Query 016387
Match_columns 390
No_of_seqs 327 out of 1521
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 06:24:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016387.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016387hhsearch_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 1.9E-90 4.1E-95 663.3 32.3 339 2-388 1-340 (340)
2 TIGR00601 rad23 UV excision re 100.0 2.1E-89 4.5E-94 685.3 39.1 360 2-387 1-378 (378)
3 KOG0010 Ubiquitin-like protein 99.8 5.3E-19 1.2E-23 178.8 22.5 77 2-82 16-92 (493)
4 cd01807 GDX_N ubiquitin-like d 99.8 3.3E-18 7.2E-23 134.0 8.9 73 2-77 1-73 (74)
5 PF09280 XPC-binding: XPC-bind 99.8 1.9E-18 4.1E-23 129.5 6.8 57 265-321 1-57 (59)
6 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 5.3E-18 1.2E-22 132.9 9.1 72 1-75 1-72 (73)
7 cd01805 RAD23_N Ubiquitin-like 99.7 1.7E-17 3.7E-22 130.5 9.6 75 2-79 1-77 (77)
8 cd01797 NIRF_N amino-terminal 99.7 1.9E-17 4.1E-22 131.4 8.8 74 2-78 1-76 (78)
9 cd01793 Fubi Fubi ubiquitin-li 99.7 4E-17 8.6E-22 128.0 8.9 73 2-79 1-73 (74)
10 PTZ00044 ubiquitin; Provisiona 99.7 6.8E-17 1.5E-21 126.8 9.2 75 2-79 1-75 (76)
11 cd01802 AN1_N ubiquitin-like d 99.7 1E-16 2.2E-21 133.8 9.8 75 2-79 28-102 (103)
12 cd01804 midnolin_N Ubiquitin-l 99.7 1E-16 2.2E-21 127.1 9.2 74 1-78 1-74 (78)
13 cd01792 ISG15_repeat1 ISG15 ub 99.7 1.7E-16 3.6E-21 126.4 8.6 74 2-78 3-78 (80)
14 cd01810 ISG15_repeat2 ISG15 ub 99.7 1.9E-16 4.2E-21 124.1 8.7 72 4-78 1-72 (74)
15 cd01806 Nedd8 Nebb8-like ubiq 99.7 2.9E-16 6.3E-21 122.7 9.7 74 2-78 1-74 (76)
16 cd01803 Ubiquitin Ubiquitin. U 99.7 2.9E-16 6.3E-21 122.7 9.1 75 2-79 1-75 (76)
17 cd01790 Herp_N Homocysteine-re 99.7 2.7E-16 5.8E-21 124.7 8.6 73 2-75 2-78 (79)
18 cd01794 DC_UbP_C dendritic cel 99.7 2.4E-16 5.2E-21 122.5 7.9 69 4-75 1-69 (70)
19 cd01798 parkin_N amino-termina 99.7 3E-16 6.5E-21 121.6 8.0 70 4-76 1-70 (70)
20 cd01809 Scythe_N Ubiquitin-lik 99.7 5E-16 1.1E-20 120.1 8.9 72 2-76 1-72 (72)
21 cd01808 hPLIC_N Ubiquitin-like 99.6 7.5E-16 1.6E-20 119.7 8.3 71 2-76 1-71 (71)
22 PF00240 ubiquitin: Ubiquitin 99.6 9.1E-16 2E-20 118.0 7.8 69 7-78 1-69 (69)
23 cd01813 UBP_N UBP ubiquitin pr 99.6 2.6E-15 5.6E-20 118.0 7.7 70 2-75 1-73 (74)
24 cd01796 DDI1_N DNA damage indu 99.6 4.6E-15 1E-19 115.5 7.6 68 4-74 1-70 (71)
25 cd01812 BAG1_N Ubiquitin-like 99.5 1.3E-14 2.9E-19 112.0 7.7 70 2-75 1-70 (71)
26 KOG0005 Ubiquitin-like protein 99.5 7E-15 1.5E-19 108.4 4.6 70 2-74 1-70 (70)
27 cd01800 SF3a120_C Ubiquitin-li 99.5 3.1E-14 6.8E-19 112.2 8.5 68 9-79 5-72 (76)
28 smart00213 UBQ Ubiquitin homol 99.4 4.6E-13 1E-17 100.5 7.4 64 2-69 1-64 (64)
29 cd01763 Sumo Small ubiquitin-r 99.4 1.4E-12 3E-17 105.6 10.3 75 2-79 12-86 (87)
30 KOG0003 Ubiquitin/60s ribosoma 99.4 2.4E-14 5.3E-19 117.4 -0.6 76 2-80 1-76 (128)
31 KOG0004 Ubiquitin/40S ribosoma 99.4 2.1E-13 4.5E-18 119.5 4.4 79 2-83 1-79 (156)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 5.3E-13 1.1E-17 104.7 5.5 56 20-76 19-75 (75)
33 cd01814 NTGP5 Ubiquitin-like N 99.4 1.5E-12 3.3E-17 108.9 7.3 80 2-81 5-95 (113)
34 cd01769 UBL Ubiquitin-like dom 99.3 1.8E-11 3.8E-16 93.1 7.9 68 5-75 1-68 (69)
35 cd01799 Hoil1_N Ubiquitin-like 99.3 1.9E-11 4.1E-16 96.3 8.1 65 7-75 8-74 (75)
36 PF11976 Rad60-SLD: Ubiquitin- 99.2 1.9E-10 4.1E-15 89.2 8.7 71 2-75 1-72 (72)
37 cd01795 USP48_C USP ubiquitin- 99.0 5.1E-10 1.1E-14 91.4 7.0 63 13-78 16-79 (107)
38 PF00627 UBA: UBA/TS-N domain; 99.0 9.1E-10 2E-14 74.9 4.9 36 159-197 2-37 (37)
39 PF13881 Rad60-SLD_2: Ubiquiti 98.9 1E-08 2.2E-13 86.8 11.0 77 2-78 3-90 (111)
40 cd01789 Alp11_N Ubiquitin-like 98.9 9.9E-09 2.1E-13 82.6 8.9 72 2-76 2-81 (84)
41 KOG4248 Ubiquitin-like protein 98.9 3.3E-09 7.1E-14 115.5 6.7 71 2-76 3-73 (1143)
42 KOG0001 Ubiquitin and ubiquiti 98.9 2.3E-08 5.1E-13 75.5 9.5 72 4-78 2-73 (75)
43 PF00627 UBA: UBA/TS-N domain; 98.8 7.2E-09 1.6E-13 70.5 4.7 36 346-381 2-37 (37)
44 cd00194 UBA Ubiquitin Associat 98.8 9.1E-09 2E-13 70.1 5.2 36 348-383 3-38 (38)
45 PLN02560 enoyl-CoA reductase 98.8 1.9E-08 4.1E-13 99.3 8.1 70 2-73 1-80 (308)
46 cd00194 UBA Ubiquitin Associat 98.7 1.6E-08 3.4E-13 69.0 5.0 37 160-199 2-38 (38)
47 smart00165 UBA Ubiquitin assoc 98.7 1.6E-08 3.4E-13 68.6 4.6 36 347-382 2-37 (37)
48 PF14560 Ubiquitin_2: Ubiquiti 98.7 5.8E-08 1.2E-12 78.4 8.0 74 1-77 1-84 (87)
49 cd01788 ElonginB Ubiquitin-lik 98.7 4.1E-08 9E-13 82.2 7.2 72 2-77 3-81 (119)
50 smart00165 UBA Ubiquitin assoc 98.7 2.3E-08 5E-13 67.7 4.6 37 159-198 1-37 (37)
51 cd01801 Tsc13_N Ubiquitin-like 98.6 7.6E-08 1.7E-12 76.0 6.6 69 3-73 2-74 (77)
52 PF11543 UN_NPL4: Nuclear pore 98.4 4.4E-07 9.5E-12 72.4 5.5 69 2-74 5-78 (80)
53 cd00196 UBQ Ubiquitin-like pro 98.4 1.5E-06 3.2E-11 62.1 7.8 67 6-75 2-68 (69)
54 KOG3493 Ubiquitin-like protein 98.3 3.4E-07 7.4E-12 69.0 1.8 71 1-74 1-71 (73)
55 cd01811 OASL_repeat1 2'-5' oli 98.2 9.1E-06 2E-10 63.2 7.9 72 2-77 1-77 (80)
56 KOG1872 Ubiquitin-specific pro 98.2 4.3E-06 9.3E-11 85.3 7.3 73 3-79 5-78 (473)
57 KOG0006 E3 ubiquitin-protein l 98.0 7.9E-06 1.7E-10 79.5 5.5 73 2-77 1-76 (446)
58 KOG2561 Adaptor protein NUB1, 97.9 0.0001 2.3E-09 74.9 11.3 59 15-76 53-111 (568)
59 TIGR00601 rad23 UV excision re 97.8 3.2E-05 6.9E-10 78.6 5.3 42 345-386 155-196 (378)
60 KOG4495 RNA polymerase II tran 97.6 9.3E-05 2E-09 60.3 4.8 62 2-67 3-66 (110)
61 PF10302 DUF2407: DUF2407 ubiq 97.5 0.00031 6.8E-09 58.1 6.3 60 4-64 3-65 (97)
62 KOG4583 Membrane-associated ER 97.4 2.3E-05 5.1E-10 76.8 -1.1 79 2-81 10-92 (391)
63 KOG1769 Ubiquitin-like protein 97.4 0.0012 2.5E-08 54.4 8.8 73 2-77 21-93 (99)
64 PF08817 YukD: WXG100 protein 97.3 0.0007 1.5E-08 53.6 6.0 72 2-73 3-78 (79)
65 PF00789 UBX: UBX domain; Int 97.2 0.0025 5.4E-08 50.4 8.7 69 2-73 7-80 (82)
66 PF02845 CUE: CUE domain; Int 97.1 0.00094 2E-08 46.5 4.3 39 159-200 1-41 (42)
67 smart00166 UBX Domain present 97.0 0.0045 9.7E-08 49.0 8.5 69 2-73 5-78 (80)
68 COG5417 Uncharacterized small 96.9 0.005 1.1E-07 48.1 7.5 72 2-73 5-80 (81)
69 KOG1639 Steroid reductase requ 96.9 0.0021 4.6E-08 61.1 6.0 70 2-73 1-76 (297)
