 1-72 1-80 (308)
44 cd00194 UBA Ubiquitin Associat 98.7 2.2E-08 4.8E-13 69.9 5.1 37 173-212 2-38 (38)
45 smart00165 UBA Ubiquitin assoc 98.7 2.9E-08 6.4E-13 68.9 4.6 37 172-211 1-37 (37)
46 PF14560 Ubiquitin_2: Ubiquiti 98.6 1.4E-07 3E-12 77.8 7.7 73 1-76 2-84 (87)
47 cd01801 Tsc13_N Ubiquitin-like 98.6 1.1E-07 2.5E-12 76.6 6.9 69 2-72 2-74 (77)
48 cd00194 UBA Ubiquitin Associat 98.6 7.9E-08 1.7E-12 67.1 4.9 37 387-423 2-38 (38)
49 PF00627 UBA: UBA/TS-N domain; 98.6 8.9E-08 1.9E-12 66.9 5.0 36 386-421 2-37 (37)
50 cd01788 ElonginB Ubiquitin-lik 98.6 1.8E-07 3.8E-12 80.8 7.6 73 1-76 1-81 (119)
51 smart00165 UBA Ubiquitin assoc 98.5 1.2E-07 2.6E-12 65.8 4.7 36 387-422 2-37 (37)
52 cd00196 UBQ Ubiquitin-like pro 98.4 1.9E-06 4.1E-11 62.1 7.6 67 5-74 2-68 (69)
53 PF11543 UN_NPL4: Nuclear pore 98.3 1.6E-06 3.5E-11 70.9 5.8 69 1-73 5-78 (80)
54 KOG1872 Ubiquitin-specific pro 98.1 6.9E-06 1.5E-10 85.8 7.7 72 2-77 5-77 (473)
55 KOG0006 E3 ubiquitin-protein l 97.9 1.2E-05 2.6E-10 80.3 5.8 72 1-75 1-75 (446)
56 cd01811 OASL_repeat1 2'-5' oli 97.9 6.4E-05 1.4E-09 60.5 8.1 71 1-75 1-76 (80)
57 KOG3493 Ubiquitin-like protein 97.8 8.7E-06 1.9E-10 63.6 1.9 69 2-73 3-71 (73)
58 KOG2561 Adaptor protein NUB1, 97.5 0.0011 2.3E-08 69.5 12.5 59 14-75 53-111 (568)
59 PF10302 DUF2407: DUF2407 ubiq 97.4 0.00036 7.8E-09 59.2 6.2 61 2-63 2-65 (97)
60 KOG4495 RNA polymerase II tran 97.4 0.00025 5.4E-09 59.7 4.8 59 3-65 5-65 (110)
61 KOG4583 Membrane-associated ER 97.2 3.1E-05 6.8E-10 77.9 -2.7 78 2-80 11-92 (391)
62 KOG1769 Ubiquitin-like protein 97.2 0.0033 7.1E-08 53.4 9.2 73 2-77 22-94 (99)
63 TIGR00601 rad23 UV excision re 97.1 0.00058 1.2E-08 71.0 5.2 41 385-425 155-195 (378)
64 PF02845 CUE: CUE domain; Int 97.1 0.00098 2.1E-08 47.7 4.4 39 172-213 1-41 (42)
65 PF08817 YukD: WXG100 protein 97.0 0.0012 2.7E-08 53.4 5.4 71 2-72 4-78 (79)
66 KOG0944 Ubiquitin-specific pro 97.0 0.00053 1.1E-08 74.6 4.1 43 170-215 633-675 (763)
67 COG5417 Uncharacterized small 96.9 0.0032 7E-08 50.7 6.6 71 2-72 6-80 (81)
68 PF00789 UBX: UBX domain; Int 96.7 0.011 2.4E-07 47.7 8.4 68 2-72 8-80 (82)
69 smart00166 UBX Domain present 96.6 0.015 3.2E-07 47.1 8.4 68 2-72 6-78 (80)
70 KOG0013 Uncharacterized conser 96.5 0.0044 9.6E-08 59.1 5.8 64 9-75 155-220 (231)
71 cd01767 UBX UBX (ubiquitin reg 96.3 0.03 6.5E-07 44.9 8.6 67 2-73 4-75 (77)
72 KOG1639 Steroid reductase requ 96.2 0.0095 2E-07 58.3 6.2 70 1-72 1-76 (297)
73 cd01770 p47_UBX p47-like ubiqu 96.1 0.039 8.5E-07 44.9 8.4 67 2-71 6-75 (79)
74 cd01772 SAKS1_UBX SAKS1-like U 96.0 0.045 9.9E-07 44.4 8.5 67 2-72 6-77 (79)
75 PF11470 TUG-UBL1: GLUT4 regul 96.0 0.024 5.2E-07 44.8 6.6 63 7-72 3-65 (65)
76 smart00546 CUE Domain that may 96.0 0.018 4E-07 41.2 5.2 39 172-213 2-42 (43)
77 smart00727 STI1 Heat shock cha 95.7 0.011 2.3E-07 41.9 2.9 32 311-346 10-41 (41)
78 KOG0418 Ubiquitin-protein liga 95.6 0.015 3.2E-07 54.7 4.4 46 165-213 155-200 (200)
79 PF13019 Telomere_Sde2: Telome 95.6 0.08 1.7E-06 49.0 9.0 76 1-79 1-88 (162)
80 COG5207 UBP14 Isopeptidase T [ 95.6 0.017 3.6E-07 61.6 5.0 43 387-429 559-602 (749)
81 cd01774 Faf1_like2_UBX Faf1 ik 95.2 0.13 2.8E-06 42.6 8.4 68 1-72 5-82 (85)
82 cd01773 Faf1_like1_UBX Faf1 ik 95.0 0.19 4.2E-06 41.5 8.6 68 2-73 7-79 (82)
83 KOG3206 Alpha-tubulin folding 95.0 0.057 1.2E-06 51.7 6.2 70 2-74 3-80 (234)
84 PF14555 UBA_4: UBA-like domai 94.8 0.07 1.5E-06 38.3 5.1 39 388-426 2-41 (43)
85 KOG0418 Ubiquitin-protein liga 94.8 0.035 7.7E-07 52.2 4.2 74 340-424 127-200 (200)
86 PF02845 CUE: CUE domain; Int 94.7 0.078 1.7E-06 37.8 4.9 37 388-424 3-41 (42)
87 KOG0944 Ubiquitin-specific pro 94.6 0.046 1E-06 60.0 5.2 45 385-429 570-615 (763)
88 COG5227 SMT3 Ubiquitin-like pr 94.3 0.15 3.2E-06 42.8 6.4 69 3-74 27-95 (103)
89 cd01771 Faf1_UBX Faf1 UBX doma 94.0 0.41 8.9E-06 39.1 8.5 67 2-72 6-77 (80)
90 KOG0011 Nucleotide excision re 93.1 0.12 2.5E-06 52.7 4.5 40 171-213 297-336 (340)
91 PF15044 CLU_N: Mitochondrial 93.0 0.15 3.3E-06 41.3 4.3 56 17-74 1-57 (76)
92 PF09288 UBA_3: Fungal ubiquit 92.7 0.094 2E-06 40.1 2.5 38 386-423 9-51 (55)
93 PF09288 UBA_3: Fungal ubiquit 92.7 0.12 2.7E-06 39.4 3.1 23 173-198 10-32 (55)
94 PF11626 Rap1_C: TRF2-interact 92.3 0.24 5.2E-06 41.0 4.6 35 176-213 1-35 (87)
95 smart00546 CUE Domain that may 92.2 0.37 8.1E-06 34.4 5.1 37 388-424 4-42 (43)
96 KOG0010 Ubiquitin-like protein 91.3 0.28 6.1E-06 52.4 5.0 41 170-213 452-493 (493)
97 KOG0012 DNA damage inducible p 90.8 0.36 7.9E-06 49.7 5.0 69 1-72 1-73 (380)
98 PLN02799 Molybdopterin synthas 90.7 0.9 1.9E-05 36.6 6.4 66 1-73 2-76 (82)
99 PF14555 UBA_4: UBA-like domai 90.4 0.72 1.6E-05 33.0 5.0 37 173-212 1-38 (43)
100 PRK06437 hypothetical protein; 90.3 1.7 3.8E-05 34.1 7.5 54 9-74 9-62 (67)
101 PF14453 ThiS-like: ThiS-like 89.7 1 2.2E-05 34.7 5.5 55 1-74 1-55 (57)
102 PF06972 DUF1296: Protein of u 89.3 0.99 2.1E-05 35.0 5.1 41 172-213 5-45 (60)
103 PF09379 FERM_N: FERM N-termin 88.8 2.1 4.5E-05 33.9 7.1 59 5-65 1-65 (80)
104 PF11626 Rap1_C: TRF2-interact 87.9 0.71 1.5E-05 38.2 4.0 35 390-424 1-35 (87)
105 PF07499 RuvA_C: RuvA, C-termi 87.6 0.68 1.5E-05 33.9 3.3 37 172-211 3-39 (47)
106 PRK08364 sulfur carrier protei 87.6 3.3 7.2E-05 32.7 7.5 50 12-73 15-64 (70)
107 PRK06488 sulfur carrier protei 87.4 2.2 4.7E-05 33.0 6.2 60 1-74 1-60 (65)
108 cd00754 MoaD Ubiquitin domain 87.2 2.5 5.4E-05 33.4 6.6 57 12-73 17-74 (80)
109 KOG2561 Adaptor protein NUB1, 86.8 0.8 1.7E-05 48.6 4.4 42 173-217 430-471 (568)
110 cd06406 PB1_P67 A PB1 domain i 86.1 2.9 6.4E-05 34.4 6.5 37 12-51 12-48 (80)
111 PF12754 Blt1: Cell-cycle cont 85.7 0.24 5.3E-06 50.1 0.0 60 2-64 80-159 (309)
112 cd06409 PB1_MUG70 The MUG70 pr 83.2 3.9 8.4E-05 34.1 6.1 74 2-75 2-84 (86)
113 PF11069 DUF2870: Protein of u 82.6 2.1 4.6E-05 36.5 4.4 34 45-78 3-37 (98)
114 PF10209 DUF2340: Uncharacteri 81.3 5.1 0.00011 35.5 6.4 60 16-75 21-108 (122)
115 cd06407 PB1_NLP A PB1 domain i 80.9 8.8 0.00019 31.5 7.4 71 1-75 1-81 (82)
116 PF11620 GABP-alpha: GA-bindin 80.4 4.2 9.1E-05 33.9 5.2 62 12-76 4-65 (88)
117 smart00295 B41 Band 4.1 homolo 80.4 14 0.00031 33.8 9.6 61 2-65 5-72 (207)
118 PF02597 ThiS: ThiS family; I 80.0 4 8.7E-05 31.8 5.0 60 12-74 13-72 (77)
119 PF10790 DUF2604: Protein of U 79.6 8.3 0.00018 30.6 6.4 67 9-75 4-71 (76)
120 TIGR01682 moaD molybdopterin c 79.2 9.7 0.00021 30.4 7.1 57 10-73 14-74 (80)
121 COG5207 UBP14 Isopeptidase T [ 79.1 2.6 5.7E-05 45.6 4.6 39 173-214 559-598 (749)
122 PF14836 Ubiquitin_3: Ubiquiti 78.8 11 0.00024 31.7 7.3 62 11-76 14-81 (88)
123 PF07462 MSP1_C: Merozoite sur 78.7 4.9 0.00011 43.7 6.5 9 352-360 416-424 (574)
124 smart00666 PB1 PB1 domain. Pho 77.6 10 0.00022 30.1 6.7 46 2-51 3-48 (81)
125 PF08938 HBS1_N: HBS1 N-termin 77.6 1.3 2.9E-05 36.0 1.5 27 187-213 43-70 (79)
126 PRK05863 sulfur carrier protei 76.9 8.2 0.00018 30.0 5.8 60 1-74 1-60 (65)
127 TIGR01687 moaD_arch MoaD famil 76.7 11 0.00024 30.5 6.8 59 11-73 16-82 (88)
128 PRK08053 sulfur carrier protei 73.2 18 0.00038 28.1 6.8 61 1-74 1-61 (66)
129 PRK05659 sulfur carrier protei 72.7 16 0.00034 28.0 6.4 61 1-74 1-61 (66)
130 PRK06369 nac nascent polypepti 71.4 8.4 0.00018 33.9 5.0 38 173-213 77-115 (115)
131 PRK12332 tsf elongation factor 71.0 6.6 0.00014 37.6 4.7 36 174-212 6-42 (198)
132 cd01760 RBD Ubiquitin-like dom 70.3 12 0.00026 30.1 5.3 53 3-58 2-58 (72)
133 cd06408 PB1_NoxR The PB1 domai 70.0 18 0.00038 30.3 6.4 46 2-51 2-48 (86)
134 TIGR00116 tsf translation elon 69.7 6.8 0.00015 39.7 4.7 36 174-212 6-42 (290)
135 PRK06944 sulfur carrier protei 69.1 26 0.00057 26.6 6.9 60 1-74 1-60 (65)
136 KOG2086 Protein tyrosine phosp 68.6 8.1 0.00018 40.4 5.0 65 2-68 307-374 (380)
137 smart00455 RBD Raf-like Ras-bi 66.9 16 0.00034 29.1 5.3 49 3-54 2-52 (70)
138 PF14732 UAE_UbL: Ubiquitin/SU 65.9 11 0.00023 31.3 4.3 52 19-73 7-67 (87)
139 PF00564 PB1: PB1 domain; Int 65.4 19 0.00042 28.5 5.8 45 2-50 3-48 (84)
140 TIGR02958 sec_mycoba_snm4 secr 65.4 37 0.0008 36.4 9.4 73 2-75 4-80 (452)
141 cd00565 ThiS ThiaminS ubiquiti 65.0 21 0.00046 27.4 5.7 57 8-74 4-60 (65)
142 cd05992 PB1 The PB1 domain is 64.9 23 0.00049 27.8 6.0 45 2-50 2-47 (81)
143 PF11333 DUF3135: Protein of u 64.3 3.5 7.7E-05 34.1 1.2 27 310-336 2-28 (83)
144 PRK09377 tsf elongation factor 64.1 10 0.00022 38.4 4.7 36 174-212 7-43 (290)
145 CHL00098 tsf elongation factor 64.0 11 0.00024 36.2 4.6 36 174-212 3-39 (200)
146 PRK06083 sulfur carrier protei 63.7 29 0.00062 28.7 6.5 57 8-74 23-79 (84)
147 PF12616 DUF3775: Protein of u 63.2 9.4 0.0002 31.1 3.4 40 175-215 20-60 (75)
148 PF07499 RuvA_C: RuvA, C-termi 62.8 5.6 0.00012 29.0 1.9 27 387-413 4-30 (47)
149 PF07223 DUF1421: Protein of u 62.6 8.4 0.00018 40.1 3.8 28 166-196 315-342 (358)
150 COG5100 NPL4 Nuclear pore prot 62.5 25 0.00055 37.2 7.2 73 1-75 1-79 (571)
151 cd07922 CarBa CarBa is the A s 62.0 54 0.0012 27.1 7.7 53 328-404 6-63 (81)
152 TIGR00264 alpha-NAC-related pr 61.4 16 0.00034 32.2 4.8 36 173-211 79-115 (116)
153 cd01611 GABARAP Ubiquitin doma 60.7 44 0.00096 29.1 7.5 59 15-76 45-107 (112)
154 PRK07696 sulfur carrier protei 60.1 40 0.00087 26.3 6.5 61 1-74 1-62 (67)
155 COG2104 ThiS Sulfur transfer p 60.0 43 0.00093 26.6 6.6 63 1-74 1-63 (68)
156 PLN03196 MOC1-like protein; Pr 59.9 79 0.0017 34.3 10.8 49 377-425 330-386 (487)
157 cd01787 GRB7_RA RA (RAS-associ 58.9 60 0.0013 27.1 7.5 67 3-71 5-81 (85)
158 PF08938 HBS1_N: HBS1 N-termin 58.7 8.6 0.00019 31.2 2.5 44 381-424 19-70 (79)
159 PF06972 DUF1296: Protein of u 58.6 26 0.00056 27.4 4.9 38 387-424 6-45 (60)
160 KOG4250 TANK binding protein k 58.3 30 0.00064 39.1 7.3 70 3-77 316-388 (732)
161 PRK07440 hypothetical protein; 58.1 41 0.00089 26.6 6.3 57 8-74 9-65 (70)
162 PF11547 E3_UbLigase_EDD: E3 u 57.8 23 0.00051 26.5 4.4 35 390-424 13-49 (53)
163 TIGR01683 thiS thiamine biosyn 56.8 34 0.00074 26.2 5.5 57 8-74 3-59 (64)
164 cd06398 PB1_Joka2 The PB1 doma 56.7 55 0.0012 27.4 7.1 69 3-75 3-87 (91)
165 PTZ00380 microtubule-associate 56.7 40 0.00086 30.0 6.5 58 15-75 45-105 (121)
166 smart00144 PI3K_rbd PI3-kinase 56.1 61 0.0013 27.8 7.5 74 3-76 20-105 (108)
167 PF02954 HTH_8: Bacterial regu 55.9 11 0.00024 26.6 2.4 27 187-215 5-31 (42)
168 PF07746 LigA: Aromatic-ring-o 55.6 34 0.00074 28.6 5.6 45 328-397 1-50 (88)
169 PF07462 MSP1_C: Merozoite sur 54.2 46 0.001 36.5 7.7 20 164-183 350-369 (574)
170 PF14533 USP7_C2: Ubiquitin-sp 54.0 47 0.001 31.8 7.2 48 12-62 35-90 (213)
171 COG5272 UBI4 Ubiquitin [Posttr 53.1 4 8.7E-05 31.0 -0.2 46 381-427 7-52 (57)
172 PF00794 PI3K_rbd: PI3-kinase 52.9 46 0.00099 28.1 6.2 74 2-76 18-103 (106)
173 TIGR00264 alpha-NAC-related pr 52.4 29 0.00063 30.6 4.9 39 381-422 76-115 (116)
174 PF02991 Atg8: Autophagy prote 52.1 50 0.0011 28.4 6.3 56 17-75 39-98 (104)
175 KOG2689 Predicted ubiquitin re 52.0 17 0.00036 36.6 3.8 35 176-213 4-40 (290)
176 PF08337 Plexin_cytopl: Plexin 51.9 38 0.00083 37.3 6.8 65 11-76 202-290 (539)
177 PF08587 UBA_2: Ubiquitin asso 51.7 3.6 7.8E-05 30.4 -0.7 20 176-198 6-26 (46)
178 PRK11840 bifunctional sulfur c 51.5 38 0.00082 35.0 6.3 62 1-75 1-62 (326)
179 PF15652 Tox-SHH: HNH/Endo VII 48.0 23 0.00049 30.4 3.4 30 169-201 68-97 (100)
180 PF14451 Ub-Mut7C: Mut7-C ubiq 48.0 63 0.0014 26.5 6.0 53 10-74 22-75 (81)
181 cd06411 PB1_p51 The PB1 domain 47.8 65 0.0014 26.5 5.9 36 12-50 8-43 (78)
182 PF10407 Cytokin_check_N: Cdc1 47.4 61 0.0013 26.3 5.7 63 11-76 3-71 (73)
183 PRK06369 nac nascent polypepti 46.2 42 0.00091 29.6 4.9 41 380-423 73-114 (115)
184 KOG1364 Predicted ubiquitin re 45.4 22 0.00047 36.9 3.5 66 2-69 279-349 (356)
185 PRK13901 ruvA Holliday junctio 45.3 28 0.00061 33.3 4.1 29 171-202 143-171 (196)
186 KOG2982 Uncharacterized conser 44.9 19 0.00042 37.1 3.0 55 16-73 353-415 (418)
187 PF07862 Nif11: Nitrogen fixat 44.9 34 0.00073 24.9 3.6 32 328-360 6-39 (49)
188 cd01612 APG12_C Ubiquitin-like 43.9 1.9E+02 0.0041 24.0 8.5 59 14-75 19-81 (87)
189 cd06396 PB1_NBR1 The PB1 domai 43.8 90 0.002 25.8 6.3 35 2-40 2-38 (81)
190 KOG2507 Ubiquitin regulatory p 43.3 41 0.0009 35.9 5.2 73 2-77 316-393 (506)
191 PF13556 HTH_30: PucR C-termin 43.1 25 0.00055 26.6 2.8 22 402-423 3-24 (59)
192 cd07921 PCA_45_Doxase_A_like S 41.4 74 0.0016 27.7 5.6 45 328-397 16-65 (106)
193 PF02196 RBD: Raf-like Ras-bin 40.8 86 0.0019 24.8 5.6 56 3-61 3-60 (71)
194 PF14551 MCM_N: MCM N-terminal 40.6 14 0.0003 31.1 1.1 48 313-360 18-65 (121)
195 PF09280 XPC-binding: XPC-bind 40.4 18 0.00039 28.0 1.6 52 277-348 1-55 (59)
196 cd01768 RA RA (Ras-associating 40.0 1.9E+02 0.0041 23.0 8.8 50 10-60 12-68 (87)
197 KOG3391 Transcriptional co-rep 39.7 31 0.00067 31.3 3.2 31 51-81 112-142 (151)
198 PF08825 E2_bind: E2 binding d 39.6 33 0.00071 28.4 3.1 55 15-73 1-69 (84)
199 COG0264 Tsf Translation elonga 39.0 47 0.001 33.8 4.7 36 174-211 7-42 (296)
200 TIGR00084 ruvA Holliday juncti 38.9 32 0.00068 32.6 3.3 27 172-201 147-173 (191)
201 PRK11130 moaD molybdopterin sy 38.3 1.7E+02 0.0036 23.4 7.1 54 15-73 19-75 (81)
202 cd06410 PB1_UP2 Uncharacterize 36.5 1.1E+02 0.0025 25.9 6.0 40 5-48 17-56 (97)
203 cd02667 Peptidase_C19K A subfa 36.2 31 0.00068 33.8 3.0 50 307-359 14-63 (279)
204 PF00788 RA: Ras association ( 36.0 1.5E+02 0.0033 23.4 6.6 52 3-57 5-68 (93)
205 PF02954 HTH_8: Bacterial regu 35.6 30 0.00064 24.4 2.0 24 398-421 5-28 (42)
206 PF02017 CIDE-N: CIDE-N domain 35.4 1E+02 0.0022 25.3 5.3 64 3-75 5-71 (78)
207 KOG2689 Predicted ubiquitin re 35.4 89 0.0019 31.6 5.9 70 2-72 212-284 (290)
208 cd07321 Extradiol_Dioxygenase_ 34.7 87 0.0019 25.4 4.8 41 337-400 13-58 (77)
209 PRK14602 ruvA Holliday junctio 34.5 42 0.00091 32.1 3.4 27 171-200 154-180 (203)
210 PRK08769 DNA polymerase III su 34.1 73 0.0016 32.6 5.3 39 172-213 174-212 (319)
211 PF12053 DUF3534: Domain of un 32.7 1.9E+02 0.004 26.6 7.1 74 1-76 1-81 (145)
212 PF09494 Slx4: Slx4 endonuclea 32.3 28 0.00061 27.0 1.5 18 314-331 2-19 (64)
213 PF06234 TmoB: Toluene-4-monoo 31.6 1.9E+02 0.0042 24.1 6.4 62 13-75 17-84 (85)
214 cd01764 Urm1 Urm1-like ubuitin 31.4 1.4E+02 0.003 25.0 5.7 55 15-74 23-89 (94)
215 COG0632 RuvA Holliday junction 31.2 49 0.0011 31.8 3.3 28 172-202 156-183 (201)
216 PLN03196 MOC1-like protein; Pr 30.9 1E+02 0.0023 33.3 6.1 22 388-409 270-291 (487)
217 PRK14606 ruvA Holliday junctio 30.3 62 0.0014 30.6 3.8 27 172-201 143-169 (188)
218 PF11547 E3_UbLigase_EDD: E3 u 30.2 1.6E+02 0.0034 22.2 5.0 37 173-212 10-48 (53)
219 KOG3439 Protein conjugation fa 30.2 1.3E+02 0.0028 26.5 5.3 38 13-53 47-84 (116)
220 PF10152 DUF2360: Predicted co 29.7 3.9E+02 0.0085 24.2 8.8 31 170-204 114-144 (148)
221 COG3444 Phosphotransferase sys 29.6 82 0.0018 29.3 4.3 53 346-398 82-138 (159)
222 KOG2500 Uncharacterized conser 28.8 5.2E+02 0.011 25.6 9.7 16 61-76 149-164 (253)
223 PRK14600 ruvA Holliday junctio 28.2 66 0.0014 30.4 3.6 27 172-201 145-171 (186)
224 PF13974 YebO: YebO-like prote 27.7 73 0.0016 26.3 3.3 33 314-346 16-50 (80)
225 PRK07993 DNA polymerase III su 27.6 1.1E+02 0.0023 31.5 5.3 38 173-213 170-208 (334)
226 PF14483 Cut8_M: Cut8 dimerisa 27.1 45 0.00098 23.6 1.7 24 325-348 12-35 (38)
227 PRK14604 ruvA Holliday junctio 27.0 64 0.0014 30.7 3.3 27 172-201 149-175 (195)
228 cd06397 PB1_UP1 Uncharacterize 26.8 1.9E+02 0.0042 24.0 5.5 57 2-62 2-63 (82)
229 PRK14601 ruvA Holliday junctio 26.6 73 0.0016 30.1 3.6 25 172-199 142-166 (183)
230 PF08783 DWNN: DWNN domain; I 26.3 1.3E+02 0.0028 24.4 4.4 32 4-35 2-35 (74)
231 PF07939 DUF1685: Protein of u 26.2 48 0.001 26.2 1.8 31 382-412 1-43 (64)
232 PF09102 Exotox-A_target: Exot 25.6 1.3E+02 0.0029 26.6 4.6 38 297-334 46-96 (143)
233 COG1308 EGD2 Transcription fac 25.2 1.4E+02 0.0031 26.5 4.9 38 381-421 82-120 (122)
234 smart00266 CAD Domains present 25.1 2.2E+02 0.0048 23.2 5.5 47 21-72 19-67 (74)
235 PF11834 DUF3354: Domain of un 25.1 77 0.0017 25.3 2.9 42 21-73 26-69 (69)
236 COG1308 EGD2 Transcription fac 24.9 1.4E+02 0.003 26.7 4.6 35 173-210 85-120 (122)
237 cd07923 Gallate_dioxygenase_C 24.2 2.3E+02 0.0051 24.1 5.8 45 328-397 8-57 (94)
238 PRK14603 ruvA Holliday junctio 24.2 88 0.0019 29.8 3.6 27 171-200 151-177 (197)
239 COG4738 Predicted transcriptio 24.1 1E+02 0.0022 27.3 3.6 35 380-414 7-41 (124)
240 cd01817 RGS12_RBD Ubiquitin do 23.7 2.3E+02 0.005 23.0 5.4 47 5-54 4-52 (73)
241 PF04126 Cyclophil_like: Cyclo 23.6 48 0.001 29.0 1.6 29 1-30 1-29 (120)
242 PRK13901 ruvA Holliday junctio 23.3 90 0.0019 29.9 3.5 28 387-414 145-172 (196)
243 PF10440 WIYLD: Ubiquitin-bind 23.1 98 0.0021 24.6 3.1 21 387-407 12-32 (65)
244 PF06755 DUF1219: Protein of u 23.1 88 0.0019 27.4 3.0 27 398-424 43-69 (114)
245 PF07223 DUF1421: Protein of u 23.0 56 0.0012 34.2 2.2 18 388-405 323-340 (358)
246 KOG4842 Protein involved in si 22.7 23 0.0005 35.3 -0.6 60 9-72 11-70 (278)
247 KOG4147 Uncharacterized conser 22.7 1.7E+02 0.0037 25.7 4.7 59 16-74 28-112 (127)
248 PF02824 TGS: TGS domain; Int 22.7 2E+02 0.0043 21.8 4.7 59 3-73 1-59 (60)
249 cd01615 CIDE_N CIDE_N domain, 22.3 2.4E+02 0.0051 23.2 5.3 47 21-72 21-69 (78)
250 PF02505 MCR_D: Methyl-coenzym 22.2 1.6E+02 0.0034 27.3 4.7 43 13-62 77-120 (153)
251 PF03474 DMA: DMRTA motif; In 21.9 1.1E+02 0.0025 21.9 2.9 25 187-211 15-39 (39)
252 PF00276 Ribosomal_L23: Riboso 21.9 1.5E+02 0.0032 24.7 4.1 41 11-54 21-62 (91)
253 PLN02983 biotin carboxyl carri 21.6 2.8E+02 0.0062 28.0 6.7 28 53-81 115-142 (274)
254 PF14848 HU-DNA_bdg: DNA-bindi 21.3 2E+02 0.0043 25.2 5.0 37 172-214 31-69 (124)
255 COG3609 Predicted transcriptio 21.1 1.2E+02 0.0026 25.2 3.4 31 166-198 7-39 (89)
256 PF13487 HD_5: HD domain; PDB: 21.1 39 0.00084 25.9 0.5 35 318-352 8-42 (64)
257 PRK05738 rplW 50S ribosomal pr 21.0 2E+02 0.0044 24.0 4.8 41 10-53 20-61 (92)
258 PF13936 HTH_38: Helix-turn-he 21.0 61 0.0013 23.1 1.5 24 381-404 4-27 (44)
259 TIGR03260 met_CoM_red_D methyl 20.7 1.7E+02 0.0037 26.9 4.6 43 13-62 76-118 (150)
260 PF02961 BAF: Barrier to autoi 20.7 1.7E+02 0.0037 24.7 4.2 34 390-423 32-66 (89)
261 PF03333 PapB: Adhesin biosynt 20.6 1.3E+02 0.0028 25.5 3.5 41 164-216 16-56 (91)
262 cd06539 CIDE_N_A CIDE_N domain 20.4 2.2E+02 0.0049 23.4 4.7 63 3-73 5-70 (78)
263 PF12436 USP7_ICP0_bdg: ICP0-b 20.3 1.1E+02 0.0024 30.0 3.6 70 3-75 71-152 (249)
264 COG1026 Predicted Zn-dependent 20.2 2.6E+02 0.0057 33.1 6.9 40 273-341 410-449 (978)
No 1
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=2.9e-92 Score=691.54 Aligned_cols=338 Identities=59% Similarity=0.901 Sum_probs=270.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCCCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k~~ 80 (430)
|+|+||+++|.+|+|+|.+++||.++|++|+...|.+ +|+++|||||+||+|+|++++++|+|+++++|+||++|+|+.