70 KOG0013 Uncharacterized conser 96.8 0.002 4.4E-08 59.7 5.6 65 10-77 155-221 (231)
71 KOG0944 Ubiquitin-specific pro 96.8 0.00072 1.6E-08 71.9 2.9 43 157-202 633-675 (763)
72 cd01767 UBX UBX (ubiquitin reg 96.8 0.011 2.5E-07 46.3 8.8 67 2-73 3-74 (77)
73 cd01772 SAKS1_UBX SAKS1-like U 96.7 0.012 2.7E-07 46.6 8.6 68 2-73 5-77 (79)
74 COG5207 UBP14 Isopeptidase T [ 96.6 0.0024 5.2E-08 66.2 5.1 43 347-389 559-602 (749)
75 cd01770 p47_UBX p47-like ubiqu 96.6 0.015 3.4E-07 46.1 8.5 64 2-67 5-71 (79)
76 cd01773 Faf1_like1_UBX Faf1 ik 96.4 0.026 5.6E-07 45.3 8.8 70 2-75 6-80 (82)
77 smart00727 STI1 Heat shock cha 96.4 0.0041 9E-08 42.9 3.5 35 268-306 7-41 (41)
78 KOG0944 Ubiquitin-specific pro 96.3 0.005 1.1E-07 65.7 5.2 44 346-389 571-615 (763)
79 KOG0011 Nucleotide excision re 96.3 0.0053 1.1E-07 60.6 5.0 40 348-387 137-176 (340)
80 PF02845 CUE: CUE domain; Int 96.3 0.0091 2E-07 41.5 4.8 37 348-384 3-41 (42)
81 cd01774 Faf1_like2_UBX Faf1 ik 96.2 0.04 8.7E-07 44.4 9.0 68 2-73 5-82 (85)
82 KOG0418 Ubiquitin-protein liga 96.1 0.0066 1.4E-07 55.4 4.4 47 151-200 154-200 (200)
83 KOG3206 Alpha-tubulin folding 96.1 0.016 3.5E-07 53.8 6.8 73 1-76 1-81 (234)
84 PF11470 TUG-UBL1: GLUT4 regul 96.1 0.027 5.8E-07 43.2 6.9 63 8-73 3-65 (65)
85 PF14555 UBA_4: UBA-like domai 96.1 0.016 3.5E-07 40.5 5.1 40 348-387 2-42 (43)
86 KOG0418 Ubiquitin-protein liga 96.0 0.0089 1.9E-07 54.6 4.3 45 340-384 156-200 (200)
87 cd01771 Faf1_UBX Faf1 UBX doma 95.9 0.067 1.5E-06 42.6 8.8 69 2-74 5-78 (80)
88 PF13019 Telomere_Sde2: Telome 95.9 0.053 1.1E-06 48.8 9.0 77 2-81 1-89 (162)
89 smart00546 CUE Domain that may 95.9 0.021 4.4E-07 39.8 5.1 39 159-200 2-42 (43)
90 smart00546 CUE Domain that may 95.0 0.066 1.4E-06 37.3 5.1 37 348-384 4-42 (43)
91 COG5227 SMT3 Ubiquitin-like pr 94.6 0.13 2.9E-06 41.7 6.5 70 3-75 26-95 (103)
92 PLN02799 Molybdopterin synthas 94.6 0.14 2.9E-06 40.5 6.6 67 1-74 1-76 (82)
93 PF15044 CLU_N: Mitochondrial 94.0 0.095 2E-06 41.4 4.6 57 18-76 1-58 (76)
94 PF09288 UBA_3: Fungal ubiquit 93.9 0.062 1.3E-06 39.7 3.1 23 160-185 10-32 (55)
95 PRK08364 sulfur carrier protei 93.9 0.4 8.6E-06 37.0 7.8 61 1-74 4-64 (70)
96 PF09288 UBA_3: Fungal ubiquit 93.7 0.053 1.1E-06 40.1 2.3 37 347-383 10-51 (55)
97 PF11626 Rap1_C: TRF2-interact 93.1 0.13 2.8E-06 41.5 4.0 35 350-384 1-35 (87)
98 PF14453 ThiS-like: ThiS-like 93.1 0.25 5.3E-06 37.0 5.1 56 2-76 1-56 (57)
99 KOG0010 Ubiquitin-like protein 93.0 0.13 2.8E-06 53.6 4.8 41 157-200 452-493 (493)
100 PF11626 Rap1_C: TRF2-interact 92.3 0.21 4.5E-06 40.3 4.2 35 163-200 1-35 (87)
101 PRK06437 hypothetical protein; 91.8 0.97 2.1E-05 34.6 7.2 54 10-75 9-62 (67)
102 KOG0012 DNA damage inducible p 91.2 0.33 7.1E-06 48.8 5.0 69 2-73 1-73 (380)
103 PF14555 UBA_4: UBA-like domai 91.1 0.57 1.2E-05 32.6 4.9 37 160-199 1-38 (43)
104 PF11547 E3_UbLigase_EDD: E3 u 90.6 0.56 1.2E-05 33.7 4.4 39 344-384 9-49 (53)
105 PF07499 RuvA_C: RuvA, C-termi 90.6 0.37 8.1E-06 34.3 3.6 37 159-198 3-39 (47)
106 PF09379 FERM_N: FERM N-termin 90.6 1.5 3.3E-05 33.9 7.5 68 6-75 1-74 (80)
107 cd06406 PB1_P67 A PB1 domain i 90.1 1.5 3.2E-05 35.1 6.9 43 2-51 5-47 (80)
108 KOG2561 Adaptor protein NUB1, 89.1 0.47 1E-05 49.0 4.3 42 160-204 430-471 (568)
109 PF06972 DUF1296: Protein of u 89.0 1.1 2.5E-05 33.5 5.1 41 159-200 5-45 (60)
110 PRK06488 sulfur carrier protei 88.5 1.6 3.4E-05 32.9 5.9 60 2-75 1-60 (65)
111 cd00754 MoaD Ubiquitin domain 88.4 2.1 4.5E-05 33.1 6.7 57 13-74 17-74 (80)
112 PF12754 Blt1: Cell-cycle cont 88.0 0.15 3.3E-06 50.3 0.0 62 2-66 79-160 (309)
113 PF14836 Ubiquitin_3: Ubiquiti 87.8 3.8 8.3E-05 33.3 8.0 63 11-77 13-81 (88)
114 cd06409 PB1_MUG70 The MUG70 pr 87.3 1.8 3.8E-05 35.1 5.7 74 3-76 2-84 (86)
115 cd07922 CarBa CarBa is the A s 84.4 8 0.00017 31.0 8.1 57 289-369 7-68 (81)
116 smart00295 B41 Band 4.1 homolo 83.9 11 0.00024 33.9 10.2 62 2-66 4-72 (207)
117 PRK06083 sulfur carrier protei 82.9 4.7 0.0001 32.4 6.3 61 2-75 19-79 (84)
118 cd06407 PB1_NLP A PB1 domain i 82.9 7.3 0.00016 31.1 7.4 70 3-76 2-81 (82)
119 TIGR01687 moaD_arch MoaD famil 82.7 9.1 0.0002 30.3 8.0 58 13-74 17-82 (88)
120 smart00666 PB1 PB1 domain. Pho 82.5 5.7 0.00012 30.8 6.6 46 2-51 2-47 (81)
121 COG5207 UBP14 Isopeptidase T [ 82.3 1.8 3.8E-05 45.7 4.5 39 160-201 559-598 (749)
122 PF08938 HBS1_N: HBS1 N-termin 82.2 0.65 1.4E-05 36.8 1.1 46 340-385 18-71 (79)
123 PF10209 DUF2340: Uncharacteri 81.8 5 0.00011 34.6 6.4 60 17-76 21-108 (122)
124 PF11069 DUF2870: Protein of u 81.8 2.6 5.6E-05 34.9 4.4 34 46-79 3-37 (98)
125 PRK05863 sulfur carrier protei 81.6 4.3 9.4E-05 30.7 5.4 60 2-75 1-60 (65)
126 PF02597 ThiS: ThiS family; I 80.8 3.7 8E-05 31.3 4.9 60 13-75 13-72 (77)
127 TIGR01682 moaD molybdopterin c 80.6 9.3 0.0002 29.8 7.2 57 11-74 14-74 (80)
128 cd06408 PB1_NoxR The PB1 domai 80.5 6.9 0.00015 31.7 6.4 46 2-52 3-48 (86)
129 PF10790 DUF2604: Protein of U 80.5 7.6 0.00016 29.8 6.2 67 10-76 4-71 (76)
130 KOG2086 Protein tyrosine phosp 79.7 2.9 6.3E-05 42.5 5.0 65 3-69 307-374 (380)
131 PF11620 GABP-alpha: GA-bindin 79.7 5.2 0.00011 32.4 5.4 61 14-77 5-65 (88)
132 PF06972 DUF1296: Protein of u 79.5 6.7 0.00015 29.5 5.5 38 347-384 6-45 (60)
133 PF08938 HBS1_N: HBS1 N-termin 79.3 1.2 2.6E-05 35.2 1.7 27 174-200 43-70 (79)
134 PRK06944 sulfur carrier protei 76.6 13 0.00028 27.6 6.7 60 2-75 1-60 (65)
135 cd01760 RBD Ubiquitin-like dom 76.1 8.4 0.00018 30.1 5.6 45 4-51 2-46 (72)
136 PRK07440 hypothetical protein; 75.6 13 0.00029 28.5 6.6 61 2-75 5-65 (70)
137 PRK08053 sulfur carrier protei 74.9 14 0.0003 27.9 6.5 61 2-75 1-61 (66)
138 PF00564 PB1: PB1 domain; Int 74.9 12 0.00026 29.0 6.3 46 2-51 2-48 (84)
139 PRK05659 sulfur carrier protei 74.7 12 0.00026 27.9 6.1 61 2-75 1-61 (66)
140 TIGR00264 alpha-NAC-related pr 73.5 7.1 0.00015 33.3 4.9 39 341-382 76-115 (116)
141 smart00727 STI1 Heat shock cha 73.2 5.9 0.00013 26.9 3.7 32 277-311 4-36 (41)
142 smart00455 RBD Raf-like Ras-bi 72.9 13 0.00029 28.7 6.0 49 4-55 2-52 (70)
143 PF14732 UAE_UbL: Ubiquitin/SU 71.8 6.7 0.00014 31.6 4.2 52 20-74 7-67 (87)
144 PRK12332 tsf elongation factor 71.5 6.2 0.00014 36.8 4.6 36 161-199 6-42 (198)
145 PF12616 DUF3775: Protein of u 70.4 6.1 0.00013 31.2 3.6 40 162-202 20-60 (75)
146 PRK06369 nac nascent polypepti 69.9 9.5 0.00021 32.6 4.9 38 160-200 77-115 (115)
147 TIGR00116 tsf translation elon 69.8 6.6 0.00014 38.8 4.6 36 161-199 6-42 (290)
148 cd05992 PB1 The PB1 domain is 69.7 15 0.00032 28.3 5.7 45 3-51 2-47 (81)
149 TIGR02958 sec_mycoba_snm4 secr 69.6 31 0.00067 36.2 9.7 74 2-76 3-80 (452)
150 cd00565 ThiS ThiaminS ubiquiti 69.4 17 0.00037 27.2 5.8 56 10-75 5-60 (65)
151 PF08337 Plexin_cytopl: Plexin 69.3 17 0.00036 39.0 7.7 65 12-77 202-290 (539)
152 PF09280 XPC-binding: XPC-bind 69.3 3.4 7.4E-05 31.0 1.9 36 268-308 17-55 (59)
153 PRK06369 nac nascent polypepti 69.1 10 0.00023 32.3 5.0 41 340-383 73-114 (115)
154 PF07223 DUF1421: Protein of u 68.7 5.7 0.00012 40.4 3.9 30 152-184 314-343 (358)
155 COG5100 NPL4 Nuclear pore prot 68.1 24 0.00052 36.4 8.1 73 2-76 1-79 (571)
156 cd01611 GABARAP Ubiquitin doma 68.1 33 0.00071 29.1 7.8 59 16-77 45-107 (112)
157 PF14451 Ub-Mut7C: Mut7-C ubiq 67.2 36 0.00078 27.1 7.5 53 11-75 22-75 (81)
158 PF14533 USP7_C2: Ubiquitin-sp 67.2 27 0.00059 32.7 7.9 59 2-63 21-90 (213)
159 PF10407 Cytokin_check_N: Cdc1 67.0 18 0.00038 28.4 5.5 63 12-77 3-71 (73)
160 KOG2689 Predicted ubiquitin re 65.9 16 0.00034 35.8 6.1 70 2-72 211-283 (290)
161 KOG2982 Uncharacterized conser 65.9 7.1 0.00015 39.1 3.8 55 17-74 353-415 (418)
162 PRK07696 sulfur carrier protei 65.8 24 0.00053 26.8 6.1 61 2-75 1-62 (67)
163 KOG2507 Ubiquitin regulatory p 65.6 12 0.00027 38.7 5.5 74 2-78 315-393 (506)
164 PTZ00380 microtubule-associate 65.4 27 0.00058 30.1 6.8 59 16-77 45-106 (121)
165 smart00144 PI3K_rbd PI3-kinase 64.8 50 0.0011 27.5 8.3 76 3-78 19-106 (108)
166 CHL00098 tsf elongation factor 64.8 10 0.00022 35.5 4.5 36 161-199 3-39 (200)
167 PRK09377 tsf elongation factor 63.9 10 0.00022 37.5 4.6 36 161-199 7-43 (290)
168 PF02954 HTH_8: Bacterial regu 63.6 5.8 0.00013 27.3 2.0 24 358-381 5-28 (42)
169 PF07499 RuvA_C: RuvA, C-termi 63.3 6 0.00013 28.0 2.1 25 347-371 4-28 (47)
170 cd01612 APG12_C Ubiquitin-like 63.0 79 0.0017 25.5 9.2 60 15-77 19-82 (87)
171 PRK11130 moaD molybdopterin sy 62.8 63 0.0014 25.2 8.2 54 16-74 19-75 (81)
172 COG2104 ThiS Sulfur transfer p 62.8 46 0.001 25.6 7.1 61 2-75 3-63 (68)
173 PF07462 MSP1_C: Merozoite sur 62.7 19 0.0004 38.4 6.4 10 311-320 415-424 (574)
174 KOG4250 TANK binding protein k 62.2 23 0.0005 39.0 7.2 71 3-78 315-388 (732)
175 PF02954 HTH_8: Bacterial regu 62.2 7.4 0.00016 26.7 2.3 27 174-202 5-31 (42)
176 PF07462 MSP1_C: Merozoite sur 62.0 27 0.00059 37.2 7.4 20 151-170 350-369 (574)
177 TIGR01683 thiS thiamine biosyn 61.2 28 0.00062 25.9 5.6 57 9-75 3-59 (64)
178 cd01787 GRB7_RA RA (RAS-associ 60.9 63 0.0014 26.1 7.8 67 3-71 4-80 (85)
179 PF13556 HTH_30: PucR C-termin 60.0 9.7 0.00021 28.1 2.8 23 362-384 3-25 (59)
180 PF02196 RBD: Raf-like Ras-bin 59.9 46 0.001 25.6 6.7 56 4-62 3-60 (71)
181 TIGR00264 alpha-NAC-related pr 58.6 19 0.00041 30.8 4.6 36 160-198 79-115 (116)
182 PF07746 LigA: Aromatic-ring-o 58.1 34 0.00075 27.8 5.9 45 288-357 1-50 (88)
183 PF00794 PI3K_rbd: PI3-kinase 57.1 50 0.0011 27.2 7.0 76 2-77 17-103 (106)
184 PRK11840 bifunctional sulfur c 56.8 27 0.00058 35.1 6.1 63 2-77 1-63 (326)
185 PF08587 UBA_2: Ubiquitin asso 55.3 4 8.6E-05 29.2 0.0 21 162-185 5-26 (46)
186 cd06398 PB1_Joka2 The PB1 doma 55.0 61 0.0013 26.4 6.9 64 10-76 8-87 (91)
187 KOG2689 Predicted ubiquitin re 54.3 15 0.00032 36.0 3.7 35 164-201 5-41 (290)
188 PF15652 Tox-SHH: HNH/Endo VII 54.3 16 0.00035 30.3 3.4 30 156-188 68-97 (100)
189 cd06411 PB1_p51 The PB1 domain 53.4 43 0.00092 26.7 5.5 35 13-50 8-42 (78)
190 PRK13901 ruvA Holliday junctio 52.8 19 0.00041 33.6 4.1 29 158-189 143-171 (196)
191 cd06396 PB1_NBR1 The PB1 domai 52.7 50 0.0011 26.5 5.9 34 4-41 3-38 (81)
192 cd01768 RA RA (Ras-associating 52.6 1.1E+02 0.0024 23.8 8.8 66 11-77 12-86 (87)
193 PF02991 Atg8: Autophagy prote 52.2 55 0.0012 27.4 6.4 57 18-77 39-99 (104)
194 PLN03196 MOC1-like protein; Pr 51.8 1.3E+02 0.0027 32.0 10.6 42 159-203 196-246 (487)
195 COG1308 EGD2 Transcription fac 51.7 32 0.00069 29.7 4.9 39 341-382 82-121 (122)
196 PF00788 RA: Ras association ( 50.3 1.2E+02 0.0025 23.5 8.4 74 4-78 5-91 (93)
197 cd06410 PB1_UP2 Uncharacterize 46.8 70 0.0015 26.4 6.1 40 6-49 17-56 (97)
198 PF08825 E2_bind: E2 binding d 46.7 23 0.00051 28.4 3.2 58 16-74 1-69 (84)
199 KOG1364 Predicted ubiquitin re 46.6 22 0.00047 36.0 3.6 66 3-70 279-349 (356)
200 KOG2500 Uncharacterized conser 44.6 1.1E+02 0.0024 29.3 7.7 17 61-77 148-164 (253)
201 TIGR00084 ruvA Holliday juncti 44.2 25 0.00055 32.5 3.5 28 158-188 146-173 (191)
202 KOG3391 Transcriptional co-rep 42.9 27 0.00058 30.8 3.1 62 19-81 59-141 (151)
203 KOG3439 Protein conjugation fa 42.7 79 0.0017 26.9 5.8 50 2-54 31-84 (116)
204 PF07862 Nif11: Nitrogen fixat 41.7 44 0.00096 23.5 3.7 31 288-319 6-38 (49)
205 PRK14602 ruvA Holliday junctio 41.7 30 0.00065 32.3 3.6 27 158-187 154-180 (203)
206 KOG4146 Ubiquitin-like protein 41.0 2E+02 0.0044 23.7 7.7 73 1-77 4-98 (101)
207 KOG4842 Protein involved in si 40.7 7.3 0.00016 37.7 -0.6 67 1-71 1-68 (278)
208 KOG1071 Mitochondrial translat 40.5 43 0.00092 33.6 4.5 40 345-384 45-85 (340)
209 COG0264 Tsf Translation elonga 40.4 43 0.00093 33.2 4.5 36 161-198 7-42 (296)
210 COG5272 UBI4 Ubiquitin [Posttr 40.1 8.3 0.00018 28.4 -0.3 46 341-387 7-52 (57)
211 cd07921 PCA_45_Doxase_A_like S 39.8 97 0.0021 26.1 6.0 45 288-357 16-65 (106)
212 PF12053 DUF3534: Domain of un 39.7 2.3E+02 0.0049 25.3 8.6 74 2-77 1-81 (145)
213 PF02824 TGS: TGS domain; Int 38.7 84 0.0018 23.2 5.0 59 4-74 1-59 (60)
214 COG0632 RuvA Holliday junction 38.0 35 0.00077 31.9 3.4 28 159-189 156-183 (201)
215 PF08783 DWNN: DWNN domain; I 37.2 86 0.0019 24.6 5.0 31 6-36 3-35 (74)