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 014118 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPAPAPAPAPVSSVSDVYG 160 (430)
Q Consensus 81 ~~~~s~~~~~p~~~~~~~ssap~~t~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 160 (430)
.... ++. ++++. . . +..+.+|..+ .+....+++. ..++....++
T Consensus 80 ~t~~-----ap~------s~~~~-----~--~--p~~~~ap~~s------------~a~~~s~~~~----~~~~~~~~~~ 123 (340)
T KOG0011|consen 80 STQV-----APQ------SSAAT-----H--L--PKAAEAPPSS------------AAEDASPATP----AQTSQEDTYE 123 (340)
T ss_pred ccCC-----CCC------Ccccc-----C--C--CccCCCCCcc------------ccccCCCCcc----ccccccchhh
Confidence 1110 110 00010 0 0 0111111000 0000000000 0122234467
Q ss_pred ccccccccCcchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCCCCCCCCCccccccCCCCCCCCCCccc
Q 014118 161 QAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQTQ 240 (430)
Q Consensus 161 ~a~s~l~~g~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (430)
.+.++|++|+++|++|.+||+|| |+||+|+|||||||||||||||||++|||++...+.+...+++..
T Consensus 124 ~aas~Lv~G~~~e~~V~~Im~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~~~--------- 191 (340)
T KOG0011|consen 124 IAASTLVVGSEYEQTVQQIMEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAAAA--------- 191 (340)
T ss_pred hhhhhhhccchhHHHHHHHHHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCcccCC---------
Confidence 78999999999999999999999 999999999999999999999999999999876665432111100
Q ss_pred cCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCchHHhhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhHHHHHHHHHH
Q 014118 241 AQQPAAPAPTSGPNANPLDLFPQGLPNMGSNAGAGTLDFLRNSQQVSMMFYLFASLLFICDVFWYSYFRLLFQFQALRTM 320 (430)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~lf~~~~~~~~~~~~~~~l~~Lr~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~lR~~ 320 (430)
. .++ +.+|.++|++++.... +.++|+|||++| ||++||++
T Consensus 192 -----~-~p~---~~~p~~~~~~~~~~~~---~~~~l~fLr~~~----------------------------qf~~lR~~ 231 (340)
T KOG0011|consen 192 -----E-LPA---NAQPLDLFPQGAVEAS---GGDPLEFLRNQP----------------------------QFQQLRQM 231 (340)
T ss_pred -----C-CCC---CCChhhcCCccchhhh---cCCchhhhhccH----------------------------HHHHHHHH
Confidence 0 011 3367899988665433 348999999999 99999999
Q ss_pred HHhCccchhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCC-cccccChHHHHHHHHHHHcCCC
Q 014118 321 VQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMP-QAVTVTPEEREAIERLEAMGFD 399 (430)
Q Consensus 321 vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~-~~i~lt~ee~~aI~rL~~lGF~ 399 (430)
||+||++|++|||||+++||+|+|+|++||++||+|||++++|+++++.++.+..++ ++|+||+||.+||+|||+|||+
T Consensus 232 iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~~~~~~~~~~~~~~~~~~~~I~vtpee~eAIeRL~alGF~ 311 (340)
T KOG0011|consen 232 IQQNPELLHPLLQQLGKQNPQLLQLIQENQEAFLQLLNEPVEGGDGGGTGAPAAEGPGHQIQVTPEEKEAIERLEALGFP 311 (340)
T ss_pred HhhCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHhhcccccccccccccccccCCcceEecCHHHHHHHHHHHHhCCc
Confidence 999999999999999999999999999999999999999998866666676666666 7999999999999999999999
Q ss_pred hhHHHHHHHHcCCCHHHHHHHHhhcCCC
Q 014118 400 RALVLEVFFACNKNEELAANYLLDHMHE 427 (430)
Q Consensus 400 r~~viqAy~aCdkNe~~Aan~L~~~~~d 427 (430)
|.+|||||||||||||+||||||+++||
T Consensus 312 ralViqayfACdKNEelAAN~Ll~~~f~ 339 (340)
T KOG0011|consen 312 RALVIQAYFACDKNEELAANYLLSHSFE 339 (340)
T ss_pred HHHHHHHHHhcCccHHHHHHHHHhhccC
Confidence 9999999999999999999999999844
No 2
>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=1.6e-91 Score=713.92 Aligned_cols=364 Identities=45% Similarity=0.741 Sum_probs=257.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCCCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k~~ 80 (430)
|+|+||+++|++|.|+|++++||.+||++|+.+.|++.+++++|||||+||+|+|+++|++|||+++++|+||++|+|..
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 89999999999999999999999999999999988655899999999999999999999999999999999999998875
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccc
Q 014118 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPAPAPAPAPVSSVSDVYG 160 (430)
Q Consensus 81 ~~~~s~~~~~p~~~~~~~ssap~~t~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 160 (430)
++..+++..++.+++.++.+.+. +++....++|+.++. . +.+...+..++... +.+++ ......
T Consensus 81 ~~~~~~~~~~~~~~p~~~~~~~~----~~~~~~~~~~~~~~~----~-----~~~~~~~~~~~~~~--~~~~~-~~~~~~ 144 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTPSPPA----SPASGMSAAPASAVE----E-----KSPSEESATATAPE--SPSTS-VPSSGS 144 (378)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCc----c-----ccccCCCCCCCCCC--CCCcc-ccccCC
Confidence 33222111011000000000000 000000000000000 0 00000000000000 00000 001012
Q ss_pred ccccccccCcchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCCCCCCCCCccccccCCCCCCCCCCccc
Q 014118 161 QAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQTQ 240 (430)
Q Consensus 161 ~a~s~l~~g~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (430)
.+.|+||+|++||++|++||+|| |+|+||+|||||||||||||||||++|||++++...+ .+. +... .
T Consensus 145 ~~~s~l~~g~~~e~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~----~~~----~~~~-~ 212 (378)
T TIGR00601 145 DAASTLVVGSERETTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEP----VQQ----TAAS-T 212 (378)
T ss_pred CcccccccchHHHHHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCcccccccc----CCC----cccc-c
Confidence 46789999999999999999999 9999999999999999999999999999988652111 110 1000 0
Q ss_pred cCCCCCCCCCCCCCCCCCCCccCCCCCCC------CCCCCCchHHhhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhHHHH
Q 014118 241 AQQPAAPAPTSGPNANPLDLFPQGLPNMG------SNAGAGTLDFLRNSQQVSMMFYLFASLLFICDVFWYSYFRLLFQF 314 (430)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~lf~~~~~~~~------~~~~~~~l~~Lr~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f 314 (430)
. +...+++..+ |||++++.+.. .+.+.++|+|||++| ||
T Consensus 213 -----~-~~~~~~~~~~-~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~p----------------------------qf 257 (378)
T TIGR00601 213 -----A-AATTETPQHG-SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQP----------------------------QF 257 (378)
T ss_pred -----c-cccCCCCCCc-chhhhhhcccccccccccccCCchHHHhhcCH----------------------------HH
Confidence 0 0111222233 99999864321 112456899999999 99
Q ss_pred HHHHHHHHhCccchhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCC--CCCCcc---ccccc-CCCc--ccccChHH
Q 014118 315 QALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEG--GEGNVL---GQLAS-AMPQ--AVTVTPEE 386 (430)
Q Consensus 315 ~~lR~~vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~--~~g~~~---~~~~~-~~~~--~i~lt~ee 386 (430)
++||++||+||++|++|||||+++||+|+++|++||++||+|||+++++ ++++.. ++..+ ..+. .|+||+||
T Consensus 258 ~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE 337 (378)
T TIGR00601 258 QQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEE 337 (378)
T ss_pred HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcccccccccccccccccccccCcccccccccCHHH
Confidence 9999999999999999999999999999999999999999999998532 111111 11111 1112 69999999
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHhhcCCC
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMHE 427 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~~~~~d 427 (430)
++||+|||+|||+|++|||||||||||||+||||||++.+|
T Consensus 338 ~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~~~ 378 (378)
T TIGR00601 338 KEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQNFD 378 (378)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhcCC
Confidence 99999999999999999999999999999999999999876
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=99.79 E-value=1.3e-19 Score=139.46 Aligned_cols=50 Identities=60% Similarity=1.062 Sum_probs=47.1
Q ss_pred HHHHHHHHHHhCccchhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCC
Q 014118 313 QFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVE 362 (430)
Q Consensus 313 ~f~~lR~~vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~ 362 (430)
+|++||++||+||++|+++||+|+++||+|+++|++||++|++||+++.+
T Consensus 9 qf~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~ 58 (59)
T PF09280_consen 9 QFQQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNEPAE 58 (59)
T ss_dssp HHHHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHSTS-
T ss_pred HHHHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcCCCC
Confidence 99999999999999999999999999999999999999999999999754
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=99.75 E-value=4.5e-18 Score=135.94 Aligned_cols=73 Identities=27% Similarity=0.403 Sum_probs=71.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEec
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k 76 (430)
|+|+||+.+|+++.++|++++||++||++|+++.| +|+++|||+|+||+|+|+.+|++|||+++++|||+++.
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 99999999999999999999999999999999999873
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=99.73 E-value=1.9e-17 Score=132.56 Aligned_cols=75 Identities=55% Similarity=0.790 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCC--CCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVY--PASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~i--p~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||++.|+++.++|++++||.+||++|++..| + ++++|||+|+|++|+|+.+|++|||+++++|++++++++
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 999999999999999999999999999999999998764
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=99.72 E-value=2.4e-17 Score=133.78 Aligned_cols=74 Identities=22% Similarity=0.354 Sum_probs=70.3
Q ss_pred CEEEEEeCCCcE-EEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 1 MKVFVKTLKGTH-FEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 1 MkI~VKtl~gk~-~~Ie-V~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
|+|+||+++|++ +.++ +++++||.+||++|++..| +|+++|||+|+||+|+|+.+|++|||+++++|+|+++..
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 999999999999999999999999999999999999753
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=99.70 E-value=5e-17 Score=130.02 Aligned_cols=73 Identities=27% Similarity=0.369 Sum_probs=69.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||+. +++.++|++++||.+||++|+++.| +|+++|+|+|+||+|+|+++|++|+|+++++||++++.++
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 89999984 6899999999999999999999999 9999999999999999999999999999999999998754
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=99.70 E-value=4.2e-17 Score=130.88 Aligned_cols=71 Identities=18% Similarity=0.328 Sum_probs=68.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+||++.|+.+.++|++++||++||++|++..| +++++|||||+||+|+|+++|++|||+++++|||..
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 999999999999999999999999999999999863
No 9
>PTZ00044 ubiquitin; Provisional
Probab=99.69 E-value=8.4e-17 Score=128.64 Aligned_cols=75 Identities=28% Similarity=0.435 Sum_probs=72.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||+++|+++.++|++++||.+||++|++..| +|+++|||+|+|+.|+|+.+|++|+|+++++|||+++.++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~g 75 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG---IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRG 75 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
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=99.68 E-value=1.3e-16 Score=136.20 Aligned_cols=75 Identities=33% Similarity=0.546 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||+++|+++.++|++++||.+||++|++..| +|+++|||+|+||+|+|+.+|++|+|+++++|+|+++.++
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 9999999999999999999999999999999999998654
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=99.68 E-value=1.5e-16 Score=128.90 Aligned_cols=73 Identities=23% Similarity=0.407 Sum_probs=70.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
|+|+||+.+|+.+.++|+++.||.+||++|+++.+ +++++|||+|+||+|+|+ +|++|||+++++|+||.+..
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 89999999999999999999999999999999998 999999999999999999 99999999999999998753
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=99.67 E-value=3.6e-16 Score=124.24 Aligned_cols=75 Identities=36% Similarity=0.545 Sum_probs=72.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||+.+|+++.++|++++||.+||++|+...| +|+++|||+|+|+.|+|+++|++|+|+++++|||+++.+.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~g 75 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRG 75 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998643
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=99.66 E-value=2.5e-16 Score=125.95 Aligned_cols=73 Identities=22% Similarity=0.262 Sum_probs=69.9
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+||++.|+++.++|++++||.+||++|+...| +|+++|+|+|+||+|+|+++|++|||+++++|+++++..+
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~g 73 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER---VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRG 73 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999988653
No 14
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.66 E-value=3.7e-16 Score=124.21 Aligned_cols=75 Identities=37% Similarity=0.605 Sum_probs=72.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+||+.+|+.+.++|++++||.+||++|+...| +|+++|+|+|+|+.|+|+++|++|||+++++|+|+++.++
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~g 75 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
No 15
>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=99.66 E-value=2.3e-16 Score=128.14 Aligned_cols=74 Identities=28% Similarity=0.401 Sum_probs=71.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE--EeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL--Iy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
|+|+||++.|+++.++|+++.||.+||++|++..| +++++||| +|+|++|+|+++|++|||+++++|+|+++|-
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 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=99.65 E-value=3e-16 Score=124.84 Aligned_cols=70 Identities=27% Similarity=0.458 Sum_probs=67.1
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
++||.++|+++.++|++++||.+||.+|++..| +|+++|||+|+||+|+|+.+|++|+|+++++|||++.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~~ 70 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIVN 70 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEeC
Confidence 468999999999999999999999999999999 9999999999999999999999999999999999973
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=99.65 E-value=6.1e-16 Score=121.69 Aligned_cols=72 Identities=36% Similarity=0.459 Sum_probs=69.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
|+|+||+++|+++.+++++++||.+||++|+...| +|++.|+|+|+|++|+|+++|++|||+++++|||+.+
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
>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=99.65 E-value=3.8e-16 Score=127.06 Aligned_cols=73 Identities=21% Similarity=0.207 Sum_probs=64.8
Q ss_pred CEEEEEeCCCcE--EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcc--cCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTH--FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENK--VAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~--~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdyg--I~e~stI~vmv 74 (430)
|+|+||+.+|++ |.+++++++||.+||++|+...+.. +++++|||||+||+|+|+.+|++|+ ++++.+|||++
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 589999999999 4555689999999999999987521 5689999999999999999999996 99999999986
No 19
>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=99.64 E-value=4.2e-16 Score=123.18 Aligned_cols=70 Identities=30% Similarity=0.546 Sum_probs=67.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
|+||++.|+++.++|++++||.+||++|+++.| +|+++|+|+|+||.|+|+.+|++|||+++++|||+.|
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 20
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.64 E-value=1.8e-15 Score=156.85 Aligned_cols=76 Identities=29% Similarity=0.440 Sum_probs=70.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCCCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k~~ 80 (430)
++|+||+.++ ++.|.|..+.||++||++|...++ +++++++|||+||+|||++||..|||++|.|||||++....+
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~---a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~~ 91 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFG---APPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPRP 91 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcC---CChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCCC
Confidence 5799999998 899999999999999999999998 899999999999999999999999999999999998755433
No 21
>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=99.63 E-value=8.8e-16 Score=121.74 Aligned_cols=71 Identities=32% Similarity=0.428 Sum_probs=67.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
|+|+||+.+|+ +.+++++++||.+||++|++..| ++.++|+|+|+||+|+|+++|++|||+++++|||+++
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 22
>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=99.61 E-value=1.4e-15 Score=119.03 Aligned_cols=69 Identities=38% Similarity=0.603 Sum_probs=66.1
Q ss_pred EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 6 Ktl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
|+++|+.|.++|++++||.+||++|+...+ +|++.|+|+|+|++|+|+.+|++|||+++++|+|+++++
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 688999999999999999999999999999 999999999999999999999999999999999998753
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=99.60 E-value=2.9e-15 Score=120.41 Aligned_cols=70 Identities=29% Similarity=0.414 Sum_probs=67.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe---CCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy---~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|| ++|++|.|+|++++||.+||++|++.+| +|+++|||+| +||+|+|+.+|++|+|+++++|+||.
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 8999999999999999999999999999 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=99.57 E-value=5.8e-15 Score=117.48 Aligned_cols=67 Identities=34% Similarity=0.450 Sum_probs=64.1
Q ss_pred EEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCc-CchhhcccCCCcEEEE
Q 014118 3 VFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDV-TTLEENKVAENSFVVV 72 (430)
Q Consensus 3 I~VKtl-~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd-~tLsdygI~e~stI~v 72 (430)
|+||+. +|+++.++|++++||.+||.+|+++.| +|+++|||+|+||.|+|+ .+|++|||+++++||+
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence 689999 999999999999999999999999999 999999999999999987 6899999999999987
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=99.54 E-value=1.8e-14 Score=113.30 Aligned_cols=70 Identities=29% Similarity=0.421 Sum_probs=67.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+||+. |+.+.++|++++||.+||++|+..+| +|+++|||+|+|+.|.|+++|++|||++|++|+||.
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 88999999999999999999999999 999999999999999999999999999999999984
No 26
>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=99.52 E-value=3.1e-14 Score=114.55 Aligned_cols=68 Identities=26% Similarity=0.396 Sum_probs=65.1
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 8 l~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
++|+++.++|++++||.+||.+|+...| +|+++|+|+|+|++|+|+++|++|+|+++++|+|+++.+.
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 5789999999999999999999999999 9999999999999999999999999999999999998755
No 27
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=1.7e-14 Score=110.04 Aligned_cols=70 Identities=36% Similarity=0.548 Sum_probs=68.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
|.|.||+++|+.+.|++++.++|..+|++|+++.| +|+.+|||||.||.+.|+++-++|++.-|+++|++
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 99999999999999999999999999999999974
No 28
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.43 E-value=2.1e-14 Score=121.46 Aligned_cols=76 Identities=37% Similarity=0.583 Sum_probs=73.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKV 79 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k~ 79 (430)
|+++++++.|++++++|++++||..||.+|....| +|++.|+|||+||+|+|..||++|||...++||++.+.++.
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 99999999999999999999999999999999999988775
No 29
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.42 E-value=5.1e-13 Score=101.93 Aligned_cols=64 Identities=42% Similarity=0.649 Sum_probs=61.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCc
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS 68 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~s 68 (430)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| +++++|+|+|+|+.|.|+++|++|||++++
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 7899999999999999999999999 999999999999999999999999999875
No 30
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.40 E-value=2.4e-13 Score=122.25 Aligned_cols=79 Identities=34% Similarity=0.540 Sum_probs=75.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCCCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k~~ 80 (430)
|+|+|+++.++++.++|..++||..+|.+|+...| ||+++|||||.|+.|+|+.+|+||+|+..++|||+++.++..
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 999999999999999999999999999999999999987765
Q ss_pred CC
Q 014118 81 SS 82 (430)
Q Consensus 81 ~~ 82 (430)
..
T Consensus 78 kk 79 (156)
T KOG0004|consen 78 KK 79 (156)
T ss_pred cc
Confidence 43
No 31
>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=99.40 E-value=1.7e-12 Score=107.29 Aligned_cols=75 Identities=16% Similarity=0.265 Sum_probs=71.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecCC
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~k 78 (430)
|+|+|++.+|+.+.+.|.+++||..||++++++.| +++++|||+|+|+.|+|+.|+.+|+|+++++|+|+++..+
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 9999999999999999999999999999999999988654
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=99.38 E-value=6.2e-13 Score=107.15 Aligned_cols=55 Identities=25% Similarity=0.237 Sum_probs=49.3
Q ss_pred CCCcHHHHHHHHHHHhCCCCC-CCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 19 PEDKVSDVKKNIETVQGSDVY-PASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 19 ~s~TV~dLK~kI~~~~g~~~i-p~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||+++++|||+.
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 4689999999999996422 5 58999999999999999999999999999999985
No 33
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=99.31 E-value=3.2e-12 Score=109.95 Aligned_cols=77 Identities=17% Similarity=0.236 Sum_probs=64.1
Q ss_pred EEEEEeCCCcEE-EEEeCCCCcHHHHHHHHHHHhCC--CCCC--CCCcEEEeCCeecCCcCchhhcc------cCCCcEE
Q 014118 2 KVFVKTLKGTHF-EIEVKPEDKVSDVKKNIETVQGS--DVYP--ASQQMLIHQGKVLKDVTTLEENK------VAENSFV 70 (430)
Q Consensus 2 kI~VKtl~gk~~-~IeV~~s~TV~dLK~kI~~~~g~--~~ip--~~~QkLIy~GKiL~Dd~tLsdyg------I~e~stI 70 (430)
.|.+|..+|..+ ...+.+++||.+||++|++..++ ..+| +++|||||+||+|+|++||++|+ +....++
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 578887788654 56788999999999999977642 2245 99999999999999999999999 7777899
Q ss_pred EEEEecCC
Q 014118 71 VVMLTKSK 78 (430)
Q Consensus 71 ~vmv~k~k 78 (430)
||+++.+.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99987544
No 34
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.26 E-value=1.8e-11 Score=94.57 Aligned_cols=68 Identities=43% Similarity=0.663 Sum_probs=64.4
Q ss_pred EEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 4 FVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 4 ~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
+||..+|+.+.++++++.||.+||++|+..+| +++++|+|+|+||.|+|+.+|.+|+|++++.|+|+.
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 47888899999999999999999999999999 999999999999999999999999999999999875
No 35
>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=99.21 E-value=3.3e-11 Score=97.27 Aligned_cols=65 Identities=18% Similarity=0.274 Sum_probs=59.0
Q ss_pred EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecC-CcCchhhcccC-CCcEEEEEE
Q 014118 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK-DVTTLEENKVA-ENSFVVVML 74 (430)
Q Consensus 6 Ktl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~-Dd~tLsdygI~-e~stI~vmv 74 (430)
|...|+++.++|++++||.+||.+|+.+.| +|++.||| |+|+.|. |+++|++|||+ +|+++|+.+
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 444688999999999999999999999999 99999999 9999995 67999999999 789999865
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=99.13 E-value=1.9e-10 Score=90.90 Aligned_cols=71 Identities=24% Similarity=0.391 Sum_probs=65.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|++.+|+.+.+.|.++++|..|++++++..| ++. +.++|+|.|+.|.+++|+++|||+++++|.|++
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 999999999999999999999999999999975
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=98.96 E-value=1.5e-09 Score=91.38 Aligned_cols=63 Identities=21% Similarity=0.237 Sum_probs=57.6
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCC-cCchhhcccCCCcEEEEEEecC
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD-VTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~D-d~tLsdygI~e~stI~vmv~k~ 77 (430)
...++|++++||++||.+|...++ +++.+|||+|.|+.|.| .+||++|||..++.|+|.+..+
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~---V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP 79 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFS---VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEP 79 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhc---CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCC
Confidence 457889999999999999999999 99999999999999965 6899999999999999997543
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=98.95 E-value=1.2e-09 Score=76.31 Aligned_cols=36 Identities=50% Similarity=0.723 Sum_probs=33.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHH
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYL 210 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL 210 (430)
.++.|++|++|| |++++|++||+++.||.|+||+||
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
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.89 E-value=1.1e-08 Score=88.56 Aligned_cols=76 Identities=20% Similarity=0.285 Sum_probs=56.4
Q ss_pred EEEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCC----CCCCCCcEEEeCCeecCCcCchhhcccCCCc------EE
Q 014118 2 KVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSD----VYPASQQMLIHQGKVLKDVTTLEENKVAENS------FV 70 (430)
Q Consensus 2 kI~VKtl~gk-~~~IeV~~s~TV~dLK~kI~~~~g~~----~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~s------tI 70 (430)
.|+++..+|+ +-.+.+++++||.+||++|......+ ...++.+||||.||+|+|+++|++|++..++ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 5778888998 77889999999999999999876543 1235678999999999999999999988766 56
Q ss_pred EEEEecC
Q 014118 71 VVMLTKS 77 (430)
Q Consensus 71 ~vmv~k~ 77 (430)
||+++..
T Consensus 84 Hlvvrp~ 90 (111)
T PF13881_consen 84 HLVVRPN 90 (111)
T ss_dssp EEEE-SS
T ss_pred EEEecCC
Confidence 6666543
No 40
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.84 E-value=2.4e-08 Score=76.36 Aligned_cols=72 Identities=39% Similarity=0.585 Sum_probs=68.1
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
+++++..|+.+.+.+.+..+|..+|.+|....| ++.++|+|++.|+.|.|+.+|.+|+|..++++++..+.+
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 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=98.81 E-value=2.1e-08 Score=82.52 Aligned_cols=71 Identities=25% Similarity=0.316 Sum_probs=59.7
Q ss_pred EEEEEeCC-CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE-EeCCe-----ec-CCcCchhhcccCCCcEEEEE
Q 014118 2 KVFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGK-----VL-KDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 2 kI~VKtl~-gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL-Iy~GK-----iL-~Dd~tLsdygI~e~stI~vm 73 (430)
+|.|+... ....+..+++++||.+||++|+..+| ++++.||| +|.|+ .| +|+++|++||+++|..|||+
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 56777543 33455669999999999999999999 99999999 58998 46 67889999999999999998
Q ss_pred Ee
Q 014118 74 LT 75 (430)
Q Consensus 74 v~ 75 (430)
-.
T Consensus 80 D~ 81 (84)
T cd01789 80 DV 81 (84)
T ss_pred eC
Confidence 53
No 42
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=6.5e-09 Score=115.65 Aligned_cols=70 Identities=26% Similarity=0.400 Sum_probs=67.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
.|+|||++.++.+|.|...+||++||..|..+.+ |+.+.|||||.|++|.|+|++.+|+| +|.+|||+-|
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 8999999977
No 43
>PLN02560 enoyl-CoA reductase
Probab=98.74 E-value=2.7e-08 Score=100.33 Aligned_cols=70 Identities=33% Similarity=0.440 Sum_probs=62.1
Q ss_pred CEEEEEeCCCcEE---EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC---C----eecCCcCchhhcccCCCcEE
Q 014118 1 MKVFVKTLKGTHF---EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G----KVLKDVTTLEENKVAENSFV 70 (430)
Q Consensus 1 MkI~VKtl~gk~~---~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~---G----KiL~Dd~tLsdygI~e~stI 70 (430)
|+|+|+..+|+.+ +|+++++.||++||++|+++.+. +++++|||++. | +.|+|+++|++||++++++|
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 8999998888887 79999999999999999999872 47999999982 4 48999999999999999987
Q ss_pred EE
Q 014118 71 VV 72 (430)
Q Consensus 71 ~v 72 (430)
++
T Consensus 79 y~ 80 (308)
T PLN02560 79 VF 80 (308)
T ss_pred EE
Confidence 76
No 44
>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=98.72 E-value=2.2e-08 Score=69.88 Aligned_cols=37 Identities=51% Similarity=0.788 Sum_probs=35.2
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 173 e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
++.|++|++|| |+|++|++||+++.||.++|++||+.
T Consensus 2 ~~~v~~L~~mG---f~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMG---FSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 57899999999 99999999999999999999999973
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=98.67 E-value=2.9e-08 Score=68.92 Aligned_cols=37 Identities=51% Similarity=0.791 Sum_probs=35.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHH
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~ 211 (430)
+++.|++|++|| |++++|++||+.+.||.++|++||+
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
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.61 E-value=1.4e-07 Score=77.76 Aligned_cols=73 Identities=23% Similarity=0.318 Sum_probs=58.6
Q ss_pred CEEEEEeCCC--cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC----Ce---ec-CCcCchhhcccCCCcEE
Q 014118 1 MKVFVKTLKG--THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GK---VL-KDVTTLEENKVAENSFV 70 (430)
Q Consensus 1 MkI~VKtl~g--k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~----GK---iL-~Dd~tLsdygI~e~stI 70 (430)
++|+|..... +..+..++.++||.+||.+|+..+| ++++.|+|.|. +. .| +|+++|.+||+++|..|
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~G---i~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i 78 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTG---IPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRI 78 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHT---S-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhC---CCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEE
Confidence 3677776654 4788999999999999999999999 99999999776 11 24 56899999999999999
Q ss_pred EEEEec
Q 014118 71 VVMLTK 76 (430)
Q Consensus 71 ~vmv~k 76 (430)
||.=..
T Consensus 79 ~V~D~~ 84 (87)
T PF14560_consen 79 HVVDTN 84 (87)
T ss_dssp EEEE-T
T ss_pred EEEeCC
Confidence 998543
No 47
>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=1.1e-07 Score=76.63 Aligned_cols=69 Identities=23% Similarity=0.253 Sum_probs=55.1
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCcEE--EeCCeecCCcCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLK-GTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~-gk~~~IeV~-~s~TV~dLK~kI~~~~g~~~ip~~~QkL--Iy~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
.|.++... .....++++ ++.||.+||+.|+...+. +++++||| ++.|++|.|+.+|.+|||+++++|+|
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 789999999999988652 67899988 58999999999999999999998876
No 48
>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=98.59 E-value=7.9e-08 Score=67.09 Aligned_cols=37 Identities=38% Similarity=0.532 Sum_probs=35.0
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHhh
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLLD 423 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~~ 423 (430)
.+.|++|++|||+++.|++|+.+|++|.+.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 3579999999999999999999999999999999985
No 49
>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=98.58 E-value=8.9e-08 Score=66.87 Aligned_cols=36 Identities=39% Similarity=0.641 Sum_probs=33.2
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHH
Q 014118 386 EREAIERLEAMGFDRALVLEVFFACNKNEELAANYL 421 (430)
Q Consensus 386 e~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L 421 (430)
+.+.|++|++|||+++.|++|+.+|++|.+.|++||
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 457899999999999999999999999999999998
No 50
>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=98.58 E-value=1.8e-07 Score=80.75 Aligned_cols=73 Identities=22% Similarity=0.279 Sum_probs=60.9
Q ss_pred CEEEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhccc-------CCCcEEEE
Q 014118 1 MKVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKV-------AENSFVVV 72 (430)
Q Consensus 1 MkI~VKtl-~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI-------~e~stI~v 72 (430)
|-++++-. +..++.+++.++.||.+||++|+.... .|+++|+|+..+.+|+|++||+|||+ ....+|-+
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 44455443 334577899999999999999999998 99999999977889999999999999 55778888
Q ss_pred EEec
Q 014118 73 MLTK 76 (430)
Q Consensus 73 mv~k 76 (430)
.+|+
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 8775
No 51
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.54 E-value=1.2e-07 Score=65.82 Aligned_cols=36 Identities=47% Similarity=0.629 Sum_probs=34.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHh
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLL 422 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~ 422 (430)
.++|++|++|||+++.|++|+..|++|.+.|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 467999999999999999999999999999999997
No 52
>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=98.37 E-value=1.9e-06 Score=62.10 Aligned_cols=67 Identities=31% Similarity=0.457 Sum_probs=60.6
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 5 VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+..++....+.+....||.+||++|..+.| ++++.++|+++|+.+.+...+.+|++.+++.|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG---LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC---cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 4444688888999999999999999999999 889999999999999999999999999999999874
No 53
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.27 E-value=1.6e-06 Score=70.92 Aligned_cols=69 Identities=28% Similarity=0.359 Sum_probs=43.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC---Ceec--CCcCchhhcccCCCcEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---GKVL--KDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~---GKiL--~Dd~tLsdygI~e~stI~vm 73 (430)
|-|.||+.+| .+.|++++++||.+||++|.+..+ ++...|.|..+ .+.| .++++|+++||+.|+.|+|-
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 6788998777 678999999999999999999999 88888888532 1244 46899999999999999873
No 54
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=6.9e-06 Score=85.81 Aligned_cols=72 Identities=22% Similarity=0.367 Sum_probs=66.4
Q ss_pred EEEEEeCCCcEEEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 2 KVFVKTLKGTHFEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 2 kI~VKtl~gk~~~Ie-V~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
.|.|| +.|+.|.++ ++.++|+..||.++...+| +++++||++++|+.|+|+-.+..++|+++.+|+||.+.-
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 899999988 9999999999999999999 999999999999999999999999999999999997643
No 55
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=1.2e-05 Score=80.31 Aligned_cols=72 Identities=28% Similarity=0.391 Sum_probs=63.1
Q ss_pred CEEEEEeC---CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 1 MKVFVKTL---KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 1 MkI~VKtl---~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
|.+.|+.. .-..+.|+|+.+.+|.+||+.++.+.| +|+++.|+||.||.|.|+.++..+.+...+.+|+|.-
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~g---vp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~l 75 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQG---VPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLL 75 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhC---CChhheEEEEeccccccCceeecccccccchhhhhcc
Confidence 66777754 234578999999999999999999999 9999999999999999999999988888888998843
No 56
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=97.90 E-value=6.4e-05 Score=60.45 Aligned_cols=71 Identities=18% Similarity=0.309 Sum_probs=62.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC---C--eecCCcCchhhcccCCCcEEEEEEe
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G--KVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~---G--KiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
++|+||-+.+..+.+.|+|..+|..||++|....| ++ ..|||-|. | ..|.+..+|.+|||-.+..|.|+-.
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 59999874 3 3578999999999998888888754
No 57
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=8.7e-06 Score=63.59 Aligned_cols=69 Identities=19% Similarity=0.308 Sum_probs=60.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
.+.+...-|++..|.+.+++||+++|+.|+.++| -.++..+|---+.+++|+-+|++|.|++|-.+.+.
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 4666777899999999999999999999999999 66788888766778999999999999999877654
No 58
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.53 E-value=0.0011 Score=69.46 Aligned_cols=59 Identities=20% Similarity=0.148 Sum_probs=50.2
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 14 EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 14 ~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
.++.+...|-.+|..+|.++.| ++....|.|-+||+|.-.+||.+-|++.+-.+.|++.
T Consensus 53 l~k~sL~i~Gselqa~iakklg---i~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLG---IKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhhcccccccHHHHHHHHHHcC---CchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 3455666778899999999999 8888999999999999999999999988776666554
No 59
>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=97.41 E-value=0.00036 Score=59.22 Aligned_cols=61 Identities=16% Similarity=0.213 Sum_probs=47.0
Q ss_pred EEEEEeCCC-cEEEEEeC--CCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcc
Q 014118 2 KVFVKTLKG-THFEIEVK--PEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENK 63 (430)
Q Consensus 2 kI~VKtl~g-k~~~IeV~--~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdyg 63 (430)
.|+||..++ ..+.++|. .+.||..||..|.+..+.+ ..-.++||||+||+|.|+..|+..-
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~-~s~~rLRlI~~Gr~L~d~t~l~~~l 65 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPE-PSRRRLRLIYAGRLLNDHTDLSSEL 65 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCC-CccccEEeeecCcccCccchhhhhh
Confidence 366775552 34667777 7899999999999998432 5567889999999999998887643
No 60
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.39 E-value=0.00025 Score=59.67 Aligned_cols=59 Identities=22% Similarity=0.313 Sum_probs=48.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe-CC-eecCCcCchhhcccC
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG-KVLKDVTTLEENKVA 65 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy-~G-KiL~Dd~tLsdygI~ 65 (430)
|.||. ...++.++.+++.||-+||.+++.... -|++.|||+. .- .+|+|.++|+|||+.
T Consensus 5 ~~VrR-~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 5 LRVRR-HKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred eeeee-cceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhcccc
Confidence 44442 344678899999999999999999988 8999999976 33 678999999999874
No 61
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.22 E-value=3.1e-05 Score=77.89 Aligned_cols=78 Identities=21% Similarity=0.224 Sum_probs=59.9
Q ss_pred EEEEEeCCCc--EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCC--CcEEEEEEecC
Q 014118 2 KVFVKTLKGT--HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAE--NSFVVVMLTKS 77 (430)
Q Consensus 2 kI~VKtl~gk--~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e--~stI~vmv~k~ 77 (430)
.+.||..+.+ ...|..+..+||++||..++..+..+ --..+|||||+||.|.|+..|+|.-+|. ..++||++..+
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 45677788999999999999988654 3357999999999999999999986654 45777777655
Q ss_pred CCC
Q 014118 78 KVS 80 (430)
Q Consensus 78 k~~ 80 (430)
...
T Consensus 90 ~v~ 92 (391)
T KOG4583|consen 90 EVV 92 (391)
T ss_pred CCC
Confidence 443
No 62
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.0033 Score=53.36 Aligned_cols=73 Identities=14% Similarity=0.237 Sum_probs=64.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEecC
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k~ 77 (430)
+|+|+.-++....+.|..+.....|++.-++..| +.....|++|+|+.+.+.+|=.++++++++.|-++...-
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~G---l~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~ 94 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQG---LSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQT 94 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcC---CccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecc
Confidence 4666665566778899999999999999999999 889999999999999999999999999999999986543
No 63
>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=97.12 E-value=0.00058 Score=70.99 Aligned_cols=41 Identities=32% Similarity=0.480 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHhhcC
Q 014118 385 EEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHM 425 (430)
Q Consensus 385 ee~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~~~~ 425 (430)
+-.+.|++|++|||+|++|..|.+|+-.|.+.|+.||+..-
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGI 195 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGI 195 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCC
Confidence 44567999999999999999999999999999999999753
No 64
>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=97.06 E-value=0.00098 Score=47.71 Aligned_cols=39 Identities=33% Similarity=0.401 Sum_probs=35.3
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 172 LEATVQQILDM--GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 172 ~e~~V~~i~eM--G~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
+++.|+.|.+| . |+++.++++|++..+|.|+||++|+.|
T Consensus 1 ~~~~v~~L~~mFP~---~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 1 REEMVQQLQEMFPD---LDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp CHHHHHHHHHHSSS---S-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 36889999999 7 999999999999999999999999865
No 65
>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=97.04 E-value=0.0012 Score=53.41 Aligned_cols=71 Identities=18% Similarity=0.271 Sum_probs=50.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CcEEE-eCCeecCCcCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQMLI-HQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~---~QkLI-y~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
+|+|...+|+.+.+.+..+.+|.+|...|....+....... ..+|. -+|..|.++++|.++||.+|+.+++
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 57777655688999999999999999999998773212222 35776 7899999999999999999999986
No 66
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.00053 Score=74.58 Aligned_cols=43 Identities=40% Similarity=0.652 Sum_probs=40.0
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCCC
Q 014118 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIP 215 (430)
Q Consensus 170 ~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~GIP 215 (430)
+..|+.|..|++|| |.|.|++.||++..||++|||+|+++-+=
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 45689999999999 99999999999999999999999998844
No 67
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.92 E-value=0.0032 Score=50.74 Aligned_cols=71 Identities=11% Similarity=0.239 Sum_probs=57.8
Q ss_pred EEEE--EeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC--CCcEEEeCCeecCCcCchhhcccCCCcEEEE
Q 014118 2 KVFV--KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA--SQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~V--Ktl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~--~~QkLIy~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
+|+| +...|++|.+.++...+|+.|-..+.+...-+-.+. ..+|..-++++|.++..|.+|+|.+|+.+.+
T Consensus 6 kVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 6 KVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 4444 677899999999999999999988887765331222 3568899999999999999999999998875
No 68
>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=96.69 E-value=0.011 Score=47.69 Aligned_cols=68 Identities=22% Similarity=0.299 Sum_probs=57.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-cEEE--eCCeecCCc--CchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLI--HQGKVLKDV--TTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~-QkLI--y~GKiL~Dd--~tLsdygI~e~stI~v 72 (430)
+|.||..+|+.+.-.+..++||.+|...|..... .+... .+|+ |-.+.|.++ ++|+++|+..+.+|+|
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 6899999999999999999999999999998876 33443 6775 677888643 6999999999988876
No 69
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.58 E-value=0.015 Score=47.09 Aligned_cols=68 Identities=13% Similarity=0.135 Sum_probs=55.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCC---cCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~D---d~tLsdygI~e~stI~v 72 (430)
+|.||..+|+.+...+..++||.+|.+.|....+ ......+|+ |-.|.|.+ +++|.++|+....+|+|
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 444566775 67788864 47999999988887765
No 70
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.54 E-value=0.0044 Score=59.11 Aligned_cols=64 Identities=25% Similarity=0.393 Sum_probs=55.3
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCc--EEEEEEe
Q 014118 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS--FVVVMLT 75 (430)
Q Consensus 9 ~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~s--tI~vmv~ 75 (430)
.++.|.+.+...+||.++|.++....| +.+-.|+++|+|++|.|...|..|+|..+. +|-++|.
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVl 220 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVL 220 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEEEEec
Confidence 456788888899999999999999999 668899999999999999999999999994 4444443
No 71
>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=96.32 E-value=0.03 Score=44.90 Aligned_cols=67 Identities=28% Similarity=0.392 Sum_probs=53.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCC---cCchhhcccCCCcEEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVVM 73 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~D---d~tLsdygI~e~stI~vm 73 (430)
+|.||..+|+.+...+..++||.+|.+-|..... .....+|+ |-.|.|.| +++|+++|+. .+.+.+.
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~----~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~~ 75 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP----PAEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQR 75 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC----CCCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEEE
Confidence 6899999999999999999999999999976654 24556675 56788854 7899999999 4555543
No 72
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.23 E-value=0.0095 Score=58.31 Aligned_cols=70 Identities=17% Similarity=0.212 Sum_probs=54.3
Q ss_pred CEEEEEeCCCc-EEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE----EeCCeecCCcCchhhcccCCCcEEEE
Q 014118 1 MKVFVKTLKGT-HFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQML----IHQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 1 MkI~VKtl~gk-~~~-IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL----Iy~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
|+|+++..++. ..+ .+.+.+.||.|++++|..+..+ +.+.++|+ --+||.|.|+.+|++|+...+.+|+|
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k--~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLK--ITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhc--cCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 88999887663 333 6778889999999888877654 55544433 45799999999999999999977765
No 73
>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=96.11 E-value=0.039 Score=44.94 Aligned_cols=67 Identities=22% Similarity=0.341 Sum_probs=53.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCC-cCchhhcccCCCcEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENSFVV 71 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~D-d~tLsdygI~e~stI~ 71 (430)
+|.||..+|+.+...+..++||.+|.+.|....+. .......|+ |=.|.|.| ++||+|.|+.+ +.|+
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 68999999999999999999999999999987642 123456675 66888855 78999999985 4443
No 74
>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=96.05 E-value=0.045 Score=44.39 Aligned_cols=67 Identities=19% Similarity=0.358 Sum_probs=55.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCC---cCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~D---d~tLsdygI~e~stI~v 72 (430)
+|.||..+|+.+...+..++||.+|.+.|....+ . ....+|+ |-.|.+.+ ++||.++|+....+|+|
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 6899999999998899999999999999986654 1 2556775 77888863 58999999998887776
No 75
>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=96.04 E-value=0.024 Score=44.76 Aligned_cols=63 Identities=17% Similarity=0.210 Sum_probs=46.5
Q ss_pred eCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEE
Q 014118 7 TLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 7 tl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
..+++.+.|.|.++.++.++-+..+.++| +..++-.|.|++|.|+-+.++.-.|+.+|..+.+
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 46788999999999999999999999999 8889999999999999999999999999988764
No 76
>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=95.96 E-value=0.018 Score=41.20 Aligned_cols=39 Identities=26% Similarity=0.406 Sum_probs=36.1
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 172 LEATVQQILDM--GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 172 ~e~~V~~i~eM--G~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
.++.|..|.+| . ++++.|++.|++..||.|+|++.|+.|
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 7 899999999999999999999999876
No 77
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=95.66 E-value=0.011 Score=41.93 Aligned_cols=32 Identities=50% Similarity=0.673 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhCccchhHHHHHHhhhCHHHHHHH
Q 014118 311 LFQFQALRTMVQANPQILQPMLQELGKQNPHLMRLI 346 (430)
Q Consensus 311 ~~~f~~lR~~vq~nP~lL~~~lqqi~~~nP~l~~lI 346 (430)
.|+|+++.+-+++||+++..+++. ||+++++|
T Consensus 10 ~P~~~~~l~~~~~nP~~~~~~~~~----nP~~~~~i 41 (41)
T smart00727 10 NPQVQSLLQDMQQNPDMLAQMLQE----NPQLLQLI 41 (41)
T ss_pred CHHHHHHHHHHHHCHHHHHHHHHh----CHHhHhhC
Confidence 569999999999999998887766 99998765
No 78
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.62 E-value=0.015 Score=54.66 Aligned_cols=46 Identities=26% Similarity=0.296 Sum_probs=43.5
Q ss_pred ccccCcchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 165 NLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 165 ~l~~g~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
.+..+..+.+.|.+|.+|| |+|+.++.+|+-+.-|..+|.|+|++|
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 3778889999999999999 999999999999999999999999986
No 79
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.59 E-value=0.08 Score=48.97 Aligned_cols=76 Identities=18% Similarity=0.240 Sum_probs=55.3
Q ss_pred CEEEEEeCCC----cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCc-EEEe-CCeec--CCcCchhhcccCCCc----
Q 014118 1 MKVFVKTLKG----THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQ-MLIH-QGKVL--KDVTTLEENKVAENS---- 68 (430)
Q Consensus 1 MkI~VKtl~g----k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~Q-kLIy-~GKiL--~Dd~tLsdygI~e~s---- 68 (430)
|+|.|+++.| .++.+.+..+.||.+|+.+|....+ ++...+ .|.+ .++.| .++..++++.-...+
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 5888999999999999999999998 766663 3444 34444 566677777544332
Q ss_pred EEEEEEecCCC
Q 014118 69 FVVVMLTKSKV 79 (430)
Q Consensus 69 tI~vmv~k~k~ 79 (430)
+|+|.++..+.