216 PRK14606 ruvA Holliday junctio 36.7 44 0.00095 30.9 3.8 28 158-188 142-169 (188)
217 COG3760 Uncharacterized conser 36.7 66 0.0014 28.9 4.7 60 3-75 47-106 (164)
218 PF02017 CIDE-N: CIDE-N domain 36.1 1E+02 0.0022 24.5 5.3 65 4-77 5-72 (78)
219 PF12436 USP7_ICP0_bdg: ICP0-b 35.9 55 0.0012 31.4 4.6 72 2-76 69-152 (249)
220 PRK08769 DNA polymerase III su 35.8 66 0.0014 32.2 5.2 39 159-200 174-212 (319)
221 PRK01777 hypothetical protein; 35.7 1.4E+02 0.003 24.6 6.2 71 1-76 3-76 (95)
222 cd07321 Extradiol_Dioxygenase_ 35.7 2.2E+02 0.0047 22.4 8.0 40 298-360 14-58 (77)
223 PF02961 BAF: Barrier to autoi 35.4 67 0.0015 26.2 4.2 34 350-383 32-66 (89)
224 PF11547 E3_UbLigase_EDD: E3 u 34.7 1.2E+02 0.0026 21.9 4.9 38 160-200 10-49 (53)
225 cd01817 RGS12_RBD Ubiquitin do 34.3 1.3E+02 0.0029 23.6 5.6 43 6-51 4-46 (73)
226 PF11816 DUF3337: Domain of un 34.0 1.2E+02 0.0026 30.4 6.7 63 16-78 252-329 (331)
227 PF11333 DUF3135: Protein of u 34.0 55 0.0012 26.3 3.5 27 270-296 2-28 (83)
228 PRK14600 ruvA Holliday junctio 34.0 47 0.001 30.7 3.5 27 158-187 144-170 (186)
229 PRK14604 ruvA Holliday junctio 33.7 46 0.00099 30.9 3.5 27 159-188 149-175 (195)
230 cd06397 PB1_UP1 Uncharacterize 33.6 1.2E+02 0.0027 24.3 5.3 57 3-63 2-63 (82)
231 PF07939 DUF1685: Protein of u 33.5 33 0.00071 26.2 2.0 20 342-361 1-22 (64)
232 KOG0559 Dihydrolipoamide succi 33.4 4.4E+02 0.0096 27.2 10.4 18 56-73 122-139 (457)
233 PRK14601 ruvA Holliday junctio 33.3 48 0.001 30.5 3.5 26 158-186 141-166 (183)
234 PLN02983 biotin carboxyl carri 32.8 1.4E+02 0.0031 29.2 6.7 28 54-82 115-142 (274)
235 PF09030 Creb_binding: Creb bi 31.9 47 0.001 27.8 2.8 24 273-296 71-94 (104)
236 PF03671 Ufm1: Ubiquitin fold 31.7 2.5E+02 0.0054 22.1 6.6 58 14-74 18-76 (76)
237 cd01764 Urm1 Urm1-like ubuitin 31.6 1E+02 0.0022 25.0 4.8 54 16-74 23-88 (94)
238 PF02505 MCR_D: Methyl-coenzym 31.4 1.1E+02 0.0023 27.5 5.1 52 2-63 68-120 (153)
239 PF13936 HTH_38: Helix-turn-he 30.8 32 0.0007 23.8 1.5 24 340-363 3-26 (44)
240 PLN03196 MOC1-like protein; Pr 30.2 1.1E+02 0.0023 32.5 6.0 36 276-311 140-186 (487)
241 PRK14603 ruvA Holliday junctio 30.0 65 0.0014 30.0 3.8 27 158-187 151-177 (197)
242 PRK07993 DNA polymerase III su 29.5 94 0.002 31.2 5.2 38 160-200 170-208 (334)
243 PF14551 MCM_N: MCM N-terminal 29.1 16 0.00035 30.2 -0.4 48 272-319 17-64 (121)
244 TIGR03260 met_CoM_red_D methyl 28.2 1.3E+02 0.0028 26.9 5.1 52 2-63 67-118 (150)
245 COG3609 Predicted transcriptio 27.9 71 0.0015 25.8 3.3 31 153-185 7-39 (89)
246 KOG0943 Predicted ubiquitin-pr 27.9 1E+02 0.0022 36.6 5.3 48 342-389 187-234 (3015)
247 PF14847 Ras_bdg_2: Ras-bindin 27.2 1.8E+02 0.0038 24.4 5.6 57 4-63 3-70 (105)
248 smart00266 CAD Domains present 26.9 1.9E+02 0.0041 22.8 5.3 49 22-76 19-69 (74)
249 cd07923 Gallate_dioxygenase_C 26.9 2.2E+02 0.0048 23.5 5.9 45 288-357 8-57 (94)
250 cd06539 CIDE_N_A CIDE_N domain 26.6 1.8E+02 0.004 23.1 5.2 63 4-74 5-70 (78)
251 PF09494 Slx4: Slx4 endonuclea 26.5 45 0.00097 25.1 1.7 18 274-291 2-19 (64)
252 PF11212 DUF2999: Protein of u 26.5 85 0.0019 24.7 3.2 25 272-296 16-40 (82)
253 KOG4572 Predicted DNA-binding 26.4 1.3E+02 0.0027 34.1 5.7 63 10-75 3-69 (1424)
254 cd01615 CIDE_N CIDE_N domain, 26.1 2E+02 0.0042 22.9 5.3 49 22-76 21-71 (78)
255 PF04126 Cyclophil_like: Cyclo 26.0 46 0.001 28.3 1.9 29 2-31 1-29 (120)
256 KOG0514 Ankyrin repeat protein 25.7 65 0.0014 33.1 3.1 34 343-376 316-368 (452)
257 PF10440 WIYLD: Ubiquitin-bind 25.6 86 0.0019 24.1 3.1 21 347-367 12-32 (65)
258 PF14848 HU-DNA_bdg: DNA-bindi 25.3 1.5E+02 0.0033 25.2 5.1 38 159-202 31-70 (124)
259 PF06234 TmoB: Toluene-4-monoo 25.3 2.6E+02 0.0057 22.6 6.0 62 14-76 17-84 (85)
260 COG0089 RplW Ribosomal protein 25.2 2.5E+02 0.0054 23.1 6.0 60 11-73 21-90 (94)
261 PF06006 DUF905: Bacterial pro 25.1 50 0.0011 25.7 1.7 18 172-190 6-23 (70)
262 PF00276 Ribosomal_L23: Riboso 24.7 1.4E+02 0.0031 24.0 4.5 41 12-55 21-62 (91)
263 PF09469 Cobl: Cordon-bleu ubi 23.6 77 0.0017 25.2 2.6 42 30-77 2-46 (79)
264 PF06755 DUF1219: Protein of u 23.6 72 0.0016 27.1 2.5 28 358-385 43-70 (114)
265 PF07223 DUF1421: Protein of u 23.3 53 0.0011 33.5 2.1 17 348-364 323-339 (358)
266 PF11372 DUF3173: Domain of un 23.3 95 0.0021 23.4 2.9 21 163-186 6-26 (59)
267 PRK14109 bifunctional glutamin 23.2 4.6E+02 0.01 30.6 9.8 43 276-319 75-117 (1007)
268 PF07261 DnaB_2: Replication i 23.0 34 0.00073 26.0 0.5 42 340-381 11-53 (77)
269 PF12436 USP7_ICP0_bdg: ICP0-b 22.5 1.9E+02 0.0041 27.7 5.6 44 2-48 177-223 (249)
270 COG4738 Predicted transcriptio 22.3 1.3E+02 0.0027 25.9 3.7 35 340-374 7-41 (124)
271 KOG4361 BCL2-associated athano 22.2 50 0.0011 33.5 1.6 61 14-77 73-139 (344)
272 cd01777 SNX27_RA Ubiquitin dom 22.2 1.9E+02 0.0041 23.6 4.6 42 2-46 2-43 (87)
273 COG1308 EGD2 Transcription fac 22.2 1.7E+02 0.0036 25.4 4.5 35 160-197 85-120 (122)
274 KOG0917 Uncharacterized conser 22.0 7.1E+02 0.015 24.7 9.2 46 151-200 291-336 (338)
275 PF11834 DUF3354: Domain of un 21.8 1.1E+02 0.0023 23.8 3.0 44 21-74 25-69 (69)
276 smart00804 TAP_C C-terminal do 21.4 2.7E+02 0.0058 21.1 5.1 44 158-204 11-60 (63)
277 PF11266 DUF3066: Protein of u 21.3 48 0.001 30.7 1.1 39 341-382 34-72 (219)
278 TIGR03798 ocin_TIGR03798 bacte 20.9 1.7E+02 0.0036 21.9 4.0 23 297-319 12-36 (64)
279 KOG1661 Protein-L-isoaspartate 20.9 97 0.0021 29.6 3.1 28 155-185 6-34 (237)
280 PF14483 Cut8_M: Cut8 dimerisa 20.9 78 0.0017 21.6 1.9 22 286-307 13-34 (38)
281 PF03474 DMA: DMRTA motif; In 20.7 1.3E+02 0.0027 20.9 2.8 25 174-198 15-39 (39)
282 PRK14983 aldehyde decarbonylas 20.6 41 0.00089 31.5 0.6 38 340-380 43-80 (231)
283 TIGR01446 DnaD_dom DnaD and ph 20.1 92 0.002 23.5 2.4 33 341-373 12-45 (73)
No 1
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=1.9e-90 Score=663.33 Aligned_cols=339 Identities=55% Similarity=0.873 Sum_probs=270.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNKRP 81 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~~~ 81 (390)
|+|+||+++|++|+|+|.+++||.++|++|+...|.+ ||++.|||||+||+|+|++++.+|+|+++++|+||++|+|..