T Consensus 78 ~l~l~~rl~GG 88 (162)
T PF13019_consen 78 TLRLSLRLRGG 88 (162)
T ss_pred EEEEEEeccCC
Confidence 45666665443
No 80
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=95.55 E-value=0.017 Score=61.63 Aligned_cols=43 Identities=26% Similarity=0.392 Sum_probs=38.8
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCC-CHHHHHHHHhhcCCCCC
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNK-NEELAANYLLDHMHEFE 429 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdk-Ne~~Aan~L~~~~~d~~ 429 (430)
+-+|++|.+|||+...+..|.++-.. +.|-|-||||++|.|-|
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPd 602 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPD 602 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcc
Confidence 45799999999999999999999876 89999999999988754
No 81
>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=95.24 E-value=0.13 Score=42.56 Aligned_cols=68 Identities=16% Similarity=0.162 Sum_probs=55.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC--eecC--------CcCchhhcccCCCcEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK--------DVTTLEENKVAENSFV 70 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G--KiL~--------Dd~tLsdygI~e~stI 70 (430)
.+|.||..+|+.+.-.+..++||.+|...|.. .+ ..++...|+++= |+|. .+.||++.||....+|
T Consensus 5 ~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~---~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 5 VKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK---ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC---CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence 37899999999998899999999999999964 34 446788888654 7885 3679999999987777
Q ss_pred EE
Q 014118 71 VV 72 (430)
Q Consensus 71 ~v 72 (430)
+|
T Consensus 81 ~V 82 (85)
T cd01774 81 FV 82 (85)
T ss_pred EE
Confidence 65
No 82
>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=95.00 E-value=0.19 Score=41.47 Aligned_cols=68 Identities=19% Similarity=0.356 Sum_probs=58.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecC---CcCchhhcccCCCcEEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK---DVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~---Dd~tLsdygI~e~stI~vm 73 (430)
+|.||..+|+...-.+..++++.+|-..|.. .| .+.+..+|+ |=-|+|. .+.||.+.|+....+|+|-
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 6899999999999999999999999999988 56 677888887 5577773 3589999999999888874
No 83
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=94.99 E-value=0.057 Score=51.66 Aligned_cols=70 Identities=19% Similarity=0.221 Sum_probs=54.9
Q ss_pred EEEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE-EeCC-----eecC-CcCchhhcccCCCcEEEEE
Q 014118 2 KVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQG-----KVLK-DVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 2 kI~VKtl~gk-~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL-Iy~G-----KiL~-Dd~tLsdygI~e~stI~vm 73 (430)
+|.|.+...+ .+......+.||.+||.|++..+| .+++.++| +|.| ..|. ++..|..|+..+|..|||+
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 4566544332 244567899999999999999999 88999999 5766 2464 5789999999999999998
Q ss_pred E
Q 014118 74 L 74 (430)
Q Consensus 74 v 74 (430)
=
T Consensus 80 D 80 (234)
T KOG3206|consen 80 D 80 (234)
T ss_pred e
Confidence 4
No 84
>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=94.85 E-value=0.07 Score=38.35 Aligned_cols=39 Identities=26% Similarity=0.306 Sum_probs=32.8
Q ss_pred HHHHHHHHc-CCChhHHHHHHHHcCCCHHHHHHHHhhcCC
Q 014118 388 EAIERLEAM-GFDRALVLEVFFACNKNEELAANYLLDHMH 426 (430)
Q Consensus 388 ~aI~rL~~l-GF~r~~viqAy~aCdkNe~~Aan~L~~~~~ 426 (430)
+.|.+++++ |.+++.+++-.-+|++|.+.|++..|++..
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 568888887 999999999999999999999999998654
No 85
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.035 Score=52.16 Aligned_cols=74 Identities=16% Similarity=0.149 Sum_probs=54.2
Q ss_pred HHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHH
Q 014118 340 PHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAAN 419 (430)
Q Consensus 340 P~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan 419 (430)
-.++++..+|.+.|..-.-.=-..-.| ......+.+...|++|++|||+|.+++.++.--++|-+.|.+
T Consensus 127 avva~qy~~n~~~F~~TAr~WT~~fA~-----------~~~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~ 195 (200)
T KOG0418|consen 127 AVVAEQYVDNYEMFYKTARYWTTEFAG-----------GRLPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATE 195 (200)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHhC-----------CCCCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhH
Confidence 456677778888887653210000000 023556778889999999999999999999999999999999
Q ss_pred HHhhc
Q 014118 420 YLLDH 424 (430)
Q Consensus 420 ~L~~~ 424 (430)
.||+.
T Consensus 196 ~~~s~ 200 (200)
T KOG0418|consen 196 QLLSG 200 (200)
T ss_pred hhccC
Confidence 99873
No 86
>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=94.66 E-value=0.078 Score=37.83 Aligned_cols=37 Identities=32% Similarity=0.475 Sum_probs=33.1
Q ss_pred HHHHHHHHc--CCChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 388 EAIERLEAM--GFDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 388 ~aI~rL~~l--GF~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
+.|+.|++| .++++.+..++.+|+.|.|.|.+.|++.
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 568999999 7999999999999999999999999974
No 87
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=94.59 E-value=0.046 Score=59.96 Aligned_cols=45 Identities=29% Similarity=0.553 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHc-CCCHHHHHHHHhhcCCCCC
Q 014118 385 EEREAIERLEAMGFDRALVLEVFFAC-NKNEELAANYLLDHMHEFE 429 (430)
Q Consensus 385 ee~~aI~rL~~lGF~r~~viqAy~aC-dkNe~~Aan~L~~~~~d~~ 429 (430)
-++..|.+|++|||+.+.+..|.+.. +-+-|.|-||||++|.|.|
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd 615 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPD 615 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcc
Confidence 46778999999999999999998887 8888999999999998865
No 88
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.15 Score=42.80 Aligned_cols=69 Identities=16% Similarity=0.183 Sum_probs=58.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
+.|..-+|..+.+.|..+.+...|.+..+.+.|+ ..+..|++|+|+-++-++|-.|+++.+++.|.++.
T Consensus 27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqGK---~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~ 95 (103)
T COG5227 27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGK---NMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVT 95 (103)
T ss_pred eEEecCCCCEEEEEEeccchHHHHHHHHHHHhCc---CcceeEEEEcceecCCCCChhhcCCccchHHHHHH
Confidence 4444456777888999999999999999999995 47899999999999999999999999998776543
No 89
>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=94.02 E-value=0.41 Score=39.13 Aligned_cols=67 Identities=22% Similarity=0.288 Sum_probs=56.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecC--C-cCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK--D-VTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~--D-d~tLsdygI~e~stI~v 72 (430)
+|.||..+|+.+.-.+..++++.+|...|... | ++....+|+ |=-|.+. | +.+|.+.|+....+|+|
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 78999999999988999999999999999764 6 667788886 6678884 2 57999999998888776
No 90
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=93.06 E-value=0.12 Score=52.65 Aligned_cols=40 Identities=30% Similarity=0.429 Sum_probs=37.2
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 171 ~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
+-.++|.+|..|| |+|.-|+.|--|+..|=+-|++||+.-
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 4567999999999 999999999999999999999999964
No 91
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=93.00 E-value=0.15 Score=41.32 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=45.9
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhc-ccCCCcEEEEEE
Q 014118 17 VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN-KVAENSFVVVML 74 (430)
Q Consensus 17 V~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdy-gI~e~stI~vmv 74 (430)
|.++++|.+||+.+...... ..-....|.++|+.|+|...|+++ |++++.+|.|+.
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 56789999999999876542 345677899999999999999888 688899888873
No 92
>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=92.72 E-value=0.094 Score=40.07 Aligned_cols=38 Identities=26% Similarity=0.536 Sum_probs=25.3
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHcC-----CCHHHHHHHHhh
Q 014118 386 EREAIERLEAMGFDRALVLEVFFACN-----KNEELAANYLLD 423 (430)
Q Consensus 386 e~~aI~rL~~lGF~r~~viqAy~aCd-----kNe~~Aan~L~~ 423 (430)
+.+.|+|++.|||+++.||+|+.--+ .+.+...|..++
T Consensus 9 ~~~lVd~F~~mGF~~dkVvevlrrlgik~~n~~dn~t~~~ilE 51 (55)
T PF09288_consen 9 DKDLVDQFENMGFERDKVVEVLRRLGIKSMNGVDNETENKILE 51 (55)
T ss_dssp SHHHHHHHHHHT--HHHHHHHHHHS--SS--SS--HHHHHHHH
T ss_pred CHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCccchhHHHHHH
Confidence 35679999999999999999987542 234566666554
No 93
>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=92.69 E-value=0.12 Score=39.44 Aligned_cols=23 Identities=35% Similarity=0.679 Sum_probs=19.6
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHH
Q 014118 173 EATVQQILDMGGGSWDRETVIRALRA 198 (430)
Q Consensus 173 e~~V~~i~eMG~~~f~reqV~~ALrA 198 (430)
...|.+.++|| |+|+.|+.|||-
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 67999999999 999999999995
No 94
>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=92.26 E-value=0.24 Score=40.97 Aligned_cols=35 Identities=29% Similarity=0.469 Sum_probs=31.2
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 176 VQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 176 V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
|+.+.+.| |+++.|.+||+++-.++..|..|++++
T Consensus 1 i~~~~~~g---~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 1 IKHYEELG---YSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp -HHHHHHT---B-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred CchHHHhC---CCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 56678899 999999999999999999999999988
No 95
>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=92.24 E-value=0.37 Score=34.36 Aligned_cols=37 Identities=35% Similarity=0.442 Sum_probs=33.1
Q ss_pred HHHHHHHHc--CCChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 388 EAIERLEAM--GFDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 388 ~aI~rL~~l--GF~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
+.|+.|++| .+++..+...+.+|++|.+.|.|.|++.
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 568999999 5778999999999999999999999874
No 96
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=91.29 E-value=0.28 Score=52.36 Aligned_cols=41 Identities=37% Similarity=0.541 Sum_probs=37.4
Q ss_pred cchHHHHHHHHHcCCCCC-CHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 170 SNLEATVQQILDMGGGSW-DRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 170 ~~~e~~V~~i~eMG~~~f-~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
..|..-.+++-+|| | +|+.-++||+|.+.+.++|||-|+.+
T Consensus 452 ~r~q~QLeQL~~MG---F~nre~nlqAL~atgGdi~aAverll~s 493 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMG---FLDREANLQALRATGGDINAAVERLLGS 493 (493)
T ss_pred HHHHHHHHHHHhcC---CccHHHHHHHHHHhcCcHHHHHHHHhcC
Confidence 45778899999999 9 99999999999999999999999853
No 97
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=90.75 E-value=0.36 Score=49.72 Aligned_cols=69 Identities=14% Similarity=0.141 Sum_probs=59.9
Q ss_pred CEEEEEeC--CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCC--cCchhhcccCCCcEEEE
Q 014118 1 MKVFVKTL--KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD--VTTLEENKVAENSFVVV 72 (430)
Q Consensus 1 MkI~VKtl--~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~D--d~tLsdygI~e~stI~v 72 (430)
|.++|.+. ..++|.++|..+-....|+..+....| +..+..-|||++++|.+ ...|..||++.+++|.+
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 667889999999999999999999999 88999999999999975 46899999999887754
No 98
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=90.71 E-value=0.9 Score=36.63 Aligned_cols=66 Identities=11% Similarity=0.166 Sum_probs=45.9
Q ss_pred CEEEEEeCC------C-cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC--CCcEEEeCCeecCCcCchhhcccCCCcEEE
Q 014118 1 MKVFVKTLK------G-THFEIEVKPEDKVSDVKKNIETVQGSDVYPA--SQQMLIHQGKVLKDVTTLEENKVAENSFVV 71 (430)
Q Consensus 1 MkI~VKtl~------g-k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~--~~QkLIy~GKiL~Dd~tLsdygI~e~stI~ 71 (430)
|+|+|+... | ....+++....||.+|++.+...... +.. ....+..+|+...+ ++-|++|+.|.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~--l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVa 74 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPS--LEEVRSCCVLALNEEYTTE-----SAALKDGDELA 74 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChh--HHHHhhCcEEEECCEEcCC-----CcCcCCCCEEE
Confidence 788888764 4 45677888889999999999776521 111 22346678888653 34578899998
Q ss_pred EE
Q 014118 72 VM 73 (430)
Q Consensus 72 vm 73 (430)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 87
No 99
>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=90.38 E-value=0.72 Score=33.04 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=31.0
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 173 e~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
++.|.+.|+. | -+++.++.-|+.+.+|.++||+.-+.
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 4688999997 7 79999999999999999999987664
No 100
>PRK06437 hypothetical protein; Provisional
Probab=90.33 E-value=1.7 Score=34.14 Aligned_cols=54 Identities=22% Similarity=0.327 Sum_probs=42.9
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 9 ~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
.++...++++...||.+|-+. .| ++.+...+..+|+++. .++-+++|+.|.++-
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 445577888888999988655 46 7788889999999997 566788899988863
No 101
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=89.68 E-value=1 Score=34.74 Aligned_cols=55 Identities=22% Similarity=0.317 Sum_probs=40.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+ .+++..+.|+.+||.++.. +.=.+||+|-..+++.. +++++.|+++-
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---EK--EIETEENTTLFELRKESKP---------DADIVILNGFPTKEDIE-----LKEGDEVFLIK 55 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCC---------CCCEEEEcCcccCCccc-----cCCCCEEEEEe
Confidence 666665 44 4677788899999987622 23377999999887754 56788888874
No 102
>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=89.27 E-value=0.99 Score=35.05 Aligned_cols=41 Identities=29% Similarity=0.370 Sum_probs=36.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
...+|+.|-|.-|+ ++.+++-..|+-++++||.||+-|++-
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 46899999998655 899999999999999999999999963
No 103
>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=88.82 E-value=2.1 Score=33.91 Aligned_cols=59 Identities=22% Similarity=0.183 Sum_probs=46.1
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe----CC--eecCCcCchhhcccC
Q 014118 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QG--KVLKDVTTLEENKVA 65 (430)
Q Consensus 5 VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy----~G--KiL~Dd~tLsdygI~ 65 (430)
|+.++|...+++|+.+.|+.+|=+.|+...+- ...+-.-|.| +| .-|+.+++|.++..+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence 67789999999999999999999999999992 2334457777 23 236888999998777
No 104
>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=87.94 E-value=0.71 Score=38.15 Aligned_cols=35 Identities=29% Similarity=0.637 Sum_probs=30.8
Q ss_pred HHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 390 IERLEAMGFDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 390 I~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
|+++.++|+++..|++|+.+|--+..+|..|+++.
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 67789999999999999999999999999988765
No 105
>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=87.65 E-value=0.68 Score=33.90 Aligned_cols=37 Identities=22% Similarity=0.463 Sum_probs=29.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHH
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~ 211 (430)
.++.+.-|+.+| |.+.++.+|++....+++.-+|.++
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 478899999999 9999999999998755555566654
No 106
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=87.63 E-value=3.3 Score=32.65 Aligned_cols=50 Identities=26% Similarity=0.457 Sum_probs=39.0
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
...++++...||.+|.+.+ + ++.....+..+|+++.. ++-+++|+.|.++
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 5677888889999988765 5 66677788899999853 5557889988876
No 107
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=87.42 E-value=2.2 Score=33.00 Aligned_cols=60 Identities=13% Similarity=0.258 Sum_probs=42.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+.+ + ..||.+|.+.+ + +..+...+-++|+++. .....+.-+++|+.|-++-
T Consensus 1 m~i~~N---g~~~~~--~-~~tl~~Ll~~l----~---~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFVN---GETLQT--E-ATTLALLLAEL----D---YEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEEC---CeEEEc--C-cCcHHHHHHHc----C---CCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence 566654 776666 3 35899888764 4 5556667789999986 3345566788999998873
No 108
>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=87.21 E-value=2.5 Score=33.37 Aligned_cols=57 Identities=11% Similarity=0.142 Sum_probs=41.7
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCC-CCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGS-DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~-~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
...++++...||.+|++.+...++. .........+..+|+... .++-|++++.|.++
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ 74 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAII 74 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEe
Confidence 4567887789999999999887541 001234557778999887 34568899999987
No 109
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=86.83 E-value=0.8 Score=48.59 Aligned_cols=42 Identities=21% Similarity=0.389 Sum_probs=38.7
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCCCCC
Q 014118 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQ 217 (430)
Q Consensus 173 e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~GIP~~ 217 (430)
...|.+|+.|| |++-..+.||++.-||.|.|.+.|+--++..
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 46799999999 9999999999999999999999999887753
No 110
>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=86.07 E-value=2.9 Score=34.42 Aligned_cols=37 Identities=16% Similarity=0.169 Sum_probs=34.5
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCe
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GK 51 (430)
++.|.|.+..+..+|+++|.++.+ +|.+..+|-|+-.
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 888999999999999999999999 9999999999754
No 111
>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=85.69 E-value=0.24 Score=50.10 Aligned_cols=60 Identities=25% Similarity=0.390 Sum_probs=0.0
Q ss_pred EEEEEeCCCcEEEEEeC---C--CCcHHHHHHHHHH----------HhCCCCCCCCCcE-----EEeCCeecCCcCchhh
Q 014118 2 KVFVKTLKGTHFEIEVK---P--EDKVSDVKKNIET----------VQGSDVYPASQQM-----LIHQGKVLKDVTTLEE 61 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~---~--s~TV~dLK~kI~~----------~~g~~~ip~~~Qk-----LIy~GKiL~Dd~tLsd 61 (430)
.|++|.+.+-.+.|.+. + +.+|.+||..++. +.+ +|.+.+| |+|+-|.+.|.++|.+
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 46677776665555432 2 5789999999999 777 9999999 9999999999999988
Q ss_pred ccc
Q 014118 62 NKV 64 (430)
Q Consensus 62 ygI 64 (430)
..-
T Consensus 157 ~l~ 159 (309)
T PF12754_consen 157 VLA 159 (309)
T ss_dssp ---
T ss_pred HHh
Confidence 743
No 112
>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=83.22 E-value=3.9 Score=34.14 Aligned_cols=74 Identities=18% Similarity=0.199 Sum_probs=49.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC----Ceec-CCcCchhhc----ccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GKVL-KDVTTLEEN----KVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~----GKiL-~Dd~tLsdy----gI~e~stI~v 72 (430)
.+++|+.+|+.+.+.+.+++.+.+|+..|.++.|.+........|.|- -++| .-+.-|.+| ......+|.+
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 468899999999999999999999999999999933111246677663 2333 333334444 2233445655
Q ss_pred EEe
Q 014118 73 MLT 75 (430)
Q Consensus 73 mv~ 75 (430)
.+.
T Consensus 82 ~v~ 84 (86)
T cd06409 82 HLH 84 (86)
T ss_pred EEe
Confidence 553
No 113
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=82.64 E-value=2.1 Score=36.46 Aligned_cols=34 Identities=26% Similarity=0.289 Sum_probs=24.7
Q ss_pred EEEeCCeecCCcCchhhc-ccCCCcEEEEEEecCC
Q 014118 45 MLIHQGKVLKDVTTLEEN-KVAENSFVVVMLTKSK 78 (430)
Q Consensus 45 kLIy~GKiL~Dd~tLsdy-gI~e~stI~vmv~k~k 78 (430)
.|-|+||.|.++++|++| |-.+.+.|+|=+.+++
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~g 37 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKRG 37 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccCC
Confidence 577999999999999999 3344555655554444
No 114
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=81.34 E-value=5.1 Score=35.52 Aligned_cols=60 Identities=17% Similarity=0.176 Sum_probs=44.2
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-------CCCCCCcEEEeCC-----------------eec---CCcCchhhcccCCC
Q 014118 16 EVKP-EDKVSDVKKNIETVQGSD-------VYPASQQMLIHQG-----------------KVL---KDVTTLEENKVAEN 67 (430)
Q Consensus 16 eV~~-s~TV~dLK~kI~~~~g~~-------~ip~~~QkLIy~G-----------------KiL---~Dd~tLsdygI~e~ 67 (430)
.|+. +.||++|++.+.+..... ++.-+..||++.- .+| +++++|.+|||.+.
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE 100 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE 100 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence 4776 899999999988764321 2334566777541 477 78899999999999
Q ss_pred cEEEEEEe
Q 014118 68 SFVVVMLT 75 (430)
Q Consensus 68 stI~vmv~ 75 (430)
..|-+..+
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 88887754
No 115
>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=80.94 E-value=8.8 Score=31.52 Aligned_cols=71 Identities=14% Similarity=0.125 Sum_probs=47.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCcEEEeCCee-----cCCcCchhh----cccCCCcEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGKV-----LKDVTTLEE----NKVAENSFV 70 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~GKi-----L~Dd~tLsd----ygI~e~stI 70 (430)
|+|++. .+|..+.+.+.++.+..+|+.+|.++.+ +.. ....|-|..-. |..+.-|.+ |.....++|
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 4667888999999999999999999998 543 45677665422 333334444 344455667
Q ss_pred EEEEe
Q 014118 71 VVMLT 75 (430)
Q Consensus 71 ~vmv~ 75 (430)
.+.+.
T Consensus 77 ~l~v~ 81 (82)
T cd06407 77 RLLVH 81 (82)
T ss_pred EEEee
Confidence 66653
No 116
>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=80.43 E-value=4.2 Score=33.94 Aligned_cols=62 Identities=18% Similarity=0.137 Sum_probs=43.7
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEec
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~k 76 (430)
.+...++-...+..||+.++.+.+ +.-+.-.+......|+.+++|-+-||+-...|.+.+.-
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 345566777899999999999999 66788888888888999999999999988888887754
No 117
>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=80.35 E-value=14 Score=33.78 Aligned_cols=61 Identities=21% Similarity=0.214 Sum_probs=45.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCcEEEeC---C---eecCCcCchhhcccC
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQ---G---KVLKDVTTLEENKVA 65 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~---G---KiL~Dd~tLsdygI~ 65 (430)
.|.|..++|....+.++.+.||.+|...|+.+.| +.. ...-|.+- + .-|+..++|.+...+
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 632 22244331 1 246667777777654
No 118
>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=79.99 E-value=4 Score=31.84 Aligned_cols=60 Identities=15% Similarity=0.150 Sum_probs=47.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
...+.+....||.+|.+.+..+.+.- .......+..+|+...+ ...+.-+++++.|.++-
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 56788889999999999998886421 12367788899999988 36667789999999874
No 119
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=79.57 E-value=8.3 Score=30.64 Aligned_cols=67 Identities=16% Similarity=0.209 Sum_probs=52.4
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE-eCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 9 ~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI-y~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
+|+...++.+.+...--+..+--+..|...-|++...|- -+|.+|+-++.++|||+..+-++++.++
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 577778888888877777777767666433677777774 5789999999999999999988887764
No 120
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=79.24 E-value=9.7 Score=30.44 Aligned_cols=57 Identities=19% Similarity=0.284 Sum_probs=41.6
Q ss_pred CcE-EEEEeCCC-CcHHHHHHHHHHHhCCCCCC--CCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 10 GTH-FEIEVKPE-DKVSDVKKNIETVQGSDVYP--ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 10 gk~-~~IeV~~s-~TV~dLK~kI~~~~g~~~ip--~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
|+. ..+++..+ .||.+|++.+..+.+. +- .....+..+|+...+ +.-|++++.|.++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~--l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPE--LAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCch--hhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 443 56888876 8999999999888641 11 134466788888875 4578889999987
No 121
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=79.10 E-value=2.6 Score=45.57 Aligned_cols=39 Identities=31% Similarity=0.601 Sum_probs=35.4
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcC-ChHHHHHHHHhCC
Q 014118 173 EATVQQILDMGGGSWDRETVIRALRAAYN-NPERAVEYLYSGI 214 (430)
Q Consensus 173 e~~V~~i~eMG~~~f~reqV~~ALrAafn-NpdRAVEyL~~GI 214 (430)
...|.+|++|| |+.+.+.|||-+.-| +.+-|..||+--+
T Consensus 559 qs~I~qL~~mG---fp~~~~~rAL~~tgNqDaEsAMNWLFqHM 598 (749)
T COG5207 559 QSLIRQLVDMG---FPEEDAARALGITGNQDAESAMNWLFQHM 598 (749)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHhhccCcchHHHHHHHHhhc
Confidence 56899999999 999999999998887 7999999999764
No 122
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=78.78 E-value=11 Score=31.66 Aligned_cols=62 Identities=13% Similarity=0.195 Sum_probs=41.9
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eC--Ce-ecCC-cCchhhcccCCCcEEEEEEec
Q 014118 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQ--GK-VLKD-VTTLEENKVAENSFVVVMLTK 76 (430)
Q Consensus 11 k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~--GK-iL~D-d~tLsdygI~e~stI~vmv~k 76 (430)
..++..++..+||..+++.+.+.+. + ....||- |. +- .|.+ +.||.+.||.+|-.|++=.++
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 3567788999999999999999998 8 6677883 22 22 3644 679999999999877766554
No 123
>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=78.72 E-value=4.9 Score=43.70 Aligned_cols=9 Identities=33% Similarity=0.586 Sum_probs=5.8
Q ss_pred HHHHHhcCC
Q 014118 352 DFLRLINEP 360 (430)
Q Consensus 352 ~Fl~~l~~~ 360 (430)
.||..|+-.
T Consensus 416 yFL~VLnsD 424 (574)
T PF07462_consen 416 YFLDVLNSD 424 (574)
T ss_pred HHHHHHhhh
Confidence 677776644
No 124
>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=77.60 E-value=10 Score=30.11 Aligned_cols=46 Identities=15% Similarity=0.182 Sum_probs=37.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCe
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GK 51 (430)
+|+++. ++..+.+.+....|..+|+.+|..+.+ +.....+|-|...
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~---~~~~~~~l~Y~De 48 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFG---LDNQSFTLKYQDE 48 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhC---CCCCCeEEEEECC
Confidence 455654 667888999999999999999999998 6556788888743
No 125
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=77.55 E-value=1.3 Score=35.96 Aligned_cols=27 Identities=33% Similarity=0.434 Sum_probs=23.8
Q ss_pred C-CHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 187 W-DRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 187 f-~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
. ++.+++.||.-.|+|+++||.||++.
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 126
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=76.90 E-value=8.2 Score=29.96 Aligned_cols=60 Identities=17% Similarity=0.240 Sum_probs=42.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+.+ ....||.+|-+. .+ ++.....+.++|+++..+.- ..+ +++|+.|-++-
T Consensus 1 m~i~vN---G~~~~~--~~~~tl~~ll~~----l~---~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVVN---EEQVEV--DEQTTVAALLDS----LG---FPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEEC---CEEEEc--CCCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence 566654 665544 567788887654 46 77889999999999864432 245 89999998864
No 127
>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=76.65 E-value=11 Score=30.46 Aligned_cols=59 Identities=12% Similarity=0.264 Sum_probs=40.6
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCC---CCC-----CCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 11 THFEIEVKPEDKVSDVKKNIETVQGSD---VYP-----ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 11 k~~~IeV~~s~TV~dLK~kI~~~~g~~---~ip-----~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
....++++ ..||.+|.+.+.++++.- .+. .....+..+|+...++.. .-|++|+.|.++
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 34677776 889999999998886520 000 123566778888765432 568899999987
No 128
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=73.25 E-value=18 Score=28.08 Aligned_cols=61 Identities=7% Similarity=0.196 Sum_probs=41.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+. +....||.+|.+.+ + +......+-.+|+++..+ ..+++-+++|+.|.++-
T Consensus 1 m~i~vN---g~~~~--~~~~~tl~~ll~~l----~---~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILFN---DQPMQ--CAAGQTVHELLEQL----N---QLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEEC---CeEEE--cCCCCCHHHHHHHc----C---CCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEE
Confidence 666665 66554 46678899888653 4 445667888999998522 23444588999988764
No 129
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=72.74 E-value=16 Score=28.04 Aligned_cols=61 Identities=13% Similarity=0.251 Sum_probs=42.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+ ++....||.+|-+. .+ ++.+...+.++|+++.-+. ..+.-+++|+.|-++-
T Consensus 1 m~i~vN---G~~~--~~~~~~tl~~lL~~----l~---~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQLN---GEPR--ELPDGESVAALLAR----EG---LAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH 61 (66)
T ss_pred CEEEEC---CeEE--EcCCCCCHHHHHHh----cC---CCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence 555554 6654 55677898887654 45 7778888899999886442 3344578899888764
No 130
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=71.39 E-value=8.4 Score=33.86 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=34.3
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 173 e~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
++.|.-+|+- | -+|+.+++||+.+.|+.-.|+-||..+
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 6789999996 7 899999999999999999999999753
No 131
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=71.00 E-value=6.6 Score=37.60 Aligned_cols=36 Identities=25% Similarity=0.341 Sum_probs=32.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 174 ~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
.+|.+|-++ | +.=-+|..||..+.+|-|.|++||--
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 578888887 7 88899999999999999999999974
No 132
>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=70.27 E-value=12 Score=30.08 Aligned_cols=53 Identities=21% Similarity=0.103 Sum_probs=41.3
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC--C--eecCCcCc
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ--G--KVLKDVTT 58 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~--G--KiL~Dd~t 58 (430)
+.|-..+|+.-.+.|.+..||.++-.++.++.| +.++...|... + +.+..+..
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~~~~~~~~~~~~d 58 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLGLDEKKPLDLDTD 58 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEecCCCcCCcCchhh
Confidence 456677899899999999999999999999999 77777766554 4 44544433
No 133
>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=70.03 E-value=18 Score=30.29 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=35.7
Q ss_pred EEEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCe
Q 014118 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (430)
Q Consensus 2 kI~VKtl-~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GK 51 (430)
+|+||.. .|..+.+.|+++.+..+|..+|..+++ +. ...+|-|...
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 3555544 677889999999999999999999999 53 5566666554
No 134
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=69.66 E-value=6.8 Score=39.68 Aligned_cols=36 Identities=22% Similarity=0.249 Sum_probs=32.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 174 ~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
..|.+|-++ | +.=-+|..||..+.||-|+|++||--
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 568899888 8 88899999999999999999999973
No 135
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=69.06 E-value=26 Score=26.63 Aligned_cols=60 Identities=10% Similarity=0.130 Sum_probs=39.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+ ++....||.+|.+.+ + +. ....+.++|+++..+. ..+.-+++|+.|.++-
T Consensus 1 m~i~vN---g~~~--~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQLN---QQTL--SLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEEC---CEEE--ECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 566554 6544 556778999988765 3 32 3456789999875332 2333478899998874
No 136
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=68.58 E-value=8.1 Score=40.40 Aligned_cols=65 Identities=23% Similarity=0.354 Sum_probs=51.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCC-cCchhhcccCCCc
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENS 68 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~D-d~tLsdygI~e~s 68 (430)
.|.||..+|+.....++.+.||.+|+..|...... .+...+-|+ |=-|.|.| +.||++-|+.+.-
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 48899889998888999999999999999988763 333345554 45688865 6899999998643
No 137
>smart00455 RBD Raf-like Ras-binding domain.
Probab=66.94 E-value=16 Score=29.11 Aligned_cols=49 Identities=18% Similarity=0.202 Sum_probs=40.9
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC--eecC
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G--KiL~ 54 (430)
+.|-..+|+...+.+.+..||.++-.++.++.| +.++...+...| |.|+
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 355667899999999999999999999999999 888888887754 4554
No 138
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=65.93 E-value=11 Score=31.34 Aligned_cols=52 Identities=12% Similarity=0.100 Sum_probs=28.1
Q ss_pred CCCcHHHHHHHHHH-HhCCCCCCCC----CcEEEeCCee----cCCcCchhhcccCCCcEEEEE
Q 014118 19 PEDKVSDVKKNIET-VQGSDVYPAS----QQMLIHQGKV----LKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 19 ~s~TV~dLK~kI~~-~~g~~~ip~~----~QkLIy~GKi----L~Dd~tLsdygI~e~stI~vm 73 (430)
...|+++|-++|-+ +.| +-.- .-++||.... -..+++|+++||++|++|.|.
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 444 2211 3344444332 122578999999999988764
No 139
>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=65.43 E-value=19 Score=28.46 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=34.9
Q ss_pred EEEEEeCCCcEEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC
Q 014118 2 KVFVKTLKGTHFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (430)
Q Consensus 2 kI~VKtl~gk~~~-IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G 50 (430)
+|+++ .++..+. +.+..+.+..+|+.+|....+ .+....+|-|..
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 666788998864
No 140
>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=65.38 E-value=37 Score=36.44 Aligned_cols=73 Identities=15% Similarity=0.206 Sum_probs=55.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCC---CCCCCcEEE-eCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDV---YPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~---ip~~~QkLI-y~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
+|+|...+ +..++-+..+..|.+|-..|-+..+.+. .....-.|. -+|..|+-+++|.+.+|.||+.+++..+
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 57777544 4577888889999999999988887420 112334453 5788999999999999999999998753
No 141
>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=65.04 E-value=21 Score=27.40 Aligned_cols=57 Identities=9% Similarity=0.242 Sum_probs=40.5
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 8 l~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
++|+.+ +++...||.+|.+++ + ++.+...+.++|+++..+ ...++-|++|+.|.++-
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 346554 456678999988765 4 567788889999998543 23344588999998874
No 142
>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=64.89 E-value=23 Score=27.85 Aligned_cols=45 Identities=22% Similarity=0.131 Sum_probs=34.2
Q ss_pred EEEEEeCCCcEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC
Q 014118 2 KVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~-~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G 50 (430)
+|+++. +|..+.+.+. .+.|..+|+.+|..+.+ ......+|-|..
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFG---LDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhC---CCCCcEEEEeeC
Confidence 455653 4567788888 89999999999999998 544566776654
No 143
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=64.29 E-value=3.5 Score=34.12 Aligned_cols=27 Identities=30% Similarity=0.479 Sum_probs=22.8
Q ss_pred hHHHHHHHHHHHHhCccchhHHHHHHh
Q 014118 310 LLFQFQALRTMVQANPQILQPMLQELG 336 (430)
Q Consensus 310 ~~~~f~~lR~~vq~nP~lL~~~lqqi~ 336 (430)
.+|.|..|+.+.+.||+.+..+-+++.
T Consensus 2 ~lp~FD~L~~LA~~dPe~fe~lr~~~~ 28 (83)
T PF11333_consen 2 ELPDFDELKELAQNDPEAFEQLRQELI 28 (83)
T ss_pred CCCCHHHHHHHHHhCHHHHHHHHHHHH
Confidence 467999999999999999987766654
No 144
>PRK09377 tsf elongation factor Ts; Provisional
Probab=64.06 E-value=10 Score=38.41 Aligned_cols=36 Identities=28% Similarity=0.343 Sum_probs=32.8
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 174 ~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
..|.+|-++ | +.=-+|.+||..+.||-|.|++||-.
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 578899888 7 88899999999999999999999974
No 145
>CHL00098 tsf elongation factor Ts
Probab=63.97 E-value=11 Score=36.17 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=32.4
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 174 ~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
..|.+|-++ | ..=-+|.+||..+.+|-|.|++||--
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 468888887 7 88899999999999999999999975
No 146
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=63.66 E-value=29 Score=28.69 Aligned_cols=57 Identities=5% Similarity=0.161 Sum_probs=40.4
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 8 l~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
++|+.+ +++...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|.++-
T Consensus 23 VNG~~~--~~~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 23 INDQSI--QVDISSSLAQIIAQ----LS---LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred ECCeEE--EcCCCCcHHHHHHH----cC---CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 346544 44667788887654 35 7677778889999994 3345667789999998864
No 147
>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=63.20 E-value=9.4 Score=31.06 Aligned_cols=40 Identities=25% Similarity=0.494 Sum_probs=31.7
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHhcCC-hHHHHHHHHhCCC
Q 014118 175 TVQQILDMGGGSWDRETVIRALRAAYNN-PERAVEYLYSGIP 215 (430)
Q Consensus 175 ~V~~i~eMG~~~f~reqV~~ALrAafnN-pdRAVEyL~~GIP 215 (430)
-+--||=+|+|.|+-++-..|++-|-.+ -.+.++||+ |.|
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 3456778899999999999999888555 567889997 555
No 148
>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=62.77 E-value=5.6 Score=29.02 Aligned_cols=27 Identities=19% Similarity=0.313 Sum_probs=21.7
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCCC
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNKN 413 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdkN 413 (430)
.++++-|..|||++..+-+|.-...++
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~~~ 30 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLLEK 30 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHHHS
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhcC
Confidence 478999999999999999988777533
No 149
>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=62.58 E-value=8.4 Score=40.13 Aligned_cols=28 Identities=14% Similarity=0.322 Sum_probs=23.0
Q ss_pred cccCcchHHHHHHHHHcCCCCCCHHHHHHHH
Q 014118 166 LVAGSNLEATVQQILDMGGGSWDRETVIRAL 196 (430)
Q Consensus 166 l~~g~~~e~~V~~i~eMG~~~f~reqV~~AL 196 (430)
.+..--++++|+.++.|| |.||+|+.-.
T Consensus 315 ~~~~~p~ddvidKv~~MG---f~rDqV~a~v 342 (358)
T PF07223_consen 315 SGNRHPYDDVIDKVASMG---FRRDQVRATV 342 (358)
T ss_pred ccccCcHHHHHHHHHHcC---CcHHHHHHHH
Confidence 445556899999999999 9999997633
No 150
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=62.55 E-value=25 Score=37.22 Aligned_cols=73 Identities=14% Similarity=0.220 Sum_probs=57.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC----Cee--cCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GKV--LKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~----GKi--L~Dd~tLsdygI~e~stI~vmv 74 (430)
|.+.+|...| ...+++.++++.+-|-.+|-...... +.+++..+.-+ |.+ +..++|+.++|++.|..++|-.
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 56799999999999999888776543 66777777542 333 4567899999999999999877
Q ss_pred e
Q 014118 75 T 75 (430)
Q Consensus 75 ~ 75 (430)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 3
No 151
>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=61.99 E-value=54 Score=27.09 Aligned_cols=53 Identities=26% Similarity=0.476 Sum_probs=38.8
Q ss_pred hhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHHHH-----HHHHcCCChhH
Q 014118 328 LQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAIE-----RLEAMGFDRAL 402 (430)
Q Consensus 328 L~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~aI~-----rL~~lGF~r~~ 402 (430)
++.++++|+ ++|.+.+...++|+.|+.- ..||+||+++|. .|..+|-.--+
T Consensus 6 ~nrli~~L~-~dp~~rerF~~DPea~~~~-----------------------~gLt~eE~~aL~~~D~~~L~~lGvhp~L 61 (81)
T cd07922 6 VNRLIQELF-KDPGLIERFQDDPSAVFEE-----------------------YGLTPAERAALREGTFGALTSIGVHPIL 61 (81)
T ss_pred HHHHHHHHh-cCHHHHHHHHHCHHHHHHH-----------------------cCCCHHHHHHHHccCHHHHHHcCCCHHH
Confidence 367888864 7899999999999998753 257899999964 47777755444
Q ss_pred HH
Q 014118 403 VL 404 (430)
Q Consensus 403 vi 404 (430)
..
T Consensus 62 ~m 63 (81)
T cd07922 62 QM 63 (81)
T ss_pred HH
Confidence 33
No 152
>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=61.36 E-value=16 Score=32.21 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=32.8
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHH
Q 014118 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLY 211 (430)
Q Consensus 173 e~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~ 211 (430)
++.|.-+++- | -+|+.+++||+.+.++.-.|+-||.
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 6788889986 7 8999999999999999999999985
No 153
>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=60.71 E-value=44 Score=29.07 Aligned_cols=59 Identities=12% Similarity=0.113 Sum_probs=42.1
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCC-cEEEeCCeecCCcCchhhc--ccC-CCcEEEEEEec
Q 014118 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVLKDVTTLEEN--KVA-ENSFVVVMLTK 76 (430)
Q Consensus 15 IeV~~s~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GKiL~Dd~tLsdy--gI~-e~stI~vmv~k 76 (430)
+-|+.+.||.++...|....+ +.+++ .-|..++.+...+.+++++ .-+ ++.+|+|..+.
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 4555566555677787765 223 47788887654
No 154
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=60.10 E-value=40 Score=26.32 Aligned_cols=61 Identities=10% Similarity=0.222 Sum_probs=41.2
Q ss_pred CEEEEEeCCCcEEEEEeCCC-CcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPE-DKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s-~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|+|+|. |+.+.+ ... .||.+|-+. .+ +.....-+-++|+++.-+ ...++-+++++.|.++-
T Consensus 1 m~I~vN---G~~~~~--~~~~~tv~~lL~~----l~---~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKIN---GNQIEV--PESVKTVAELLTH----LE---LDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEEC---CEEEEc--CCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 556554 765544 444 578877653 45 667777788999998543 34555688999888764
No 155
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=59.97 E-value=43 Score=26.63 Aligned_cols=63 Identities=16% Similarity=0.298 Sum_probs=43.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
|.++|. ++|+. +++....||.+|-.. .+ ++.+..-+.++|.++..+. ..+.-+++++.|-++-
T Consensus 1 ~~m~i~-~ng~~--~e~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~ 63 (68)
T COG2104 1 MPMTIQ-LNGKE--VEIAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVR 63 (68)
T ss_pred CcEEEE-ECCEE--EEcCCCCcHHHHHHH----hC---CCCceEEEEECCEEccchh-hhhccccCCCEEEEEE
Confidence 455666 34654 455666899998654 45 7778888899999986432 3445677888887763
No 156
>PLN03196 MOC1-like protein; Provisional
Probab=59.94 E-value=79 Score=34.29 Aligned_cols=49 Identities=20% Similarity=0.331 Sum_probs=33.5
Q ss_pred CcccccChHH-HHHHHHHHHcCCChhHHHHHHHHc-------CCCHHHHHHHHhhcC
Q 014118 377 PQAVTVTPEE-REAIERLEAMGFDRALVLEVFFAC-------NKNEELAANYLLDHM 425 (430)
Q Consensus 377 ~~~i~lt~ee-~~aI~rL~~lGF~r~~viqAy~aC-------dkNe~~Aan~L~~~~ 425 (430)
|..+.++++- +..|+=|+.+||+++++..++..| .++-.-..+||.+.+
T Consensus 330 P~il~lSe~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneM 386 (487)
T PLN03196 330 PQIVSLNRNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEM 386 (487)
T ss_pred chhhcccHHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHh
Confidence 3455666655 345888999999999998888765 345555666666543
No 157
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=58.94 E-value=60 Score=27.13 Aligned_cols=67 Identities=21% Similarity=0.193 Sum_probs=46.9
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE------eCCeecCCcCchhhc----ccCCCcEEE
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI------HQGKVLKDVTTLEEN----KVAENSFVV 71 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI------y~GKiL~Dd~tLsdy----gI~e~stI~ 71 (430)
|+|-..+|....|.|+...|++++-+.+..+.++. +...--|+ +=.+.|+|+..|-++ ++..+..|+
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 55566789999999999999999999999998852 23333443 235678888765554 554444443
No 158
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=58.69 E-value=8.6 Score=31.19 Aligned_cols=44 Identities=20% Similarity=0.390 Sum_probs=33.7
Q ss_pred ccChHHHHHHHHH----H-HcC--C-ChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 381 TVTPEEREAIERL----E-AMG--F-DRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 381 ~lt~ee~~aI~rL----~-~lG--F-~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
.||++|++.+... + .|| . ++..+++|.+-|.-|.+.|++||++.
T Consensus 19 ~Ls~ed~~~L~~~l~~vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 19 ELSPEDQAQLYSCLPQVREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp H-TCHHHHHHCHHCCCHHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred cCCHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 5888888775442 2 366 5 89999999999999999999999975
No 159
>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=58.56 E-value=26 Score=27.38 Aligned_cols=38 Identities=18% Similarity=0.443 Sum_probs=32.9
Q ss_pred HHHHHHHHHc-C-CChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 387 REAIERLEAM-G-FDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 387 ~~aI~rL~~l-G-F~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
+.-|+-|++. | .++..+.-.+.-|+-|.+.|++-|+++
T Consensus 6 rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 6 RKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 4567788876 4 699999999999999999999999875
No 160
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=58.32 E-value=30 Score=39.13 Aligned_cols=70 Identities=16% Similarity=0.239 Sum_probs=49.1
Q ss_pred EEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcC--chhhcccCCCcEEEEEEecC
Q 014118 3 VFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVT--TLEENKVAENSFVVVMLTKS 77 (430)
Q Consensus 3 I~VKtl-~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~--tLsdygI~e~stI~vmv~k~ 77 (430)
|+|=.. ++..+.+-++++.|+..++.+|...+| +|.+.|-|+|.|......+ +..--| -.+-|+|+....
T Consensus 316 vhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h~~~~~Q~~~dg--~~~~l~l~~~~~ 388 (732)
T KOG4250|consen 316 VHIFSMVQATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSHLEDSAQCIPDG--LDSPLYLVSDQD 388 (732)
T ss_pred eEEEeeccceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccccCcccccCCCC--CCCceEEEecCC
Confidence 444333 456678899999999999999999999 9999999999987654333 211112 234566665443
No 161
>PRK07440 hypothetical protein; Provisional
Probab=58.11 E-value=41 Score=26.58 Aligned_cols=57 Identities=12% Similarity=0.235 Sum_probs=40.0
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 8 l~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
++|+. +++....||.+|-+. .+ +.....-+-++|+++.-+ ...++-+++++.|-++-
T Consensus 9 vNG~~--~~~~~~~tl~~lL~~----l~---~~~~~vav~~N~~iv~r~-~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 9 VNGET--RTCSSGTSLPDLLQQ----LG---FNPRLVAVEYNGEILHRQ-FWEQTQVQPGDRLEIVT 65 (70)
T ss_pred ECCEE--EEcCCCCCHHHHHHH----cC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 45765 455677899887653 45 667778888999998632 24455688899888764
No 162
>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=57.77 E-value=23 Score=26.52 Aligned_cols=35 Identities=26% Similarity=0.378 Sum_probs=28.6
Q ss_pred HHHHHH--cCCChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 390 IERLEA--MGFDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 390 I~rL~~--lGF~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
|++-.. -|=+|+.+|.-+-..+-|.++|.|-|++.
T Consensus 13 I~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 13 INQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp HHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 555444 39999999999999999999999999987
No 163
>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=56.80 E-value=34 Score=26.18 Aligned_cols=57 Identities=11% Similarity=0.260 Sum_probs=39.8
Q ss_pred CCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEE
Q 014118 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 8 l~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
++|+.+. +....||.+|.+.+ + ++++...+.++|+++..+ ...++-+++++.|-++.
T Consensus 3 iNg~~~~--~~~~~tv~~ll~~l----~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPVE--VEDGLTLAALLESL----G---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEEE--cCCCCcHHHHHHHc----C---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 4566554 46677999988764 4 566777888999988432 23445688999988874
No 164
>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=56.67 E-value=55 Score=27.44 Aligned_cols=69 Identities=16% Similarity=0.158 Sum_probs=45.4
Q ss_pred EEEEeCCCcEEEEEeC-----CCCcHHHHHHHHHHHhCCCCCCC-CCcEEEeCCe-----ecCCcCchhhc-----ccCC
Q 014118 3 VFVKTLKGTHFEIEVK-----PEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGK-----VLKDVTTLEEN-----KVAE 66 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~-----~s~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~GK-----iL~Dd~tLsdy-----gI~e 66 (430)
|+|+ .+|....|.++ ++.+..+|+.+|.+..+ ++. ....|.|... .|.++.-|.++ +-..