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 7999999999999999999999999999999999988 999999999999999999999999999999999999998831
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCcccccccccccCcchHH
Q 016387 82 TGEGSTRSTAPTKAPQSSAPTPAATPATAPQTAVPISTEPTPAPTPAPASASVSSVSATSESGVYGHAASNLVAGNNLEG 161 (390)
Q Consensus 82 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~p~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~~g~~~e~ 161 (390)
.... ++.. ++....+... .+|..+ .. ....+.+ .+.++..+.++.+.|+|++|.++|+
T Consensus 80 ~t~~-----ap~s--~~~~~~p~~~--~ap~~s--------~a----~~~s~~~-~~~~~~~~~~~~aas~Lv~G~~~e~ 137 (340)
T KOG0011|consen 80 STQV-----APQS--SAATHLPKAA--EAPPSS--------AA----EDASPAT-PAQTSQEDTYEIAASTLVVGSEYEQ 137 (340)
T ss_pred ccCC-----CCCC--ccccCCCccC--CCCCcc--------cc----ccCCCCc-cccccccchhhhhhhhhhccchhHH
Confidence 1111 1100 0000000000 000000 00 0000000 0001233456788999999999999
Q ss_pred HHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhCCCCccccCcccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 016387 162 AIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSGIPEQAEVQPVARAPGNGQAANSPTQMPQPTQPAPVTSSGPN 241 (390)
Q Consensus 162 ~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (390)
+|.+||+|| |+|++|+|||||||||||||||||++|||+....+.+...+++... .+ .+
T Consensus 138 ~V~~Im~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~~~~---------------~p---~~ 196 (340)
T KOG0011|consen 138 TVQQIMEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAAAAE---------------LP---AN 196 (340)
T ss_pred HHHHHHHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCcccCCC---------------CC---CC
Confidence 999999999 9999999999999999999999999999998766654321110000 00 13
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCchHHhhCCHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCC
Q 016387 242 ANPLDLFPQGLPDVGSGAAGAGSLDFLRNSPQFQVLRAMVQANPQLLQPMLQELGKQNPQLVRLIQEHQADFLRLINEPV 321 (390)
Q Consensus 242 ~~~~~lf~~~~~~~~~~~~~~~~~~~L~~~P~~~~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~ 321 (390)
.+|.++|++++..+.+ +++++|||++|||++||++||+||++|+++||+|+++||+|+++|++||++||+||++++
T Consensus 197 ~~p~~~~~~~~~~~~~----~~~l~fLr~~~qf~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~ 272 (340)
T KOG0011|consen 197 AQPLDLFPQGAVEASG----GDPLEFLRNQPQFQQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQENQEAFLQLLNEPV 272 (340)
T ss_pred CChhhcCCccchhhhc----CCchhhhhccHHHHHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHhhccc
Confidence 3567888876554433 479999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCccccccCCCC-ccccCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhcCCCC
Q 016387 322 QGGEGNLGDQLAGLMP-QSIQVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDHMHEF 388 (390)
Q Consensus 322 ~~~~g~~~~~~~~~~~-~~~~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~~~d~ 388 (390)
+++++++++.....++ +.|++|+||.+||+|||+|||+|..|||||||||||||+||||||++++||
T Consensus 273 ~~~~~~~~~~~~~~~~~~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~f~d 340 (340)
T KOG0011|consen 273 EGGDGGGTGAPAAEGPGHQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHSFED 340 (340)
T ss_pred ccccccccccccccCCcceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhccCC
Confidence 8777777777766666 789999999999999999999999999999999999999999999998543
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=2.1e-89 Score=685.29 Aligned_cols=360 Identities=44% Similarity=0.739 Sum_probs=255.9
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNKRP 81 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~~~ 81 (390)
|+|+||+++|++|.|+|++++||.+||++|+...|++.+++++|||||+||+|+|+++|++|||+++++|+||++|+|..
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 89999999999999999999999999999999987544899999999999999999999999999999999999988775
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCC----CCCCccCCCCCCCCCcccccccccccC
Q 016387 82 TGEGSTRSTAPTKAPQSSAPTPAATPATAPQTAVPISTEPTPAPT-PAP----ASASVSSVSATSESGVYGHAASNLVAG 156 (390)
Q Consensus 82 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~p~~~~p~~~~~~~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~s~l~~g 156 (390)
++.++.+++.+. ++|.+.+ +.+. +|+.. +.++ ++.+++ .++ ..++....++.+.......+.|+||+|
T Consensus 81 ~~~~~~~~~~~~--~~p~~~~-~~~~--~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~~g 153 (378)
T TIGR00601 81 TGKSAPPAATPT--SAPTPTP-SPPA--SPASG-MSAA-PASAVEEKSPSEESATATAPESPSTSVPSSGSDAASTLVVG 153 (378)
T ss_pred CCCCCCCCCCCC--CCCCCCC-CCCC--CCCCC-CCCC-CCCCCccccccCCCCCCCCCCCCCccccccCCCcccccccc
Confidence 332221111110 0111100 0000 01000 0000 000000 000 000110000000001012467899999
Q ss_pred cchHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhCCCCccccCcccCCCCCCCCCCCCCCCCCCCCCCCCC
Q 016387 157 NNLEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSGIPEQAEVQPVARAPGNGQAANSPTQMPQPTQPAPVT 236 (390)
Q Consensus 157 ~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 236 (390)
++||++|++||+|| |+|++|++||||||||||||||||++|||++++...+ .+. +... . . ..
T Consensus 154 ~~~e~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~----~~~----~~~~-~---~---~~ 215 (378)
T TIGR00601 154 SERETTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEP----VQQ----TAAS-T---A---AA 215 (378)
T ss_pred hHHHHHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCcccccccc----CCC----cccc-c---c---cc
Confidence 99999999999999 9999999999999999999999999999998652111 100 0000 0 0 01
Q ss_pred CCCCCCCCCCCCCCCCCCCCC-----CCCCCCchHHhhCCHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHhHH
Q 016387 237 SSGPNANPLDLFPQGLPDVGS-----GAAGAGSLDFLRNSPQFQVLRAMVQANPQLLQPMLQELGKQNPQLVRLIQEHQA 311 (390)
Q Consensus 237 ~~~~~~~~~~lf~~~~~~~~~-----~~~~~~~~~~L~~~P~~~~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~n~e 311 (390)
..+++..+ |||++++.++.. .+.+.++|++||++|+|++||++||+||++|++|||+|+++||+|+++|++||+
T Consensus 216 ~~~~~~~~-~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e 294 (378)
T TIGR00601 216 TTETPQHG-SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPE 294 (378)
T ss_pred cCCCCCCc-chhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHH
Confidence 11122223 999988543210 001346899999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCC--CCCCcc---ccccC-CCCc--cccCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhh
Q 016387 312 DFLRLINEPVQG--GEGNLG---DQLAG-LMPQ--SIQVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLD 383 (390)
Q Consensus 312 ~fl~~l~~~~~~--~~g~~~---~~~~~-~~~~--~~~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~ 383 (390)
+||+||+++.+. ++++.. ++... ..+. .|+||+||++||+|||+|||+|++||||||||||||||||||||+
T Consensus 295 ~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 295 QFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred HHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 999999998532 112111 11111 1112 589999999999999999999999999999999999999999999
Q ss_pred cCCC
Q 016387 384 HMHE 387 (390)
Q Consensus 384 ~~~d 387 (390)
+.+|
T Consensus 375 ~~~~ 378 (378)
T TIGR00601 375 QNFD 378 (378)
T ss_pred hcCC
Confidence 9876
No 3
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.83 E-value=5.3e-19 Score=178.77 Aligned_cols=77 Identities=34% Similarity=0.592 Sum_probs=72.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNKRP 81 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~~~ 81 (390)
++|+||+.++ ++.+.|..+.||.+||++|...++ +++++++|||+||+|+|+++|..|||++|.+||||++....+
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 7899999988 899999999999999999999999 899999999999999999999999999999999999865444
Q ss_pred C
Q 016387 82 T 82 (390)
Q Consensus 82 ~ 82 (390)
.
T Consensus 92 ~ 92 (493)
T KOG0010|consen 92 T 92 (493)
T ss_pred C
Confidence 3
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=3.3e-18 Score=134.03 Aligned_cols=73 Identities=26% Similarity=0.432 Sum_probs=71.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
|+|+||+++|+++.++|++++||.+||++|+++.| +++++|+|+|+||.|+|+.+|++|||+++++||++++.
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 79999999999999999999999999999999999 99999999999999999999999999999999999874
No 5
>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=99.75 E-value=1.9e-18 Score=129.46 Aligned_cols=57 Identities=65% Similarity=1.115 Sum_probs=54.0
Q ss_pred hHHhhCCHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCC
Q 016387 265 LDFLRNSPQFQVLRAMVQANPQLLQPMLQELGKQNPQLVRLIQEHQADFLRLINEPV 321 (390)
Q Consensus 265 ~~~L~~~P~~~~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~ 321 (390)
|++||++|+|++||++|++||++|+++|++|+++||+|+++|++||++|++||+++.
T Consensus 1 L~~Lr~~Pqf~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~ 57 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNEPA 57 (59)
T ss_dssp CGGGTTSHHHHHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHSTS
T ss_pred ChHHHcChHHHHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcCCC
Confidence 478999999999999999999999999999999999999999999999999999875
No 6
>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=99.75 E-value=5.3e-18 Score=132.92 Aligned_cols=72 Identities=19% Similarity=0.308 Sum_probs=69.8
Q ss_pred CEEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 1 MMKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 1 mMkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
||+|+||++.|+.+.++|++++||.+||++|++..| +++++|||+|+|++|+|+++|++|||++|++||+..