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 35556666666 47899999999999998 766 5667777643 24455445443 2235
Q ss_pred CcEEEEEEe
Q 014118 67 NSFVVVMLT 75 (430)
Q Consensus 67 ~stI~vmv~ 75 (430)
..+|.+.++
T Consensus 79 ~~~lrl~v~ 87 (91)
T cd06398 79 LNPLRIDVT 87 (91)
T ss_pred CceEEEEEE
Confidence 677777765
No 165
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=56.67 E-value=40 Score=29.97 Aligned_cols=58 Identities=14% Similarity=0.251 Sum_probs=44.6
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhc---ccCCCcEEEEEEe
Q 014118 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN---KVAENSFVVVMLT 75 (430)
Q Consensus 15 IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdy---gI~e~stI~vmv~ 75 (430)
+-|..+.||+++...|..+.+ +.+++.-|..++.++..+.+++++ .-.++.+|++..+
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 368999999999999999998 878876555677666777888776 2245778888764
No 166
>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=56.11 E-value=61 Score=27.77 Aligned_cols=74 Identities=20% Similarity=0.119 Sum_probs=46.4
Q ss_pred EEEEeCC-CcEEEEEeCCCCcHHHHHHHHHHHh--CCC-CCCCC-CcEEEeCCee--cCCcCchhhc-----ccCCCcEE
Q 014118 3 VFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQ--GSD-VYPAS-QQMLIHQGKV--LKDVTTLEEN-----KVAENSFV 70 (430)
Q Consensus 3 I~VKtl~-gk~~~IeV~~s~TV~dLK~kI~~~~--g~~-~ip~~-~QkLIy~GKi--L~Dd~tLsdy-----gI~e~stI 70 (430)
|.|...+ ...+++.++.++|+.+|.+.+-.+. ..+ .-+.+ +-.|--.|+. |..+..|.+| +++.+..+
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 4568999999999999998887762 111 11222 4555556653 5556666666 46777788
Q ss_pred EEEEec
Q 014118 71 VVMLTK 76 (430)
Q Consensus 71 ~vmv~k 76 (430)
+|++..
T Consensus 100 ~L~L~~ 105 (108)
T smart00144 100 HLVLMT 105 (108)
T ss_pred eEEEEe
Confidence 877654
No 167
>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=55.87 E-value=11 Score=26.65 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=23.0
Q ss_pred CCHHHHHHHHHHhcCChHHHHHHHHhCCC
Q 014118 187 WDRETVIRALRAAYNNPERAVEYLYSGIP 215 (430)
Q Consensus 187 f~reqV~~ALrAafnNpdRAVEyL~~GIP 215 (430)
|+|+-+..||+.+-+|..+|.+.| ||+
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 788999999999999999999998 654
No 168
>PF07746 LigA: Aromatic-ring-opening dioxygenase LigAB, LigA subunit; InterPro: IPR011986 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A (IPR004183 from INTERPRO) and B (IPR004183 from INTERPRO). LigAB is a protocatechuate 4,5-dioxygenase (1.13.11.8 from EC) that belongs to the extradiol class III enzyme family. The LigA subunit of this enzyme is multi-helical, containing a compact array of 6 short helices [].; PDB: 1BOU_A 1B4U_A.
Probab=55.57 E-value=34 Score=28.61 Aligned_cols=45 Identities=27% Similarity=0.324 Sum_probs=32.4
Q ss_pred hhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHH-----HHHHHHcC
Q 014118 328 LQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREA-----IERLEAMG 397 (430)
Q Consensus 328 L~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~a-----I~rL~~lG 397 (430)
|+.++.+| .+|++.+...++++.+++ ...||+||+++ +.+|..+|
T Consensus 1 lNkf~~~L--~~~~~r~~F~~D~~a~~~-----------------------~~~Lt~eer~av~~rD~~~L~~~G 50 (88)
T PF07746_consen 1 LNKFCWSL--NDPENRERFLADPEAYLD-----------------------EYGLTEEERQAVLDRDWLALIALG 50 (88)
T ss_dssp HHHHHHGG--GSHHHHHHHHH-HHHHHH-----------------------CCT--HHHHHHHHCT-HHHHHHTT
T ss_pred ChHHHHHH--cCHHHHHHHHHCHHHHHH-----------------------HcCCCHHHHHHHHcCCHHHHHHCC
Confidence 45678888 789999999999888774 22578999998 45677887
No 169
>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=54.16 E-value=46 Score=36.50 Aligned_cols=20 Identities=20% Similarity=0.350 Sum_probs=13.3
Q ss_pred cccccCcchHHHHHHHHHcC
Q 014118 164 SNLVAGSNLEATVQQILDMG 183 (430)
Q Consensus 164 s~l~~g~~~e~~V~~i~eMG 183 (430)
....+|+.-+.....|+.-|
T Consensus 350 dQV~tGeae~~~~e~Iv~~~ 369 (574)
T PF07462_consen 350 DQVTTGEAENAQPENIVPEG 369 (574)
T ss_pred ccceeccccccchhhhhcCc
Confidence 45667776666677777666
No 170
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=53.99 E-value=47 Score=31.83 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=31.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CcEE--EeCCee---cCCcCchhhc
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQML--IHQGKV---LKDVTTLEEN 62 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~---~QkL--Iy~GKi---L~Dd~tLsdy 62 (430)
.+.+-|+.+.||.+|.+++..+.+ ++.+ .+|| +++||+ +..+..|.++
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 477889999999999999999988 5544 4555 578876 5678888876
No 171
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=53.15 E-value=4 Score=30.97 Aligned_cols=46 Identities=11% Similarity=-0.060 Sum_probs=38.6
Q ss_pred ccChHHHHHHHHHHHcCCChhHHHHHHHHcCCCHHHHHHHHhhcCCC
Q 014118 381 TVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMHE 427 (430)
Q Consensus 381 ~lt~ee~~aI~rL~~lGF~r~~viqAy~aCdkNe~~Aan~L~~~~~d 427 (430)
.++.+..+...+++..|+.+.. .++|..|.++++++..+.+.+.+.
T Consensus 7 ~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 52 (57)
T COG5272 7 KATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMDCERNLEA 52 (57)
T ss_pred ccccccccccchHHHHhhccch-hhhhhhccChhhhhcccccccccc
Confidence 4556666667889999999999 999999999999999998876543
No 172
>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=52.95 E-value=46 Score=28.09 Aligned_cols=74 Identities=16% Similarity=0.132 Sum_probs=45.2
Q ss_pred EEEEEeC-CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC----CcEEEeCCee--cCCcCchhhc-----ccCCCcE
Q 014118 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPAS----QQMLIHQGKV--LKDVTTLEEN-----KVAENSF 69 (430)
Q Consensus 2 kI~VKtl-~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~----~QkLIy~GKi--L~Dd~tLsdy-----gI~e~st 69 (430)
+|.|... .+..+++.++.+.|+.+|...+..+.... .... +-.|--.|+. |..+..|.+| .++.+..
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~-~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~~~ 96 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKD-LLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRGKD 96 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHH-TT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT--
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhh-cCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcCCC
Confidence 4666666 55678999999999999998887772110 1111 4455455552 6677888888 4566777
Q ss_pred EEEEEec
Q 014118 70 VVVMLTK 76 (430)
Q Consensus 70 I~vmv~k 76 (430)
++|++..
T Consensus 97 ~~L~Lv~ 103 (106)
T PF00794_consen 97 PHLVLVH 103 (106)
T ss_dssp EEEEEEE
T ss_pred cEEEEEe
Confidence 7777653
No 173
>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=52.35 E-value=29 Score=30.58 Aligned_cols=39 Identities=15% Similarity=0.152 Sum_probs=32.0
Q ss_pred ccChHHHHHHHHHHH-cCCChhHHHHHHHHcCCCHHHHHHHHh
Q 014118 381 TVTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYLL 422 (430)
Q Consensus 381 ~lt~ee~~aI~rL~~-lGF~r~~viqAy~aCdkNe~~Aan~L~ 422 (430)
.++++| |+-+++ -|-+|+.|++|+..|+.|.-.|.-+|-
T Consensus 76 ~i~~eD---I~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 76 EITEDD---IELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCCHHH---HHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 467766 555554 599999999999999999999988874
No 174
>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=52.14 E-value=50 Score=28.42 Aligned_cols=56 Identities=14% Similarity=0.130 Sum_probs=40.8
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCCCCC-CcEEEeCCeecCCcCchhhc---ccCCCcEEEEEEe
Q 014118 17 VKPEDKVSDVKKNIETVQGSDVYPAS-QQMLIHQGKVLKDVTTLEEN---KVAENSFVVVMLT 75 (430)
Q Consensus 17 V~~s~TV~dLK~kI~~~~g~~~ip~~-~QkLIy~GKiL~Dd~tLsdy---gI~e~stI~vmv~ 75 (430)
|..+.||.++...|..+.. +.++ ..-|+.++..+..+.+|+++ .-.++.+|+|..+
T Consensus 39 vp~~~tv~qf~~~ir~rl~---l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys 98 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQ---LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYS 98 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT-----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEE
T ss_pred EcCCCchhhHHHHhhhhhc---CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEec
Confidence 6788999999999999987 6554 35666788777888898776 2246778888764
No 175
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=52.01 E-value=17 Score=36.57 Aligned_cols=35 Identities=23% Similarity=0.364 Sum_probs=30.2
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHh-cCChHHHHHHH-HhC
Q 014118 176 VQQILDMGGGSWDRETVIRALRAA-YNNPERAVEYL-YSG 213 (430)
Q Consensus 176 V~~i~eMG~~~f~reqV~~ALrAa-fnNpdRAVEyL-~~G 213 (430)
++.+|+|| |++.-+.+||--. .-+.+-|++|| +.+
T Consensus 4 ~~~l~~mg---fps~k~e~al~~~~n~~~e~al~wl~~d~ 40 (290)
T KOG2689|consen 4 AQSLEEMG---FPSGKAEKALAVYGNRGIEQALDWLEMDH 40 (290)
T ss_pred HHHHHHhc---CchhhhhhHhhhhccccHHHHHHHHHhcc
Confidence 38899999 9999999999877 66788999999 555
No 176
>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=51.86 E-value=38 Score=37.26 Aligned_cols=65 Identities=25% Similarity=0.340 Sum_probs=42.1
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCC------CCCcEEEe--C--Ce-ecCCc-------------CchhhcccCC
Q 014118 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYP------ASQQMLIH--Q--GK-VLKDV-------------TTLEENKVAE 66 (430)
Q Consensus 11 k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip------~~~QkLIy--~--GK-iL~Dd-------------~tLsdygI~e 66 (430)
..+.+.|-.-|||.++|+||-...=++ .| +++.-|-+ + |+ +|.|. .||..|+|.+
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 447788888999999999998764332 33 33444432 2 23 56553 3689999999
Q ss_pred CcEEEEEEec
Q 014118 67 NSFVVVMLTK 76 (430)
Q Consensus 67 ~stI~vmv~k 76 (430)
|++|.++.+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9998887654
No 177
>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=51.67 E-value=3.6 Score=30.42 Aligned_cols=20 Identities=30% Similarity=0.692 Sum_probs=13.0
Q ss_pred HHHHH-HcCCCCCCHHHHHHHHHH
Q 014118 176 VQQIL-DMGGGSWDRETVIRALRA 198 (430)
Q Consensus 176 V~~i~-eMG~~~f~reqV~~ALrA 198 (430)
|..|- .|| |+|+++..||+.
T Consensus 6 v~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 6 VSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp HHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHhC---CCHHHHHHHHHc
Confidence 44443 499 999999999997
No 178
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=51.50 E-value=38 Score=34.95 Aligned_cols=62 Identities=8% Similarity=0.135 Sum_probs=44.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
|+|+|. |+.+ ++....||.+|-+. .+ ++.+...+.+||+++.- ....++-|++|+.|-++--
T Consensus 1 M~I~VN---Gk~~--el~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~~ 62 (326)
T PRK11840 1 MRIRLN---GEPR--QVPAGLTIAALLAE----LG---LAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVHF 62 (326)
T ss_pred CEEEEC---CEEE--ecCCCCcHHHHHHH----cC---CCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEEE
Confidence 566654 6654 45667888887654 45 77888999999999953 3355667899999988743
No 179
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=48.04 E-value=23 Score=30.44 Aligned_cols=30 Identities=23% Similarity=0.485 Sum_probs=27.2
Q ss_pred CcchHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 014118 169 GSNLEATVQQILDMGGGSWDRETVIRALRAAYN 201 (430)
Q Consensus 169 g~~~e~~V~~i~eMG~~~f~reqV~~ALrAafn 201 (430)
-.|+..++.+|.+-| ++++....+|+++|+
T Consensus 68 ~~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Yk 97 (100)
T PF15652_consen 68 QEEFNNSYREMFDAG---VSKECRKKALKAQYK 97 (100)
T ss_pred HHHHHHHHHHHHHcC---CCHHHHHHHHHHHHh
Confidence 467889999999999 999999999999875
No 180
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=47.99 E-value=63 Score=26.53 Aligned_cols=53 Identities=23% Similarity=0.277 Sum_probs=40.9
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe-CCeecCCcCchhhcccCCCcEEEEEE
Q 014118 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QGKVLKDVTTLEENKVAENSFVVVML 74 (430)
Q Consensus 10 gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy-~GKiL~Dd~tLsdygI~e~stI~vmv 74 (430)
++.+.+.++...||+++-+. .| +|..+..+|+ +|+...=+ |-+++|+.|.|.-
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG---VP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG---VPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC---CChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence 45677889999999987654 68 9999998764 88876543 6778999998873
No 181
>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=47.81 E-value=65 Score=26.49 Aligned_cols=36 Identities=11% Similarity=0.098 Sum_probs=32.0
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC
Q 014118 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (430)
Q Consensus 12 ~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G 50 (430)
++.|.+.+..+..+|..+|.++.. .+++..+|-|.-
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 889999998863
No 182
>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=47.37 E-value=61 Score=26.26 Aligned_cols=63 Identities=21% Similarity=0.221 Sum_probs=39.3
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe------CCeecCCcCchhhcccCCCcEEEEEEec
Q 014118 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH------QGKVLKDVTTLEENKVAENSFVVVMLTK 76 (430)
Q Consensus 11 k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy------~GKiL~Dd~tLsdygI~e~stI~vmv~k 76 (430)
++|-+=.+++.||.+|+..|..++.+ +.|....|.- .|--|+.+-.+++. +..+++|.|+++.
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 45666678999999999999999875 3344334431 12223333444443 2467788887753
No 183
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=46.19 E-value=42 Score=29.55 Aligned_cols=41 Identities=20% Similarity=0.162 Sum_probs=33.3
Q ss_pred cccChHHHHHHHHHHH-cCCChhHHHHHHHHcCCCHHHHHHHHhh
Q 014118 380 VTVTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYLLD 423 (430)
Q Consensus 380 i~lt~ee~~aI~rL~~-lGF~r~~viqAy~aCdkNe~~Aan~L~~ 423 (430)
..++++| |+-+++ -|-+|..|++|+..|+.|.-.|.-+|-+
T Consensus 73 ~~i~~ed---I~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 73 VEIPEED---IELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCCHHH---HHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 3567777 555555 5999999999999999999999888753
No 184
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=45.36 E-value=22 Score=36.89 Aligned_cols=66 Identities=14% Similarity=0.062 Sum_probs=52.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC---eecC--CcCchhhcccCCCcE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG---KVLK--DVTTLEENKVAENSF 69 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G---KiL~--Dd~tLsdygI~e~st 69 (430)
.|.||..+|+.+...+-.+++|.-|=..+.....+ .+-+..||+.+= |.|. .+.||.++||.+..+
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 48899999988777778899999888877777653 667788998876 6664 478999999997654
No 185
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=45.29 E-value=28 Score=33.31 Aligned_cols=29 Identities=28% Similarity=0.424 Sum_probs=25.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 014118 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (430)
Q Consensus 171 ~~e~~V~~i~eMG~~~f~reqV~~ALrAafnN 202 (430)
..++.|.-|+++| |.+.++.+|++...++
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 9999999999977664
No 186
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.91 E-value=19 Score=37.13 Aligned_cols=55 Identities=16% Similarity=0.134 Sum_probs=43.4
Q ss_pred EeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe---CCee-----cCCcCchhhcccCCCcEEEEE
Q 014118 16 EVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKV-----LKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 16 eV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy---~GKi-----L~Dd~tLsdygI~e~stI~vm 73 (430)
-|.-.-||.|+|+++..+.| +...++||+| .||. ..-++.|-.|+|.+|+.+.|-
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 34456699999999999999 8899999987 3443 233577888999999988764
No 187
>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=44.89 E-value=34 Score=24.88 Aligned_cols=32 Identities=22% Similarity=0.495 Sum_probs=23.7
Q ss_pred hhHHHHHHhhhCHHHHHHHHH--cHHHHHHHhcCC
Q 014118 328 LQPMLQELGKQNPHLMRLIQE--HQTDFLRLINEP 360 (430)
Q Consensus 328 L~~~lqqi~~~nP~l~~lI~~--n~~~Fl~~l~~~ 360 (430)
|..+|+.+ ++||+|.+.+.+ ++++|+.+..+.
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 34555555 578888888877 899999987653
No 188
>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=43.86 E-value=1.9e+02 Score=24.00 Aligned_cols=59 Identities=10% Similarity=0.049 Sum_probs=40.5
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-cEEEeCCeec-CCcCchhhc--ccCCCcEEEEEEe
Q 014118 14 EIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVL-KDVTTLEEN--KVAENSFVVVMLT 75 (430)
Q Consensus 14 ~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GKiL-~Dd~tLsdy--gI~e~stI~vmv~ 75 (430)
.+-|+.+.||.++...|.++.+ +.+++ .-|..+...+ ..+.+++++ ..+++.+++|.-.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~---l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys 81 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLK---LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYC 81 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhC---CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEe
Confidence 3558999999999999999988 55554 4444454434 345666554 2267888888764
No 189
>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=43.83 E-value=90 Score=25.80 Aligned_cols=35 Identities=14% Similarity=0.163 Sum_probs=28.0
Q ss_pred EEEEEeCCCcEEEEEeCC--CCcHHHHHHHHHHHhCCCCCC
Q 014118 2 KVFVKTLKGTHFEIEVKP--EDKVSDVKKNIETVQGSDVYP 40 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~--s~TV~dLK~kI~~~~g~~~ip 40 (430)
+|++. .+|.+..+.+++ +.+..+|++.|...++ ++
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 467788888888 7799999999999999 66
No 190
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=43.34 E-value=41 Score=35.91 Aligned_cols=73 Identities=16% Similarity=0.162 Sum_probs=57.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE--EeCCeecCC---cCchhhcccCCCcEEEEEEec
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKD---VTTLEENKVAENSFVVVMLTK 76 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL--Iy~GKiL~D---d~tLsdygI~e~stI~vmv~k 76 (430)
+|.||..+|..|.-.+..++-+..+|..|....+ +.....-| -|-.|+..| +++|.++.+.+...|+|+-++
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 6889989999998888888888999999987776 55555555 588888854 579999999998887777544
Q ss_pred C
Q 014118 77 S 77 (430)
Q Consensus 77 ~ 77 (430)
+
T Consensus 393 r 393 (506)
T KOG2507|consen 393 R 393 (506)
T ss_pred C
Confidence 3
No 191
>PF13556 HTH_30: PucR C-terminal helix-turn-helix domain; PDB: 3ONQ_B.
Probab=43.14 E-value=25 Score=26.57 Aligned_cols=22 Identities=23% Similarity=0.128 Sum_probs=18.0
Q ss_pred HHHHHHHHcCCCHHHHHHHHhh
Q 014118 402 LVLEVFFACNKNEELAANYLLD 423 (430)
Q Consensus 402 ~viqAy~aCdkNe~~Aan~L~~ 423 (430)
..+.+|+.|+.|...||.-|+=
T Consensus 3 ~TL~~yl~~~~n~~~tA~~L~i 24 (59)
T PF13556_consen 3 ETLRAYLENNGNISKTARALHI 24 (59)
T ss_dssp -HHHHHHHTTT-HHHHHHHHTS
T ss_pred hHHHHHHHcCCCHHHHHHHHCC
Confidence 3679999999999999998873
No 192
>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=41.42 E-value=74 Score=27.66 Aligned_cols=45 Identities=20% Similarity=0.322 Sum_probs=33.7
Q ss_pred hhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHHHH-----HHHHcC
Q 014118 328 LQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAIE-----RLEAMG 397 (430)
Q Consensus 328 L~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~aI~-----rL~~lG 397 (430)
|..++.+|. .|+.++...+|++.+++-- .||+||++||. +|..+|
T Consensus 16 LN~f~~sL~--~a~~Re~F~aD~eAy~~~~-----------------------gLTeEe~~AV~~rD~~~Li~lG 65 (106)
T cd07921 16 LNKMCMSLN--KAENREAFKADEEAYCDKF-----------------------GLTEEQKQAVLDRDWLRLLELG 65 (106)
T ss_pred HHHHHHHHC--CHHHHHHHHhCHHHHHHHc-----------------------CCCHHHHHHHHhCCHHHHHHhc
Confidence 557788885 8999999999988887532 46888888864 466666
No 193
>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=40.85 E-value=86 Score=24.85 Aligned_cols=56 Identities=14% Similarity=0.068 Sum_probs=39.7
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe--CCeecCCcCchhh
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEE 61 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy--~GKiL~Dd~tLsd 61 (430)
+.|--.+|+.-.+.|.+..||.++-.++.++.| +.++...+.. ..|.|..+.....
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~ 60 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSS 60 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceee
Confidence 456667898899999999999999999999999 7777665543 4456665555443
No 194
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=40.57 E-value=14 Score=31.14 Aligned_cols=48 Identities=29% Similarity=0.434 Sum_probs=40.1
Q ss_pred HHHHHHHHHHhCccchhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCC
Q 014118 313 QFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEP 360 (430)
Q Consensus 313 ~f~~lR~~vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~ 360 (430)
--.+|+++++.+-.-|.-=+..|.+-+|+|++.|.+||..|+.++.+.
T Consensus 18 Y~~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~a 65 (121)
T PF14551_consen 18 YMDQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEEA 65 (121)
T ss_dssp CHHHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHHH
T ss_pred HHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346888999888888888889999999999999999999999997654
No 195
>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=40.43 E-value=18 Score=28.02 Aligned_cols=52 Identities=40% Similarity=0.563 Sum_probs=32.3
Q ss_pred hHHhhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhHHHH--HHHHHHHHhCccchhHHHHHHhhhC-HHHHHHHHH
Q 014118 277 LDFLRNSQQVSMMFYLFASLLFICDVFWYSYFRLLFQF--QALRTMVQANPQILQPMLQELGKQN-PHLMRLIQE 348 (430)
Q Consensus 277 l~~Lr~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f--~~lR~~vq~nP~lL~~~lqqi~~~n-P~l~~lI~~ 348 (430)
|++||++|+...|-.++ +..|+. .-|.++-++||++++ +.++| -+|+++|.+
T Consensus 1 L~~Lr~~Pqf~~lR~~v---------------q~NP~lL~~lLqql~~~nP~l~q-----~I~~n~e~Fl~ll~~ 55 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLV---------------QQNPQLLPPLLQQLGQSNPQLLQ-----LIQQNPEEFLRLLNE 55 (59)
T ss_dssp CGGGTTSHHHHHHHHHH---------------HC-GGGHHHHHHHHHCCSHHHHH-----HHHHTHHHHHHHHHS
T ss_pred ChHHHcChHHHHHHHHH---------------HHCHHHHHHHHHHHhccCHHHHH-----HHHHCHHHHHHHHcC
Confidence 57889998544333322 234442 236677789998777 66777 457777765
No 196
>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=39.99 E-value=1.9e+02 Score=22.99 Aligned_cols=50 Identities=20% Similarity=0.226 Sum_probs=34.7
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEE--eCC----eecCCc-Cchh
Q 014118 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQG----KVLKDV-TTLE 60 (430)
Q Consensus 10 gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~G----KiL~Dd-~tLs 60 (430)
+...+|.|+.++|..+|-+.+..+.+.+. .+....|+ +.+ +.|.|+ ..|.