T Consensus 1 ~~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 1 MIEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred CEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 899999999999999999999999999999999999 999999999999999999999999999999999864
No 7
>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=1.7e-17 Score=130.46 Aligned_cols=75 Identities=59% Similarity=0.860 Sum_probs=72.4
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVY--PAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~i--p~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|+|+||+++|+++.++|++++||.+||++|++..| + ++++|+|+|+|+.|+|+.+|++|||++|++|+|++++++
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 79999999999999999999999999999999999 7 999999999999999999999999999999999998764
No 8
>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=1.9e-17 Score=131.41 Aligned_cols=74 Identities=26% Similarity=0.395 Sum_probs=70.4
Q ss_pred EEEEEEeCCCcE-EEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 2 MKIFVKTLKGTS-FDVE-VKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 2 MkI~Vktl~g~~-~~ie-V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
|+|+||+++|++ +.|+ +++++||.+||++|++..| +++++|||+|+||.|+|+.+|++|||+++++|+|+++..
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 999999999999999999999999999999999999853
No 9
>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=99.71 E-value=4e-17 Score=127.98 Aligned_cols=73 Identities=27% Similarity=0.399 Sum_probs=69.3
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|+|+||+. +++.++|++++||.+||.+|+++.| +|+++|+|+|+||.|+|+++|++|+|+++++||++++.+.
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 79999984 7899999999999999999999999 9999999999999999999999999999999999998754
No 10
>PTZ00044 ubiquitin; Provisional
Probab=99.70 E-value=6.8e-17 Score=126.83 Aligned_cols=75 Identities=35% Similarity=0.539 Sum_probs=72.3
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|+|+||+++|+++.++|++++||.+||.+|+...| +|+++|||+|+|+.|+|+.+|++|+|+++++|||+++.+.
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 79999999999999999999999999999999999 9999999999999999999999999999999999998653
No 11
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.69 E-value=1e-16 Score=133.82 Aligned_cols=75 Identities=36% Similarity=0.635 Sum_probs=72.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|+|+||++.|+++.|+|++++||.+||++|+++.| +++++|||+|+||.|+|+.+|++|+|+++++|+++++.+.
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 12
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.69 E-value=1e-16 Score=127.13 Aligned_cols=74 Identities=23% Similarity=0.363 Sum_probs=70.6
Q ss_pred CEEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 1 MMKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 1 mMkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
.|+|+||+..|+.+.|+|+++.||.+||++|+++.+ +++++|||+|+||+|+|+ +|++|||++|++|+|+....
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~---~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~ 74 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK---VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVE 74 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC---CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecc
Confidence 389999999999999999999999999999999999 999999999999999999 99999999999999998754
No 13
>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=99.67 E-value=1.7e-16 Score=126.40 Aligned_cols=74 Identities=30% Similarity=0.380 Sum_probs=71.4
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML--IYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL--i~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
|+|+||++.|+++.++|+++.||.+||++|+...| +++++||| +|+|++|+|+++|++|||++|++|+|++++-
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 89999999999999999999999999999999999 99999999 9999999999999999999999999999863
No 14
>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=99.67 E-value=1.9e-16 Score=124.08 Aligned_cols=72 Identities=26% Similarity=0.315 Sum_probs=69.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
|+||++.|+++.|+|++++||.+||++|+...| +|+++|+|+|+||.|+|+++|++|||+++++|+++++.+
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER---VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLR 72 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 689999999999999999999999999999999 999999999999999999999999999999999998864
No 15
>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=2.9e-16 Score=122.71 Aligned_cols=74 Identities=36% Similarity=0.600 Sum_probs=71.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
|+|+||+.+|+.+.++|++++||.+||++|+...| +|++.|||+|+|+.|.|+++|++|+|++|++|||+++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~ 74 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEcc
Confidence 79999999999999999999999999999999999 999999999999999999999999999999999999864
No 16
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.67 E-value=2.9e-16 Score=122.69 Aligned_cols=75 Identities=41% Similarity=0.656 Sum_probs=72.1
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|+|+||+.+|+.+.++|++++||.+||++|+..+| +|++.|+|+|+|+.|+|+++|++|||+++++|+|+++.+.
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 79999999999999999999999999999999999 9999999999999999999999999999999999998653
No 17
>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=99.66 E-value=2.7e-16 Score=124.73 Aligned_cols=73 Identities=25% Similarity=0.254 Sum_probs=65.2
Q ss_pred EEEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhc--cCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTS--FDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENK--VAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~--~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~g--I~~~s~I~v~v 75 (390)
|.|+||+.++++ |.+++++++||.+||++|+...+.. +++++|||||+||+|+|+.+|++|+ ++++.+|||++
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 789999999999 5556689999999999999987521 5689999999999999999999996 99999999986
No 18
>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=99.66 E-value=2.4e-16 Score=122.54 Aligned_cols=69 Identities=26% Similarity=0.461 Sum_probs=66.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
++||.++|+++.++|++++||.+||.+|++..| +|+++|||+|+|++|+|+.+|++|+|+++++|||++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 468999999999999999999999999999999 999999999999999999999999999999999997
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=99.66 E-value=3e-16 Score=121.56 Aligned_cols=70 Identities=30% Similarity=0.539 Sum_probs=67.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
|+||++.|+++.++|++++||.+||++|+++.| +++++|+|+|+|+.|+|+.+|++|||+++++|||+.|
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 9999999999999999999999999999999999875
No 20
>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=5e-16 Score=120.13 Aligned_cols=72 Identities=43% Similarity=0.579 Sum_probs=69.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
|+|+||+++|+.+.+++++++||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|++|||+++++|||+.+
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 79999999999999999999999999999999999 9999999999999999999999999999999999864
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=99.64 E-value=7.5e-16 Score=119.71 Aligned_cols=71 Identities=28% Similarity=0.421 Sum_probs=67.5
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
|+|+||+..|+ +.|+|++++||.+||++|++..| ++.++|+|+|+||+|.|+++|++|||+++++|||+++
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 58999999997 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=99.63 E-value=9.1e-16 Score=118.00 Aligned_cols=69 Identities=43% Similarity=0.693 Sum_probs=66.2
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 7 KTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 7 ktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
|+++|+.|.++|++++||.+||++|+...+ +|++.|+|+|+|++|+|+.+|++|||+++++|+|+++++
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 999999999999999999999999999999999998764
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=2.6e-15 Score=118.01 Aligned_cols=70 Identities=31% Similarity=0.460 Sum_probs=66.9
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY---QGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~---~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|| ++|++|.|+|++++||.+||++|++.+| +|+++|||+| +||.|.|+.+|++|+|++|++|+||.
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 579999 7899999999999999999999999999 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=99.58 E-value=4.6e-15 Score=115.52 Aligned_cols=68 Identities=35% Similarity=0.491 Sum_probs=64.3
Q ss_pred EEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CchhhhccCCCCEEEEE
Q 016387 4 IFVKTL-KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDD-TTLEENKVAENSFVVIM 74 (390)
Q Consensus 4 I~Vktl-~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~-~tL~d~gI~~~s~I~v~ 74 (390)
|+||+. .|+++.++|++++||.+||.+|+++.| +|+++|+|+|+||.|+|+ .+|++|||+++++||+-
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 689999 999999999999999999999999999 999999999999999997 68999999999999873
No 25
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.55 E-value=1.3e-14 Score=112.00 Aligned_cols=70 Identities=30% Similarity=0.428 Sum_probs=66.8
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+||+. |+.+.++|++++||.+||.+|+..+| +++++|||+|+|+.|.|+.+|++|||++|++|+|+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG---VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC---CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 89999999999999999999999999 999999999999999999999999999999999874
No 26
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=7e-15 Score=108.39 Aligned_cols=70 Identities=36% Similarity=0.591 Sum_probs=68.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
|.|.||+++|+.+.|++++.++|..+|++|+++.| +|+.+|||||.||.+.|+++-++|++.-|++||++
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 68999999999999999999999999999999999 99999999999999999999999999999999974
No 27
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.53 E-value=3.1e-14 Score=112.20 Aligned_cols=68 Identities=28% Similarity=0.468 Sum_probs=65.1
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 9 LKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 9 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
++|+++.|+|++++||.+||.+|+..+| +|++.|+|+|+|+.|+|+.+|++|+|+++++|+|+++.+.
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 28
>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=4.6e-13 Score=100.50 Aligned_cols=64 Identities=47% Similarity=0.732 Sum_probs=61.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENS 69 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s 69 (390)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| ++++.|+|+|+|+.|.|+++|++|||++|+
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 789999998 7899999999999999999999999 999999999999999999999999999875
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.42 E-value=1.4e-12 Score=105.59 Aligned_cols=75 Identities=15% Similarity=0.267 Sum_probs=72.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
|.|+|++.+|+.+.+.|.+++||..||++++++.| +++++|+|+|+|+.|.|+.|+.+|+|+++++|+|+++.+.
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 88999999999999999999999999999999999 9999999999999999999999999999999999998653
No 30
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.41 E-value=2.4e-14 Score=117.45 Aligned_cols=76 Identities=41% Similarity=0.639 Sum_probs=72.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNKR 80 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~~ 80 (390)
|.++++++.|++.+++|++++||..||.+|..+.| +|++.|+|+|+||+|+|..||++|||..-++||++.+.+..
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 57888999999999999999999999999999999 99999999999999999999999999999999999988765
No 31
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.39 E-value=2.1e-13 Score=119.46 Aligned_cols=79 Identities=38% Similarity=0.585 Sum_probs=75.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCCCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNKRP 81 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~~~ 81 (390)
|+|+|+++.++++.++|..++||..+|.+|+++.| ||+++|||||.|+.|+|..+|+||+|+.-++|+++++.+...
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 78999999999999999999999999999999999 999999999999999999999999999999999999977655
Q ss_pred CC
Q 016387 82 TG 83 (390)
Q Consensus 82 ~~ 83 (390)
..
T Consensus 78 kk 79 (156)
T KOG0004|consen 78 KK 79 (156)
T ss_pred cc
Confidence 44
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=5.3e-13 Score=104.67 Aligned_cols=56 Identities=25% Similarity=0.186 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHHHHHhCCCCC-CCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 20 PEDTVFDVKMKIETVQGSDVY-PAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 20 ~~~TV~dLK~~I~~~~g~~~i-p~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||+++++|||+.+
T Consensus 19 ~~~TV~~LK~kI~~~~~eg-i~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDS-LPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred ccCcHHHHHHHHHHhhccC-CCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 4789999999999996321 5 589999999999999999999999999999999863
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=99.36 E-value=1.5e-12 Score=108.89 Aligned_cols=80 Identities=18% Similarity=0.211 Sum_probs=65.5
Q ss_pred EEEEEEeCCCcEE-EEEeCCCCCHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCchhhhc------cCCCCE
Q 016387 2 MKIFVKTLKGTSF-DVEVKPEDTVFDVKMKIETVQGS--DVYP--AAQQMLIYQGKVLKDDTTLEENK------VAENSF 70 (390)
Q Consensus 2 MkI~Vktl~g~~~-~ieV~~~~TV~dLK~~I~~~~g~--~~ip--~~~QkLi~~GkiL~D~~tL~d~g------I~~~s~ 70 (390)
+.|.+|..+|..+ ...+.+++||.+||++|++..+. +.+| +++|||||+||+|+|++||++|+ +....+
T Consensus 5 ~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~T 84 (113)
T cd01814 5 IEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVIT 84 (113)
T ss_pred EEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceE
Confidence 6788998888654 35778999999999999976642 1244 99999999999999999999999 777789
Q ss_pred EEEEEecCCCC
Q 016387 71 VVIMLTKNKRP 81 (390)
Q Consensus 71 I~v~v~k~~~~ 81 (390)
+||+++.+...
T Consensus 85 mHvvlr~~~~~ 95 (113)
T cd01814 85 MHVVVQPPLAD 95 (113)
T ss_pred EEEEecCCCCC
Confidence 99999865433
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=99.27 E-value=1.8e-11 Score=93.06 Aligned_cols=68 Identities=47% Similarity=0.758 Sum_probs=64.4
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 5 FVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 5 ~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
+||..+|+.+.+.++++.||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|.+|+|++++.|+|+.
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=99.26 E-value=1.9e-11 Score=96.33 Aligned_cols=65 Identities=23% Similarity=0.292 Sum_probs=59.1
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCchhhhccC-CCCEEEEEE
Q 016387 7 KTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLK-DDTTLEENKVA-ENSFVVIML 75 (390)
Q Consensus 7 ktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~-D~~tL~d~gI~-~~s~I~v~v 75 (390)
|...|+++.|+|++++||.+||.+|+.+.| +|++.||| |+|+.|. |+.+|++|||+ +|++||+.+
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 445688999999999999999999999999 99999999 9999995 66899999998 889999875
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=99.15 E-value=1.9e-10 Score=89.18 Aligned_cols=71 Identities=25% Similarity=0.413 Sum_probs=65.9
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPA-AQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|++.+|+.+.+.|.++.+|..|++++++..+ ++. +.++|+|.|+.|.++.|+++|||+++++|+|++
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 79999999999999999999999999999999999 889 999999999999999999999999999999874
No 37
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.04 E-value=5.1e-10 Score=91.45 Aligned_cols=63 Identities=24% Similarity=0.286 Sum_probs=57.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CchhhhccCCCCEEEEEEecC
Q 016387 13 SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDD-TTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 13 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~-~tL~d~gI~~~s~I~v~v~k~ 78 (390)
...++|++++||.+||.+|...++ +++.+|||+|.|+.|.|+ ++|++|||..+++|++.+..+
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 467889999999999999999999 999999999999999765 799999999999999998643
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=98.97 E-value=9.1e-10 Score=74.95 Aligned_cols=36 Identities=44% Similarity=0.704 Sum_probs=33.7
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHH
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYL 197 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL 197 (390)
.++.|++|++|| |++++|++||+++.||.++||+||
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 478999999999 999999999999999999999998
No 39
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.93 E-value=1e-08 Score=86.75 Aligned_cols=77 Identities=22% Similarity=0.359 Sum_probs=58.1
Q ss_pred EEEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCchhhhccCCCC------E
Q 016387 2 MKIFVKTLKGT-SFDVEVKPEDTVFDVKMKIETVQGSD----VYPAAQQMLIYQGKVLKDDTTLEENKVAENS------F 70 (390)
Q Consensus 2 MkI~Vktl~g~-~~~ieV~~~~TV~dLK~~I~~~~g~~----~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s------~ 70 (390)
+.|+++..+|+ ...+.+++++||.+||+.|......+ ...+..+||||.||+|+|+++|++|++..++ +
T Consensus 3 i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~v 82 (111)
T PF13881_consen 3 IELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTV 82 (111)
T ss_dssp EEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EE
T ss_pred EEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEE
Confidence 67888888999 77889999999999999999876433 1345678999999999999999999988766 5
Q ss_pred EEEEEecC
Q 016387 71 VVIMLTKN 78 (390)
Q Consensus 71 I~v~v~k~ 78 (390)
+||+++..
T Consensus 83 mHlvvrp~ 90 (111)
T PF13881_consen 83 MHLVVRPN 90 (111)
T ss_dssp EEEEE-SS
T ss_pred EEEEecCC
Confidence 66666543
No 40
>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=98.88 E-value=9.9e-09 Score=82.55 Aligned_cols=72 Identities=24% Similarity=0.365 Sum_probs=60.1
Q ss_pred EEEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLK-GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML-IYQGK-----VL-KDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~-g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-i~~Gk-----iL-~D~~tL~d~gI~~~s~I~v 73 (390)
++|.|+... ....+..+++++||.+||.+|+..+| +++..|+| +|.|+ .| +|+++|++||+++|..|||
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G---~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhV 78 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG---TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHV 78 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC---CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEE
Confidence 567777643 33455669999999999999999999 99999999 58888 46 6778999999999999999
Q ss_pred EEe
Q 016387 74 MLT 76 (390)
Q Consensus 74 ~v~ 76 (390)
+-.
T Consensus 79 vD~ 81 (84)
T cd01789 79 IDV 81 (84)
T ss_pred EeC
Confidence 854
No 41
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=3.3e-09 Score=115.47 Aligned_cols=71 Identities=28% Similarity=0.448 Sum_probs=68.3
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
..|+|||++.++.++.|...+||++||.+|.++.. |+.+.|||||.|++|.|+|++.+|+| +|.+|||+-|
T Consensus 3 ~~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 3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred cceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 35899999999999999999999999999999999 99999999999999999999999999 9999999987
No 42
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.85 E-value=2.3e-08 Score=75.45 Aligned_cols=72 Identities=43% Similarity=0.638 Sum_probs=68.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecC
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~ 78 (390)
+++++..|+.+.+.+....+|..+|.+|....| ++..+|+|+|.|+.|.|+.+|.+|+|..+++++++.+.+
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 578889999999999999999999999999999 999999999999999999999999999999999998765
No 43
>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=98.80 E-value=7.2e-09 Score=70.50 Aligned_cols=36 Identities=39% Similarity=0.638 Sum_probs=32.9
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHH
Q 016387 346 EREAIERLEAMGFDRAIVLEVFFACNKNEELAANYL 381 (390)
Q Consensus 346 e~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L 381 (390)
+.+.|++|++|||+++.+++||..|++|++.|++||
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 356799999999999999999999999999999998
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=98.80 E-value=9.1e-09 Score=70.11 Aligned_cols=36 Identities=39% Similarity=0.544 Sum_probs=34.5
Q ss_pred HHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhh
Q 016387 348 EAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLD 383 (390)
Q Consensus 348 ~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~ 383 (390)
+.|++|++|||+++.|++|+..|++|++.|++|||+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 579999999999999999999999999999999985
No 45
>PLN02560 enoyl-CoA reductase
Probab=98.76 E-value=1.9e-08 Score=99.35 Aligned_cols=70 Identities=30% Similarity=0.425 Sum_probs=61.2
Q ss_pred EEEEEEeCCCcEE---EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCchhhhccCCCCEE
Q 016387 2 MKIFVKTLKGTSF---DVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ---G----KVLKDDTTLEENKVAENSFV 71 (390)
Q Consensus 2 MkI~Vktl~g~~~---~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~---G----kiL~D~~tL~d~gI~~~s~I 71 (390)
|+|+|+..+|+.+ +|+|+++.||++||++|+++.+. +++++|||++. | +.|+|+++|+++||+++++|
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 7899998888887 79999999999999999999872 47999999972 3 48899999999999999986
Q ss_pred EE
Q 016387 72 VI 73 (390)
Q Consensus 72 ~v 73 (390)
+|
T Consensus 79 y~ 80 (308)
T PLN02560 79 VF 80 (308)
T ss_pred EE
Confidence 54
No 46
>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=98.75 E-value=1.6e-08 Score=68.96 Aligned_cols=37 Identities=49% Similarity=0.781 Sum_probs=35.2
Q ss_pred HHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 160 EGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 160 e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
++.|++|++|| |++++|++||+++.||.++|++||+.
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 99999999999999999999999974
No 47
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.73 E-value=1.6e-08 Score=68.57 Aligned_cols=36 Identities=47% Similarity=0.630 Sum_probs=34.2
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHh
Q 016387 347 REAIERLEAMGFDRAIVLEVFFACNKNEELAANYLL 382 (390)
Q Consensus 347 ~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~ 382 (390)
.+.|++|++|||+++.+++|+..|++|.+.|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 457999999999999999999999999999999997
No 48
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.71 E-value=5.8e-08 Score=78.36 Aligned_cols=74 Identities=23% Similarity=0.363 Sum_probs=59.7
Q ss_pred CEEEEEEeCCC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----C---eec-CCCCchhhhccCCCCE
Q 016387 1 MMKIFVKTLKG--TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ----G---KVL-KDDTTLEENKVAENSF 70 (390)
Q Consensus 1 mMkI~Vktl~g--~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~----G---kiL-~D~~tL~d~gI~~~s~ 70 (390)
|++|+|..... ...+..++.++||.+||.+|+..+| ++++.|+|.+. + ..| .|+.+|.+||+++|..