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 55568999999999999999999999431 35555553 333 466654 4543
No 197
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=39.73 E-value=31 Score=31.31 Aligned_cols=31 Identities=23% Similarity=0.308 Sum_probs=25.7
Q ss_pred eecCCcCchhhcccCCCcEEEEEEecCCCCC
Q 014118 51 KVLKDVTTLEENKVAENSFVVVMLTKSKVSS 81 (430)
Q Consensus 51 KiL~Dd~tLsdygI~e~stI~vmv~k~k~~~ 81 (430)
|-.+|+++|..++++-|++|.|.+..++..+
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~~~ 142 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNRRP 142 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCcccCC
Confidence 3457899999999999999999998766543
No 198
>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=39.64 E-value=33 Score=28.39 Aligned_cols=55 Identities=20% Similarity=0.264 Sum_probs=36.9
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCee--------cC------CcCchhhcccCCCcEEEEE
Q 014118 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKV--------LK------DVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 15 IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKi--------L~------Dd~tLsdygI~e~stI~vm 73 (430)
|+|++++|+.+|-+.+++... +....--|-.+||- |+ =+++|.++ +.+|..|+|.
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 IEVSPSWTLQDLIDSLCEKPE---FQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTT---T--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChh---hhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 678999999999999988743 32333333333332 21 25789999 8999888874
No 199
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=39.01 E-value=47 Score=33.82 Aligned_cols=36 Identities=28% Similarity=0.353 Sum_probs=30.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHH
Q 014118 174 ATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (430)
Q Consensus 174 ~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~ 211 (430)
.+|.+|-++-| -.=-+|.+||..+.+|-|.|||||-
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 57888888822 4457899999999999999999996
No 200
>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=38.90 E-value=32 Score=32.63 Aligned_cols=27 Identities=15% Similarity=0.407 Sum_probs=24.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYN 201 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafn 201 (430)
.++.+..|+.+| |++.++.+|++....
T Consensus 147 ~~e~~~aL~~LG---y~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 147 RDELFEALVSLG---YKPQEIQQALKKIKN 173 (191)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 578999999999 999999999998865
No 201
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=38.27 E-value=1.7e+02 Score=23.40 Aligned_cols=54 Identities=6% Similarity=0.114 Sum_probs=32.6
Q ss_pred EEeCC-CCcHHHHHHHHHHHhCC--CCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 15 IEVKP-EDKVSDVKKNIETVQGS--DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 15 IeV~~-s~TV~dLK~kI~~~~g~--~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
++++. ..||.+|++.+.+++.. ........++..+++...+ +.-|++|+.|.++
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 47999999999887641 0011223344456654332 3358889999887
No 202
>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=36.45 E-value=1.1e+02 Score=25.86 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=31.9
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe
Q 014118 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH 48 (430)
Q Consensus 5 VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy 48 (430)
++...|.+..+.|+.+.+..+|+.++.+..+ +... +.|-|
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 4556788888999999999999999999998 5444 55544
No 203
>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=36.21 E-value=31 Score=33.81 Aligned_cols=50 Identities=20% Similarity=0.420 Sum_probs=39.6
Q ss_pred hhhhHHHHHHHHHHHHhCccchhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcC
Q 014118 307 YFRLLFQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINE 359 (430)
Q Consensus 307 ~~~~~~~f~~lR~~vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~ 359 (430)
.||.+.....||+.+..+|. .++..+...+|++..-.||+-.+|+..|..
T Consensus 14 vLQ~L~~~~~~~~~~l~~P~---~~~~~l~~~~~~f~~~~QqDA~Efl~~lld 63 (279)
T cd02667 14 VMQNLSQTPALRELLSETPK---ELFSQVCRKAPQFKGYQQQDSHELLRYLLD 63 (279)
T ss_pred HHHHHhcCHHHHHHHHHCHH---HHHHHHHHhhHhhcCCchhhHHHHHHHHHH
Confidence 34555566678888888886 678888889999887789999999888764
No 204
>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=35.97 E-value=1.5e+02 Score=23.39 Aligned_cols=52 Identities=21% Similarity=0.188 Sum_probs=36.2
Q ss_pred EEEEeCCCc----EEEEEeCCCCcHHHHHHHHHHHhCCCCC--CCCCcEEE----eCC--eecCCcC
Q 014118 3 VFVKTLKGT----HFEIEVKPEDKVSDVKKNIETVQGSDVY--PASQQMLI----HQG--KVLKDVT 57 (430)
Q Consensus 3 I~VKtl~gk----~~~IeV~~s~TV~dLK~kI~~~~g~~~i--p~~~QkLI----y~G--KiL~Dd~ 57 (430)
|.|-...+. ...|.|..++|+.+|-+.+..+.+ + .+....|+ ..| +.|.|+.
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~---l~~~~~~y~L~~~~~~~~~er~L~~~E 68 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFG---LAEDPSDYCLVEVEESGGEERPLDDDE 68 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTT---TSSSGGGEEEEEEECTTTEEEEETTTS
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhC---CCCCCCCEEEEEEEcCCCEEEEcCCCC
Confidence 445555555 678999999999999999999999 5 33445663 223 4676544
No 205
>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=35.63 E-value=30 Score=24.45 Aligned_cols=24 Identities=29% Similarity=0.505 Sum_probs=20.1
Q ss_pred CChhHHHHHHHHcCCCHHHHHHHH
Q 014118 398 FDRALVLEVFFACNKNEELAANYL 421 (430)
Q Consensus 398 F~r~~viqAy~aCdkNe~~Aan~L 421 (430)
|+++.+.+|+-.|++|...||..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 347788999999999999999887
No 206
>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=35.41 E-value=1e+02 Score=25.31 Aligned_cols=64 Identities=13% Similarity=0.218 Sum_probs=40.3
Q ss_pred EEEEeCCC-cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe--CCeecCCcCchhhcccCCCcEEEEEEe
Q 014118 3 VFVKTLKG-THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 3 I~VKtl~g-k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy--~GKiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
+.|++.+. .++-|-+ .++.+|+.|.....+ ++.+..+|+. .|.+++|+.-+.. +.++ ++.|++.
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~t--Lp~n-T~lm~L~ 71 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQT--LPDN-TVLMLLE 71 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCC--SSSS-EEEEEEE
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhh--CCCC-CEEEEEC
Confidence 35555543 3444555 489999999999999 8777777754 7888877644432 3444 4444443
No 207
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=35.41 E-value=89 Score=31.59 Aligned_cols=70 Identities=9% Similarity=0.193 Sum_probs=50.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecC-C--cCchhhcccCCCcEEEE
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK-D--VTTLEENKVAENSFVVV 72 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~-D--d~tLsdygI~e~stI~v 72 (430)
.|.||..+|+++...+....|...|+.-|.-..+.+ ..+-...--|=-+.+. | .++|..+++....+|++
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 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDG-LDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCC-CCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 578998899999999999999999999999888832 2122222223345553 2 47899999888776654
No 208
>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=34.71 E-value=87 Score=25.36 Aligned_cols=41 Identities=22% Similarity=0.349 Sum_probs=30.0
Q ss_pred hhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHHH-----HHHHHcCCCh
Q 014118 337 KQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAI-----ERLEAMGFDR 400 (430)
Q Consensus 337 ~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~aI-----~rL~~lGF~r 400 (430)
..+|++.+...+||+.++.=- .||+||++|| .+|..+|-.-
T Consensus 13 ~~~~~~re~f~~dp~a~~~~~-----------------------~Lt~eE~~al~~rD~~~L~~lG~~~ 58 (77)
T cd07321 13 LVKPEVKERFKADPEAVLAEY-----------------------GLTPEEKAALLARDVGALYVLGVNP 58 (77)
T ss_pred hcCHHHHHHHHhCHHHHHHHc-----------------------CCCHHHHHHHHcCCHHHHHHcCCCH
Confidence 356888888888888887532 4799999996 4577777443
No 209
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=34.47 E-value=42 Score=32.12 Aligned_cols=27 Identities=11% Similarity=0.324 Sum_probs=24.5
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 014118 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (430)
Q Consensus 171 ~~e~~V~~i~eMG~~~f~reqV~~ALrAaf 200 (430)
..++.+.-|+.+| |.+.++.+|++...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3578999999999 99999999999885
No 210
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=34.11 E-value=73 Score=32.64 Aligned_cols=39 Identities=23% Similarity=0.299 Sum_probs=34.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
.++.++-|.+-| .+.+++..+++.+.++|.+|.+|+..+
T Consensus 174 ~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~~ 212 (319)
T PRK08769 174 AHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRED 212 (319)
T ss_pred HHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 467788888889 999999999999999999999998654
No 211
>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=32.74 E-value=1.9e+02 Score=26.56 Aligned_cols=74 Identities=16% Similarity=0.093 Sum_probs=38.3
Q ss_pred CEEEEEeCCCcEEEEEeC-CCCcHHHHHHHHHHHhCCC-CCCCCCc----EEE-eCCeecCCcCchhhcccCCCcEEEEE
Q 014118 1 MKVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSD-VYPASQQ----MLI-HQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~-~s~TV~dLK~kI~~~~g~~-~ip~~~Q----kLI-y~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
|||+|.. ....+.|-+. .+.||.+|-++--.++.+- ...++.. +|- -.|-+|+.+..|.+. +.+.+.|+.+
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 4445667665 5589999876655443220 0222322 333 256688877788775 4566777766
Q ss_pred Eec
Q 014118 74 LTK 76 (430)
Q Consensus 74 v~k 76 (430)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 554
No 212
>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=32.30 E-value=28 Score=27.05 Aligned_cols=18 Identities=22% Similarity=0.767 Sum_probs=11.3
Q ss_pred HHHHHHHHHhCccchhHH
Q 014118 314 FQALRTMVQANPQILQPM 331 (430)
Q Consensus 314 f~~lR~~vq~nP~lL~~~ 331 (430)
|++|+.+|++||++.+.+
T Consensus 2 ~~~lt~~I~~~p~l~ekI 19 (64)
T PF09494_consen 2 FEALTKLIRSDPELYEKI 19 (64)
T ss_pred HHHHHHHHHcCHHHHHHH
Confidence 567777777666654433
No 213
>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=31.55 E-value=1.9e+02 Score=24.15 Aligned_cols=62 Identities=18% Similarity=0.229 Sum_probs=42.8
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh-CCCCCCC--C-CcEEEeCC--eecCCcCchhhcccCCCcEEEEEEe
Q 014118 13 FEIEVKPEDKVSDVKKNIETVQ-GSDVYPA--S-QQMLIHQG--KVLKDVTTLEENKVAENSFVVVMLT 75 (430)
Q Consensus 13 ~~IeV~~s~TV~dLK~kI~~~~-g~~~ip~--~-~QkLIy~G--KiL~Dd~tLsdygI~e~stI~vmv~ 75 (430)
.-+.|+..+|+.++-++++... |.. +++ . ..++-++| ..|..+.++.+-||+.-+.|-++..
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 4578999999999999998553 322 332 2 44666888 8999999999999999998887653
No 214
>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=31.39 E-value=1.4e+02 Score=24.97 Aligned_cols=55 Identities=20% Similarity=0.211 Sum_probs=33.9
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEe-CC------eecCCcCc---h--hhcccCCCcEEEEEE
Q 014118 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG------KVLKDVTT---L--EENKVAENSFVVVML 74 (430)
Q Consensus 15 IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy-~G------KiL~Dd~t---L--sdygI~e~stI~vmv 74 (430)
++++...||.+|-..|...+. ..+-+|+. +| -+|-++.. + .++-+++|+.|.++-
T Consensus 23 ~~~~~~~tV~dll~~L~~~~~-----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P 89 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNLL-----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFIS 89 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhCc-----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEEC
Confidence 344456799999999987753 33444433 23 23433333 3 356789999998873
No 215
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=31.25 E-value=49 Score=31.84 Aligned_cols=28 Identities=18% Similarity=0.535 Sum_probs=24.5
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafnN 202 (430)
.++.|.-|+.+| |.+.|+.+|+....-+
T Consensus 156 ~~~~v~AL~~LG---y~~~e~~~av~~v~~~ 183 (201)
T COG0632 156 LEEAVEALVALG---YKEKEIKKAVKKVLKE 183 (201)
T ss_pred hhHHHHHHHHcC---CCHHHHHHHHHHHHhc
Confidence 355699999999 9999999999988765
No 216
>PLN03196 MOC1-like protein; Provisional
Probab=30.87 E-value=1e+02 Score=33.34 Aligned_cols=22 Identities=18% Similarity=0.244 Sum_probs=12.0
Q ss_pred HHHHHHHHcCCChhHHHHHHHH
Q 014118 388 EAIERLEAMGFDRALVLEVFFA 409 (430)
Q Consensus 388 ~aI~rL~~lGF~r~~viqAy~a 409 (430)
..|+.|+++|++++.+......
T Consensus 270 p~v~~L~elGv~~~~i~~lI~~ 291 (487)
T PLN03196 270 PNVECLLEFGVRKEALPSVIAQ 291 (487)
T ss_pred HHHHHHHHcCCCHHHHHHHHHh
Confidence 3456666666666655444333
No 217
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.29 E-value=62 Score=30.63 Aligned_cols=27 Identities=11% Similarity=0.459 Sum_probs=24.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYN 201 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafn 201 (430)
.++.+.-|+.+| |.+.++.+|++....
T Consensus 143 ~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 143 YHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 578999999999 999999999998854
No 218
>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=30.25 E-value=1.6e+02 Score=22.22 Aligned_cols=37 Identities=30% Similarity=0.316 Sum_probs=30.3
Q ss_pred HHHHHHHHH--cCCCCCCHHHHHHHHHHhcCChHHHHHHHHh
Q 014118 173 EATVQQILD--MGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (430)
Q Consensus 173 e~~V~~i~e--MG~~~f~reqV~~ALrAafnNpdRAVEyL~~ 212 (430)
|..|.+.-. -| -+|+-++|-|+-..-|++.||.-|++
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 48 99999999999999999999999986
No 219
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=30.17 E-value=1.3e+02 Score=26.47 Aligned_cols=38 Identities=11% Similarity=0.211 Sum_probs=32.0
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeec
Q 014118 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL 53 (430)
Q Consensus 13 ~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL 53 (430)
-...|++++|+..+...|.+..+ ++..++-.+|=..-.
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sF 84 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSF 84 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCcc
Confidence 45688999999999999999999 888988888755544
No 220
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=29.66 E-value=3.9e+02 Score=24.19 Aligned_cols=31 Identities=29% Similarity=0.395 Sum_probs=24.7
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChH
Q 014118 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPE 204 (430)
Q Consensus 170 ~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpd 204 (430)
+.| ..--.|+.|| .++..|+.-|++---+|+
T Consensus 114 P~y-~kYfKMl~~G---vP~~aVk~KM~~eGlDp~ 144 (148)
T PF10152_consen 114 PRY-AKYFKMLKMG---VPREAVKQKMQAEGLDPS 144 (148)
T ss_pred ccH-HHHHHHHHcC---CCHHHHHHHHHHcCCCHH
Confidence 445 4455677999 999999999998877765
No 221
>COG3444 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]
Probab=29.62 E-value=82 Score=29.28 Aligned_cols=53 Identities=25% Similarity=0.342 Sum_probs=33.1
Q ss_pred HHHcHHHHHHHhcCCCCCC---CCCccccc-ccCCCcccccChHHHHHHHHHHHcCC
Q 014118 346 IQEHQTDFLRLINEPVEGG---EGNVLGQL-ASAMPQAVTVTPEEREAIERLEAMGF 398 (430)
Q Consensus 346 I~~n~~~Fl~~l~~~~~~~---~g~~~~~~-~~~~~~~i~lt~ee~~aI~rL~~lGF 398 (430)
|=++|+++++++.+++.=. =|...... .......|.|+++|.++.++|.+.|.
T Consensus 82 l~~~p~d~~~lve~gv~I~~iNVG~m~~~~gk~~i~k~vsl~e~D~~af~~L~~~Gv 138 (159)
T COG3444 82 LFENPQDVLRLVEGGVPIKTINVGGMAFREGKKQITKAVSLDEKDIAAFKKLKAKGV 138 (159)
T ss_pred EECCHHHHHHHHhcCCCCcEEEEcCccCCCCcEEeecceeeCHHHHHHHHHHHhcCc
Confidence 4567788999887664210 01100000 01123468899999999999999993
No 222
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.79 E-value=5.2e+02 Score=25.58 Aligned_cols=16 Identities=6% Similarity=0.133 Sum_probs=14.2
Q ss_pred hcccCCCcEEEEEEec
Q 014118 61 ENKVAENSFVVVMLTK 76 (430)
Q Consensus 61 dygI~e~stI~vmv~k 76 (430)
|||+|+|.||.+-++.
T Consensus 149 DlgFKEGeTIkinikn 164 (253)
T KOG2500|consen 149 DLGFKEGETIKINIKN 164 (253)
T ss_pred cccccCCcEEEEEeec
Confidence 4999999999999883
No 223
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=28.20 E-value=66 Score=30.43 Aligned_cols=27 Identities=7% Similarity=0.375 Sum_probs=24.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYN 201 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafn 201 (430)
.++.+.-|+.+| |.|.++.+|++....
T Consensus 145 ~~e~~~aL~~LG---y~~~ea~~al~~v~~ 171 (186)
T PRK14600 145 NDDALAALISLG---YEKTKAFNAIQKIKP 171 (186)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhc
Confidence 578999999999 999999999998753
No 224
>PF13974 YebO: YebO-like protein
Probab=27.70 E-value=73 Score=26.33 Aligned_cols=33 Identities=39% Similarity=0.520 Sum_probs=24.5
Q ss_pred HHHHHHHHHhCcc--chhHHHHHHhhhCHHHHHHH
Q 014118 314 FQALRTMVQANPQ--ILQPMLQELGKQNPHLMRLI 346 (430)
Q Consensus 314 f~~lR~~vq~nP~--lL~~~lqqi~~~nP~l~~lI 346 (430)
|=-.|-=++.|-+ +|+.+|+|-.++|-=|.++.
T Consensus 16 FFVnRaSvRANEQI~LL~~ileqQKrQn~LL~rL~ 50 (80)
T PF13974_consen 16 FFVNRASVRANEQIELLEEILEQQKRQNALLRRLC 50 (80)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4467888888887 88899998888886444443
No 225
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=27.61 E-value=1.1e+02 Score=31.48 Aligned_cols=38 Identities=16% Similarity=0.230 Sum_probs=31.1
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHHHhC
Q 014118 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (430)
Q Consensus 173 e~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL~~G 213 (430)
+...+-|.+- | .+.+++..++|.|.++|.+|.+||-.|
T Consensus 170 ~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 170 QYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred HHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 4555556665 7 899999999999999999999998644
No 226
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=27.11 E-value=45 Score=23.56 Aligned_cols=24 Identities=29% Similarity=0.491 Sum_probs=18.0
Q ss_pred ccchhHHHHHHhhhCHHHHHHHHH
Q 014118 325 PQILQPMLQELGKQNPHLMRLIQE 348 (430)
Q Consensus 325 P~lL~~~lqqi~~~nP~l~~lI~~ 348 (430)
.+-|+.+|+.|-+.||++.+-|..
T Consensus 12 ~~qL~~lL~~l~~~HPei~~~i~~ 35 (38)
T PF14483_consen 12 KDQLQSLLQSLCERHPEIQQEIRS 35 (38)
T ss_dssp HHHHHHHHHHHHHHSTHHHHHHHT
T ss_pred HHHHHHHHHHHHHhChhHHHHHHh
Confidence 344566778889999998887753
No 227
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=26.96 E-value=64 Score=30.72 Aligned_cols=27 Identities=11% Similarity=0.194 Sum_probs=24.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAAYN 201 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAafn 201 (430)
.++.+.-|+.+| |.+.++.+|++....
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i~~ 175 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAALPS 175 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 478999999999 999999999998754
No 228
>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=26.79 E-value=1.9e+02 Score=23.99 Aligned_cols=57 Identities=11% Similarity=0.081 Sum_probs=39.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCe-----ecCCcCchhhc
Q 014118 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK-----VLKDVTTLEEN 62 (430)
Q Consensus 2 kI~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GK-----iL~Dd~tLsdy 62 (430)
+.+|+ ..|.+..+.++..-|-..|++||...+. +|....-|.|-.. -|.|+.-|.++
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 4566667777778899999999999999 8887777766322 24455555554
No 229
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=26.64 E-value=73 Score=30.11 Aligned_cols=25 Identities=20% Similarity=0.541 Sum_probs=23.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 014118 172 LEATVQQILDMGGGSWDRETVIRALRAA 199 (430)
Q Consensus 172 ~e~~V~~i~eMG~~~f~reqV~~ALrAa 199 (430)
.++.+.-|+++| |.+.++.+|++..
T Consensus 142 ~~ea~~AL~~LG---y~~~ea~~a~~~~ 166 (183)
T PRK14601 142 KSEALAALLTLG---FKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHhc
Confidence 578999999999 9999999999876
No 230
>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=26.25 E-value=1.3e+02 Score=24.42 Aligned_cols=32 Identities=19% Similarity=0.081 Sum_probs=21.5
Q ss_pred EEEeCCCcE-EEEEeC-CCCcHHHHHHHHHHHhC
Q 014118 4 FVKTLKGTH-FEIEVK-PEDKVSDVKKNIETVQG 35 (430)
Q Consensus 4 ~VKtl~gk~-~~IeV~-~s~TV~dLK~kI~~~~g 35 (430)
+.|....+. ..|.++ ...+|.+||..|..+.+
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 344444433 357776 46799999999987766
No 231
>PF07939 DUF1685: Protein of unknown function (DUF1685); InterPro: IPR012881 The members of this family are hypothetical eukaryotic proteins of unknown function. The region in question is approximately 100 amino acid residues long.
Probab=26.18 E-value=48 Score=26.24 Aligned_cols=31 Identities=26% Similarity=0.582 Sum_probs=21.5
Q ss_pred cChHHHHHHHHHHHcC--CChhH----------HHHHHHHcCC
Q 014118 382 VTPEEREAIERLEAMG--FDRAL----------VLEVFFACNK 412 (430)
Q Consensus 382 lt~ee~~aI~rL~~lG--F~r~~----------viqAy~aCdk 412 (430)
||.+|.+-++--++|| |++.. +++-|+|-+|
T Consensus 1 lTd~dldELkGc~dLGFgF~~~~~~p~L~~tlPaL~lyyavn~ 43 (64)
T PF07939_consen 1 LTDDDLDELKGCIDLGFGFDEEDLDPRLCDTLPALELYYAVNR 43 (64)
T ss_pred CcHhHHHHHhhhhhhccccCccccChHHHhhhHHHHHHHHHHH
Confidence 6889988888888997 54442 4566666443
No 232
>PF09102 Exotox-A_target: Exotoxin A, targeting; InterPro: IPR015186 This domain, found in Pseudomonas aeruginosa exotoxin A, is responsible for transmembrane targeting of the toxin, as well as transmembrane translocation of the catalytic domain into the cytoplasmic compartment. A furin cleavage site is present within the domain: cleavage generates a 37 kDa carboxy-terminal fragment, which includes the enzymatic domain, which is then is translocated into the cytoplasm. It adopts a helical structure, with six alpha-helices forming a bundle []. ; PDB: 1IKP_A 1IKQ_A 2Q5T_A 3Q9O_A.
Probab=25.58 E-value=1.3e+02 Score=26.59 Aligned_cols=38 Identities=24% Similarity=0.498 Sum_probs=26.1
Q ss_pred hhhhhhhhhhhhhhHHH-------------HHHHHHHHHhCccchhHHHHH
Q 014118 297 LFICDVFWYSYFRLLFQ-------------FQALRTMVQANPQILQPMLQE 334 (430)
Q Consensus 297 ~~~~~~~~~~~~~~~~~-------------f~~lR~~vq~nP~lL~~~lqq 334 (430)
||..--.+||++-+|+. +..||+++..||++...+|.-
T Consensus 46 L~~A~Ri~~~~~D~V~~~~L~~~~~~vaerl~DL~~~~~~~P~~~~~~LT~ 96 (143)
T PF09102_consen 46 LFVATRILFSHLDSVFTLNLDEQEPEVAERLSDLRRINENNPGMVTQVLTV 96 (143)
T ss_dssp HHHHCT--GGGHHHHHHCHHHCTTCCHHHHHHHHHHHHHHSCCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCcchhhhhhHHHHHHhcCchHHHHHHHH
Confidence 45666667777776654 678899999999988766643
No 233
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=25.19 E-value=1.4e+02 Score=26.53 Aligned_cols=38 Identities=16% Similarity=0.191 Sum_probs=30.9
Q ss_pred ccChHHHHHHHHHHH-cCCChhHHHHHHHHcCCCHHHHHHHH
Q 014118 381 TVTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYL 421 (430)
Q Consensus 381 ~lt~ee~~aI~rL~~-lGF~r~~viqAy~aCdkNe~~Aan~L 421 (430)
.++++| |+..++ -|-+|+.+++|+-+|+.+.-.|+--|
T Consensus 82 ~i~eeD---IkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 82 DISEED---IKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CCCHHH---HHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 588888 444443 59999999999999999998887665
No 234
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=25.12 E-value=2.2e+02 Score=23.18 Aligned_cols=47 Identities=13% Similarity=0.321 Sum_probs=32.8
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCCcCchhhcccCCCcEEEE
Q 014118 21 DKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
.+..+|+.|.....+ ++....+|+ -.|.+++|+.-+.. +.++..+++
T Consensus 19 ~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~t--Lp~nt~l~~ 67 (74)
T smart00266 19 SSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQT--LPDNTELMA 67 (74)
T ss_pred CCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhc--CCCCcEEEE
Confidence 379999999999999 776666664 37888888755543 344444433
No 235
>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=25.09 E-value=77 Score=25.34 Aligned_cols=42 Identities=17% Similarity=0.370 Sum_probs=28.0
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeec-CCcCchhhcc-cCCCcEEEEE
Q 014118 21 DKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL-KDVTTLEENK-VAENSFVVVM 73 (430)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL-~Dd~tLsdyg-I~e~stI~vm 73 (430)
.|+.+|++...+++| +. . .|++ +|..-+.|.. |.+|+.++++
T Consensus 26 ~SleeLl~ia~~kfg---~~-~-------~~v~~~dgaeIdDI~~IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFG---FS-A-------TKVLNEDGAEIDDIDVIRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhC---CC-c-------eEEEcCCCCEEeEEEEEEcCCEEEEC
Confidence 699999999999999 43 2 2232 3444455543 5778888763
No 236
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=24.86 E-value=1.4e+02 Score=26.68 Aligned_cols=35 Identities=29% Similarity=0.430 Sum_probs=30.8
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCChHHHHHHH
Q 014118 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYL 210 (430)
Q Consensus 173 e~~V~~i~eM-G~~~f~reqV~~ALrAafnNpdRAVEyL 210 (430)
|.-|.=+|+- | -+|+++++||.++.+++-.|+=-|
T Consensus 85 eeDIkLV~eQa~---VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 85 EEDIKLVMEQAG---VSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred HHHHHHHHHHhC---CCHHHHHHHHHHcCCcHHHHHHHh
Confidence 6778888886 8 999999999999999998888655
No 237
>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=24.24 E-value=2.3e+02 Score=24.09 Aligned_cols=45 Identities=22% Similarity=0.283 Sum_probs=30.7
Q ss_pred hhHHHHHHhhhCHHHHHHHHHcHHHHHHHhcCCCCCCCCCcccccccCCCcccccChHHHHHHH-----HHHHcC
Q 014118 328 LQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAIE-----RLEAMG 397 (430)
Q Consensus 328 L~~~lqqi~~~nP~l~~lI~~n~~~Fl~~l~~~~~~~~g~~~~~~~~~~~~~i~lt~ee~~aI~-----rL~~lG 397 (430)
|..++.+|. .|+..+...++++..++- --||+||+++|. +|..+|
T Consensus 8 LN~f~~sL~--~a~~RerF~~D~ea~~~e-----------------------~gLt~Ee~~av~~rD~~~li~~G 57 (94)
T cd07923 8 INRFLHRLI--EPAHRERFLEDPEALFDE-----------------------AGLTEEERTLIRNRDWIGMIRYG 57 (94)
T ss_pred HHHHHHHHC--CHHHHHHHHhCHHHHHHH-----------------------cCCCHHHHHHHHcchHHHHHHcc
Confidence 456777774 788888888887776642 246888888864 455555
No 238
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=24.16 E-value=88 Score=29.84 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=24.2
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 014118 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (430)
Q Consensus 171 ~~e~~V~~i~eMG~~~f~reqV~~ALrAaf 200 (430)
..++.+.-|+.+| |.+.++.+|++...
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 3578999999999 99999999999874
No 239
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=24.06 E-value=1e+02 Score=27.28 Aligned_cols=35 Identities=26% Similarity=0.389 Sum_probs=27.5
Q ss_pred cccChHHHHHHHHHHHcCCChhHHHHHHHHcCCCH
Q 014118 380 VTVTPEEREAIERLEAMGFDRALVLEVFFACNKNE 414 (430)
Q Consensus 380 i~lt~ee~~aI~rL~~lGF~r~~viqAy~aCdkNe 414 (430)
+.||+.|..-|+-|..+|.+|..+.-.-+-.+++|
T Consensus 7 ~~l~E~e~~~ie~L~~lgi~R~vA~tlv~L~~~~E 41 (124)
T COG4738 7 MVLTEKEYEIIELLRILGIPRNVATTLVCLAKGDE 41 (124)
T ss_pred cccchhHHHHHHHHHHcCCCchHHHHHHHHhcCcc
Confidence 45999999999999999999998875444344444
No 240
>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=23.71 E-value=2.3e+02 Score=23.01 Aligned_cols=47 Identities=19% Similarity=0.251 Sum_probs=37.3
Q ss_pred EEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCC--eecC
Q 014118 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (430)
Q Consensus 5 VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~G--KiL~ 54 (430)
|--.+|..-.+.+.+..||.++-.++.++.| +..+...++.-| |.|.
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 3445788888999999999999999999999 777777776555 4453
No 241
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=23.61 E-value=48 Score=29.01 Aligned_cols=29 Identities=17% Similarity=0.352 Sum_probs=23.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCcHHHHHHHH
Q 014118 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNI 30 (430)
Q Consensus 1 MkI~VKtl~gk~~~IeV~~s~TV~dLK~kI 30 (430)
|+|+|+ .+++.+..++..+.|.++|.+++
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 45889999999998888887764
No 242
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.26 E-value=90 Score=29.93 Aligned_cols=28 Identities=29% Similarity=0.336 Sum_probs=23.6
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHcCCCH
Q 014118 387 REAIERLEAMGFDRALVLEVFFACNKNE 414 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy~aCdkNe 414 (430)
.++++-|..|||++..+-.|.-.+--++
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~~~ 172 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIMLLD 172 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhcch
Confidence 4789999999999999999987775444
No 243
>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=23.09 E-value=98 Score=24.61 Aligned_cols=21 Identities=24% Similarity=0.536 Sum_probs=0.0
Q ss_pred HHHHHHHHHcCCChhHHHHHH
Q 014118 387 REAIERLEAMGFDRALVLEVF 407 (430)
Q Consensus 387 ~~aI~rL~~lGF~r~~viqAy 407 (430)
.+|++++..|||++..|..+.
T Consensus 12 daA~dam~~lG~~~~~v~~vl 32 (65)
T PF10440_consen 12 DAALDAMRQLGFSKKQVRPVL 32 (65)
T ss_pred HHHHHHHHHcCCCHHHHHHHH
No 244
>PF06755 DUF1219: Protein of unknown function (DUF1219); InterPro: IPR009610 This family consists of several hypothetical proteins which seem to be specific to the enterobacteria Escherichia coli and Shigella flexneri. Family members are often known as YeeV proteins and are around 125 residues in length. The function of this family is unknown.
Probab=23.06 E-value=88 Score=27.43 Aligned_cols=27 Identities=19% Similarity=0.349 Sum_probs=25.2
Q ss_pred CChhHHHHHHHHcCCCHHHHHHHHhhc
Q 014118 398 FDRALVLEVFFACNKNEELAANYLLDH 424 (430)
Q Consensus 398 F~r~~viqAy~aCdkNe~~Aan~L~~~ 424 (430)
|..+.||+.++.|+-..-.|.|||.|.
T Consensus 43 f~de~vI~~hidaGIs~~~AVN~LVeK 69 (114)
T PF06755_consen 43 FSDETVIQEHIDAGISPADAVNFLVEK 69 (114)
T ss_pred cchHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 889999999999999999999999875
No 245
>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=23.04 E-value=56 Score=34.19 Aligned_cols=18 Identities=33% Similarity=0.680 Sum_probs=15.6
Q ss_pred HHHHHHHHcCCChhHHHH
Q 014118 388 EAIERLEAMGFDRALVLE 405 (430)
Q Consensus 388 ~aI~rL~~lGF~r~~viq 405 (430)
+.||++..|||.|+.|.-
T Consensus 323 dvidKv~~MGf~rDqV~a 340 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVRA 340 (358)
T ss_pred HHHHHHHHcCCcHHHHHH
Confidence 459999999999999853
No 246
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=22.74 E-value=23 Score=35.33 Aligned_cols=60 Identities=17% Similarity=0.317 Sum_probs=46.8
Q ss_pred CCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEE
Q 014118 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 9 ~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
.|..+.++++..++|.|.+.++.+..+ +.+...||++.+ .|++...|.++-.++..+.++
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 888889998887 356666666665555554444
No 247
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.66 E-value=1.7e+02 Score=25.70 Aligned_cols=59 Identities=15% Similarity=0.187 Sum_probs=36.6
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-CCC------CCCcEEEeCC-----------------eecC-CcCchhhcccCCCcE
Q 014118 16 EVKP-EDKVSDVKKNIETVQGSD-VYP------ASQQMLIHQG-----------------KVLK-DVTTLEENKVAENSF 69 (430)
Q Consensus 16 eV~~-s~TV~dLK~kI~~~~g~~-~ip------~~~QkLIy~G-----------------KiL~-Dd~tLsdygI~e~st 69 (430)
+++. +.||.+++..|......+ .++ -+..|+++.. .+|+ ++++|..|||.+...
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 5664 778998887776653311 122 2344554321 4566 468999999998777
Q ss_pred EEEEE
Q 014118 70 VVVML 74 (430)
Q Consensus 70 I~vmv 74 (430)
|-+..
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 66554
No 248
>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=22.65 E-value=2e+02 Score=21.84 Aligned_cols=59 Identities=15% Similarity=0.151 Sum_probs=38.6
Q ss_pred EEEEeCCCcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 3 I~VKtl~gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
|+|.+.+|+... ++...|+.++=..|....++ .-..-..+|+...-+. -|+++++|.++
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 567778887665 67788999999999988762 1122246776654443 35566777654
No 249
>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=22.28 E-value=2.4e+02 Score=23.22 Aligned_cols=47 Identities=11% Similarity=0.288 Sum_probs=32.0
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCcEEE--eCCeecCCcCchhhcccCCCcEEEE
Q 014118 21 DKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKDVTTLEENKVAENSFVVV 72 (430)
Q Consensus 21 ~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GKiL~Dd~tLsdygI~e~stI~v 72 (430)
.+..+|+.|..++.+ ++....+|+ -.|.+++|+.-+.. +.++..+++
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~t--Lp~nT~l~~ 69 (78)
T cd01615 21 SSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQT--LPDNTVLML 69 (78)
T ss_pred CCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhc--CCCCcEEEE
Confidence 379999999999999 765555554 47888877754443 344444433
No 250
>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=22.23 E-value=1.6e+02 Score=27.27 Aligned_cols=43 Identities=21% Similarity=0.378 Sum_probs=28.4
Q ss_pred EEEEeCC-CCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhc
Q 014118 13 FEIEVKP-EDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (430)
Q Consensus 13 ~~IeV~~-s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdy 62 (430)
+.++++. .+.+..+++...+... ++ .. |+-|+-++...|++||
T Consensus 77 i~lele~~~~~ie~I~~iCee~lp---f~---y~-i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 77 IILELEDEEDVIEKIREICEEVLP---FG---YD-IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEecCcHHHHHHHHHHHHHhCC---Cc---eE-eeeeEEeccCCchhhh
Confidence 5567776 5666666654444433 22 12 4679999999999998
No 251
>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=21.93 E-value=1.1e+02 Score=21.85 Aligned_cols=25 Identities=16% Similarity=0.170 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHHhcCChHHHHHHHH
Q 014118 187 WDRETVIRALRAAYNNPERAVEYLY 211 (430)
Q Consensus 187 f~reqV~~ALrAafnNpdRAVEyL~ 211 (430)
..|+.++..|+...+|.-+|+|.++
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHhC
Confidence 4789999999999999999999864
No 252
>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=21.93 E-value=1.5e+02 Score=24.70 Aligned_cols=41 Identities=22% Similarity=0.383 Sum_probs=34.8
Q ss_pred cEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE-EeCCeecC
Q 014118 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGKVLK 54 (430)
Q Consensus 11 k~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL-Iy~GKiL~ 54 (430)
..+.+.|+.+.|=.++|+.|+..+| +.+...+. ++.||.-.
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 5789999999999999999999999 87777744 68888654
No 253
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=21.64 E-value=2.8e+02 Score=27.99 Aligned_cols=28 Identities=14% Similarity=0.197 Sum_probs=17.9
Q ss_pred cCCcCchhhcccCCCcEEEEEEecCCCCC
Q 014118 53 LKDVTTLEENKVAENSFVVVMLTKSKVSS 81 (430)
Q Consensus 53 L~Dd~tLsdygI~e~stI~vmv~k~k~~~ 81 (430)
|-|++.|-++.+|..+ +.+++||+..-+
T Consensus 115 lv~~~di~e~~lk~~~-~e~~irkkeal~ 142 (274)
T PLN02983 115 LVDSRDIVELQLKQLD-CELVIRKKEALP 142 (274)
T ss_pred hhccccceeeeccccc-eEEEEecccccC
Confidence 5577777777776544 455677766543
No 254
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=21.30 E-value=2e+02 Score=25.17 Aligned_cols=37 Identities=24% Similarity=0.324 Sum_probs=30.5
Q ss_pred hHHHHHHHHH--cCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCC
Q 014118 172 LEATVQQILD--MGGGSWDRETVIRALRAAYNNPERAVEYLYSGI 214 (430)
Q Consensus 172 ~e~~V~~i~e--MG~~~f~reqV~~ALrAafnNpdRAVEyL~~GI 214 (430)
.++.+++|.. .+ |.|++++.+|.+-+ +..++||++|-
T Consensus 31 l~~Ia~~i~~~~s~---~t~~di~~vl~~~~---~~~~~~l~~G~ 69 (124)
T PF14848_consen 31 LEDIAEEIAKEGST---LTRADIEAVLNALK---DEMIEALMNGY 69 (124)
T ss_pred HHHHHHHHHHhCCC---CCHHHHHHHHHHHH---HHHHHHHhCCC
Confidence 5677788874 67 99999999998875 67889999993
No 255
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=21.14 E-value=1.2e+02 Score=25.19 Aligned_cols=31 Identities=29% Similarity=0.508 Sum_probs=24.4
Q ss_pred cccCcchHHHHHHHHHcCCCCC-CHHHHHH-HHHH
Q 014118 166 LVAGSNLEATVQQILDMGGGSW-DRETVIR-ALRA 198 (430)
Q Consensus 166 l~~g~~~e~~V~~i~eMG~~~f-~reqV~~-ALrA 198 (430)
+-.+..+...|+++++.| -| .+.+|+| |||.
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 446778999999999998 45 8999988 4553
No 256
>PF13487 HD_5: HD domain; PDB: 3TMD_A 3TM8_B 3TMC_A 3TMB_B.
Probab=21.09 E-value=39 Score=25.93 Aligned_cols=35 Identities=20% Similarity=0.494 Sum_probs=24.4
Q ss_pred HHHHHhCccchhHHHHHHhhhCHHHHHHHHHcHHH
Q 014118 318 RTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTD 352 (430)
Q Consensus 318 R~~vq~nP~lL~~~lqqi~~~nP~l~~lI~~n~~~ 352 (430)
|+++++.|..-..+|.++..-.+.+.+.|.+|.|-
T Consensus 8 ~~~~~~Hp~~~~~~l~~~~~l~~~v~~~i~~hhEr 42 (64)
T PF13487_consen 8 REIIQQHPEYGAELLSQIPRLSPEVADIILQHHER 42 (64)
T ss_dssp HHHHHHHHHHHHHHHTT-TTS-HHHHHHHHHTT--
T ss_pred HHHHHHHHHHHHHHHHcchhhHHHHHHHHHHhccC
Confidence 45677788888888888876667888888888664
No 257
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=21.05 E-value=2e+02 Score=24.00 Aligned_cols=41 Identities=22% Similarity=0.360 Sum_probs=34.3
Q ss_pred CcEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcE-EEeCCeec
Q 014118 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM-LIHQGKVL 53 (430)
Q Consensus 10 gk~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~Qk-LIy~GKiL 53 (430)
...+.+.|+...|=.++|+.|+..++ +.+...+ +++.||.=
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~---VkV~~VnT~~~~gk~k 61 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG---VKVESVNTLNVKGKTK 61 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC---CceeEEEEEEeCCcee
Confidence 46899999999999999999999999 8777774 46777653
No 258
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=21.03 E-value=61 Score=23.14 Aligned_cols=24 Identities=38% Similarity=0.504 Sum_probs=10.1
Q ss_pred ccChHHHHHHHHHHHcCCChhHHH
Q 014118 381 TVTPEEREAIERLEAMGFDRALVL 404 (430)
Q Consensus 381 ~lt~ee~~aI~rL~~lGF~r~~vi 404 (430)
+||.+|+..|++|.+.|++-....
T Consensus 4 ~Lt~~eR~~I~~l~~~G~s~~~IA 27 (44)
T PF13936_consen 4 HLTPEERNQIEALLEQGMSIREIA 27 (44)
T ss_dssp --------HHHHHHCS---HHHHH
T ss_pred chhhhHHHHHHHHHHcCCCHHHHH
Confidence 689999999999999898765543
No 259
>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=20.71 E-value=1.7e+02 Score=26.93 Aligned_cols=43 Identities=19% Similarity=0.341 Sum_probs=28.8
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeCCeecCCcCchhhc
Q 014118 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (430)
Q Consensus 13 ~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GKiL~Dd~tLsdy 62 (430)
+-+++...+.+..+++...+... ++ --+.-||-+.+..|++||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~p---F~----y~i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLP---FG----YEVRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCC---Cc----eEeeeeeEeecCCchhhh
Confidence 44666666777777765444433 21 125778999999999998
No 260
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=20.66 E-value=1.7e+02 Score=24.70 Aligned_cols=34 Identities=44% Similarity=0.667 Sum_probs=25.8
Q ss_pred HHHHHHcCCChhHHH-HHHHHcCCCHHHHHHHHhh
Q 014118 390 IERLEAMGFDRALVL-EVFFACNKNEELAANYLLD 423 (430)
Q Consensus 390 I~rL~~lGF~r~~vi-qAy~aCdkNe~~Aan~L~~ 423 (430)
=.||.+.||++.-++ -=|+-..|||++=.+||-+
T Consensus 32 g~~L~~~GfdKAy~vLGqfLll~kde~~F~~WLk~ 66 (89)
T PF02961_consen 32 GKRLEEKGFDKAYVVLGQFLLLKKDEELFQDWLKD 66 (89)
T ss_dssp HHHHHHTT--BHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHCCCcHHHHHhhhhhhccCcHHHHHHHHHH
Confidence 469999999986655 5699999999999998865
No 261
>PF03333 PapB: Adhesin biosynthesis transcription regulatory protein; InterPro: IPR004356 P pili, or fimbriae, are ~68A in diameter and 1 micron in length, the bulk of which is a fibre composed of the main structural protein PapA []. At its tip, the pilus is terminated by a fibrillum consisting of repeating units of the PapE protein. This, in turn, is topped by the adhesins, PapF and PapG, both of which are needed for receptor binding. The tip fibrillum is anchored to the main PapA fibre by the PapK pilus-adaptor protein. PapH, an outer membrane protein, then anchors the entire rod in the bacterial envelope []. A cytoplasmic chaperone (PapD) assists in assembling the monomers of the macromolecule in the membrane. All of the functional pap genes are arranged in a cluster (operon) on the Escherichia coli genome. It is believed that selective pressure exerted by the host's urinal and intestinal tract isoreceptors forced the spread of this operon to other strains via lateral transfer []. PapB, encoded within the cluster, acts as a transcriptional regulator of the functional pap genes and is located in the bacterial cytoplasm []. Its mechanism involves differential binding to separate sites in the cluster, suggesting that this protein is both an activator and repressor of pilus-adhesion transcription. The protein shares similarity with other E. coli fimbrial- adhesion transcription regulators, such as AfaA, DaaA and FanB. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 3M8J_A.
Probab=20.64 E-value=1.3e+02 Score=25.45 Aligned_cols=41 Identities=32% Similarity=0.537 Sum_probs=25.7
Q ss_pred cccccCcchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCChHHHHHHHHhCCCC
Q 014118 164 SNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPE 216 (430)
Q Consensus 164 s~l~~g~~~e~~V~~i~eMG~~~f~reqV~~ALrAafnNpdRAVEyL~~GIP~ 216 (430)
..|+.|...++...-|+++. +---+.|+.||| +||-.|++.
T Consensus 16 ~~L~pG~vs~e~F~lLl~ls--~IrS~kiI~AL~----------dyLV~G~sr 56 (91)
T PF03333_consen 16 GYLIPGKVSEEHFWLLLELS--SIRSEKIIAALR----------DYLVDGLSR 56 (91)
T ss_dssp C---TT-S-HHHHHHHHHHS------HHHHHHHH----------HHHTT---H
T ss_pred CccCCCCcCHHHHHHHHHHC--CCCcHHHHHHHH----------HHHHcCCcH
Confidence 46888999999999999995 167789999998 699989773
No 262
>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=20.40 E-value=2.2e+02 Score=23.40 Aligned_cols=63 Identities=10% Similarity=0.135 Sum_probs=38.9
Q ss_pred EEEEeCCCc-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEE--EeCCeecCCcCchhhcccCCCcEEEEE
Q 014118 3 VFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVM 73 (430)
Q Consensus 3 I~VKtl~gk-~~~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkL--Iy~GKiL~Dd~tLsdygI~e~stI~vm 73 (430)
+.|++.+.. ++-|-. .+..+|+.|.....+ ++....+| .-.|.+++|+.-+.. +.++..++++
T Consensus 5 fkV~~~~r~~k~GV~A---~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~--LpdnT~lm~L 70 (78)
T cd06539 5 FRVSNHDRSSRRGVMA---SSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQT--LGDNTHFMVL 70 (78)
T ss_pred EEEecCCCCceEEEEe---cCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhh--CCCCCEEEEE
Confidence 345554432 233333 379999999999999 76554444 567888887755543 4455544444
No 263
>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=20.27 E-value=1.1e+02 Score=30.00 Aligned_cols=70 Identities=19% Similarity=0.348 Sum_probs=45.3
Q ss_pred EEEEeCC--CcEE----EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCcEEEeC----Ce--ecCCcCchhhcccCCCcEE
Q 014118 3 VFVKTLK--GTHF----EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GK--VLKDVTTLEENKVAENSFV 70 (430)
Q Consensus 3 I~VKtl~--gk~~----~IeV~~s~TV~dLK~kI~~~~g~~~ip~~~QkLIy~----GK--iL~Dd~tLsdygI~e~stI 70 (430)
|++|-.+ .+++ .+-|+.+++|.+|-..|.+..| +|.+.--++|. ++ .|+.+.++....|.+|+.|
T Consensus 71 lFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi 147 (249)
T PF12436_consen 71 LFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDII 147 (249)
T ss_dssp EEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEE
T ss_pred EEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEE
Confidence 5666543 2332 2568889999999999999999 88876666554 44 3677899999999999988
Q ss_pred EEEEe
Q 014118 71 VVMLT 75 (430)
Q Consensus 71 ~vmv~ 75 (430)
++=..
T Consensus 148 ~fQ~~ 152 (249)
T PF12436_consen 148 CFQRA 152 (249)
T ss_dssp EEEE-
T ss_pred EEEec
Confidence 87653
No 264
>COG1026 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]
Probab=20.25 E-value=2.6e+02 Score=33.10 Aligned_cols=40 Identities=28% Similarity=0.447 Sum_probs=33.8
Q ss_pred CCCchHHhhhhhhHHHHHHHhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHhCccchhHHHHHHhhhCHH
Q 014118 273 GAGTLDFLRNSQQVSMMFYLFASLLFICDVFWYSYFRLLFQFQALRTMVQANPQILQPMLQELGKQNPH 341 (430)
Q Consensus 273 ~~~~l~~Lr~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~lR~~vq~nP~lL~~~lqqi~~~nP~ 341 (430)
|+++.+-||-++ .|+.||+-++.+| .++-||...--.||+
T Consensus 410 G~dp~~~Lr~~~----------------------------~~~~Lr~~le~~~-~fe~LI~ky~l~N~h 449 (978)
T COG1026 410 GGDPEDSLRFLD----------------------------YLQNLREKLEKGP-YFEKLIRKYFLDNPH 449 (978)
T ss_pred CCChhhhhhhHH----------------------------HHHHHHHhhhcCh-HHHHHHHHHhhcCCc
Confidence 567888888888 9999999999999 888888887777764
Done!