T Consensus 1 ~v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~G---i~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~ 77 (87)
T PF14560_consen 1 VVKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTG---IPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMR 77 (87)
T ss_dssp EEEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHT---S-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEE
T ss_pred CEEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhC---CCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCE
Confidence 46788887655 4888999999999999999999999 99999999765 2 224 4678999999999999
Q ss_pred EEEEEec
Q 016387 71 VVIMLTK 77 (390)
Q Consensus 71 I~v~v~k 77 (390)
|||+=..
T Consensus 78 i~V~D~~ 84 (87)
T PF14560_consen 78 IHVVDTN 84 (87)
T ss_dssp EEEEE-T
T ss_pred EEEEeCC
Confidence 9998654
No 49
>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=98.70 E-value=4.1e-08 Score=82.18 Aligned_cols=72 Identities=19% Similarity=0.295 Sum_probs=60.4
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhcc-------CCCCEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKV-------AENSFVVIM 74 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI-------~~~s~I~v~ 74 (390)
|-|.|| ....++.+++.++.||.+||++|+.... .|+++|+|+..+.+|+|+++|++||+ ....+|-+.
T Consensus 3 vFlmIr-R~KTTiF~dakes~tVlelK~~iegI~k---~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa 78 (119)
T cd01788 3 VFLMIR-RHKTTIFTDAKESTTVYELKRIVEGILK---RPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLA 78 (119)
T ss_pred eEEEEE-ecceEEEeecCCcccHHHHHHHHHHHhc---CChhHheeecCceeecccccHHHcCccccccccCCCCeEEEE
Confidence 344455 2334577899999999999999999999 99999999977889999999999999 557788887
Q ss_pred Eec
Q 016387 75 LTK 77 (390)
Q Consensus 75 v~k 77 (390)
+|+
T Consensus 79 ~r~ 81 (119)
T cd01788 79 FRS 81 (119)
T ss_pred Eec
Confidence 775
No 50
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.70 E-value=2.3e-08 Score=67.74 Aligned_cols=37 Identities=51% Similarity=0.770 Sum_probs=35.0
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHH
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLY 198 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~ 198 (390)
+++.|++|++|| |++++|++||+...||.++|++||+
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 51
>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=98.64 E-value=7.6e-08 Score=75.96 Aligned_cols=69 Identities=25% Similarity=0.249 Sum_probs=54.6
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhhccCCCCEEEE
Q 016387 3 KIFVKTLK-GTSFDVEVK-PEDTVFDVKMKIETVQGSDVYPAAQQML--IYQGKVLKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 3 kI~Vktl~-g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkL--i~~GkiL~D~~tL~d~gI~~~s~I~v 73 (390)
.|.++... .....++++ ++.||.+||+.|+...+. +++++||| .+.|++|.|+.+|.+|||++|++|+|
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 46666555 333334444 889999999999988752 67899988 48999999999999999999998875
No 52
>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=98.41 E-value=4.4e-07 Score=72.43 Aligned_cols=69 Identities=26% Similarity=0.333 Sum_probs=44.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---Ceec--CCCCchhhhccCCCCEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ---GKVL--KDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~---GkiL--~D~~tL~d~gI~~~s~I~v~ 74 (390)
|-|.||+.+| .+.|+|++++||.+||++|.+..+ ++...|.|..+ .+.| .++++|+++||+.|+.|+|.
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 7889998877 788999999999999999999999 88888888542 2344 46789999999999998763
No 53
>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=98.41 E-value=1.5e-06 Score=62.14 Aligned_cols=67 Identities=33% Similarity=0.464 Sum_probs=60.7
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 6 VKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 6 Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+..++....+.+....||.+||++|..+.| ++++.++|+++|+.+.+...+.++++.+++.|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG---LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC---cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444688889999999999999999999999 889999999999999999988999999999998874
No 54
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.4e-07 Score=68.97 Aligned_cols=71 Identities=20% Similarity=0.295 Sum_probs=64.3
Q ss_pred CEEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 1 MMKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 1 mMkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
|+.+.+...-|++..|.+.+++||+|+|+.|+.++| ..+++..|--.+.+++|.-+|++|.|++|-.+.+.
T Consensus 1 miev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtG---T~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 1 MIEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred CceehhhhhcCceEEEEeCCcccccCHHHHHHHhhC---CChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 678888888899999999999999999999999999 77888888777888999999999999999877664
No 55
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=98.18 E-value=9.1e-06 Score=63.18 Aligned_cols=72 Identities=18% Similarity=0.302 Sum_probs=62.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ---G--KVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~---G--kiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
++|+||-+.+..+.+.|+|..+|..||++|....+ ++ ..|||.|. | ..|.+..+|.+|||-.+..|.|+..
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 69999883 3 4578999999999998888887765
Q ss_pred c
Q 016387 77 K 77 (390)
Q Consensus 77 k 77 (390)
-
T Consensus 77 ~ 77 (80)
T cd01811 77 F 77 (80)
T ss_pred C
Confidence 3
No 56
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=4.3e-06 Score=85.31 Aligned_cols=73 Identities=23% Similarity=0.393 Sum_probs=67.4
Q ss_pred EEEEEeCCCcEEEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEecCC
Q 016387 3 KIFVKTLKGTSFDVE-VKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTKNK 79 (390)
Q Consensus 3 kI~Vktl~g~~~~ie-V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k~~ 79 (390)
.|.|| +.|+.|.++ ++.++|+..||.+|...+| ++|++||++++|+.|.|+..+..++|++|.+|++|.+...
T Consensus 5 ~v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTg---V~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~ 78 (473)
T KOG1872|consen 5 TVIVK-WGGKKYPVETLSTDETPSVLKAQLFALTG---VPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEA 78 (473)
T ss_pred eEeee-ecCccccceeccCCCchHHHHHHHHHhcC---CCccceeEEEecccccccccccccccCCCCEEEeeccccc
Confidence 47777 889999988 9999999999999999999 9999999999999999999999999999999999986543
No 57
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=7.9e-06 Score=79.47 Aligned_cols=73 Identities=32% Similarity=0.502 Sum_probs=62.1
Q ss_pred EEEEEEeC---CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 2 MKIFVKTL---KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 2 MkI~Vktl---~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
|.|.|+.. .-..+.|+|+.+.+|.+||+.++...| +|+++.|+||.||.|.|+.++..+.+.-.+.+|+|+-+
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~g---vp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lR 76 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQG---VPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLR 76 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhC---CChhheEEEEeccccccCceeecccccccchhhhhccC
Confidence 45566543 223488999999999999999999999 99999999999999999999999988888899988443
No 58
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.89 E-value=0.0001 Score=74.85 Aligned_cols=59 Identities=19% Similarity=0.142 Sum_probs=50.9
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 15 DVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 15 ~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.++++...|-.+|..+|.++.| ++..-.|.|.+||+|.-.+||.+-|++.+-.+.|++.
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 4566777888999999999999 8888889999999999999999999988776666654
No 59
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.75 E-value=3.2e-05 Score=78.61 Aligned_cols=42 Identities=31% Similarity=0.461 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhcCC
Q 016387 345 EEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDHMH 386 (390)
Q Consensus 345 ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~~~ 386 (390)
+-...|++|++|||+|++|..|+.|+..|-+.|++||+...-
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP 196 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIP 196 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCC
Confidence 344559999999999999999999999999999999998644
No 60
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.60 E-value=9.3e-05 Score=60.26 Aligned_cols=62 Identities=26% Similarity=0.357 Sum_probs=50.9
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC-eecCCCCchhhhccCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QG-KVLKDDTTLEENKVAE 67 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~G-kiL~D~~tL~d~gI~~ 67 (390)
|-|.||- ...++.++.+++.||.+||.+++.... -|++.|+|+. .- ..|+|.++|++||...
T Consensus 3 ~f~~VrR-~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gfts 66 (110)
T KOG4495|consen 3 VFLRVRR-HKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFTS 66 (110)
T ss_pred eeeeeee-cceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhccccc
Confidence 4455663 345678899999999999999999998 8999999975 33 6789999999998743
No 61
>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=97.46 E-value=0.00031 Score=58.08 Aligned_cols=60 Identities=20% Similarity=0.279 Sum_probs=46.6
Q ss_pred EEEEeCCC-cEEEEEeC--CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhc
Q 016387 4 IFVKTLKG-TSFDVEVK--PEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENK 64 (390)
Q Consensus 4 I~Vktl~g-~~~~ieV~--~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~g 64 (390)
|+||..++ ..+.++|. .+.||..||+.|.+..+.+ ..-..+||||+||+|.|+..|...-
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~-~s~~rLRlI~~Gr~L~d~t~l~~~l 65 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPE-PSRRRLRLIYAGRLLNDHTDLSSEL 65 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCC-CccccEEeeecCcccCccchhhhhh
Confidence 56665542 33667777 7899999999999998533 6677889999999999998877653
No 62
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=2.3e-05 Score=76.80 Aligned_cols=79 Identities=20% Similarity=0.253 Sum_probs=60.9
Q ss_pred EEEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccC--CCCEEEEEEec
Q 016387 2 MKIFVKTLKGTS--FDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVA--ENSFVVIMLTK 77 (390)
Q Consensus 2 MkI~Vktl~g~~--~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~--~~s~I~v~v~k 77 (390)
+.++||..+.+. ..|.++..+||.+||+.++..+..+ --..+|||||+||.|.|...|.|+-+| ...++||++..
T Consensus 10 v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPsk-pl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvcns 88 (391)
T KOG4583|consen 10 VTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSK-PLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVCNS 88 (391)
T ss_pred eEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCC-CchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhcCC
Confidence 456777766544 5677778999999999999998754 346789999999999999999998554 34577777765
Q ss_pred CCCC
Q 016387 78 NKRP 81 (390)
Q Consensus 78 ~~~~ 81 (390)
+...
T Consensus 89 k~v~ 92 (391)
T KOG4583|consen 89 KEVV 92 (391)
T ss_pred CCCC
Confidence 5443
No 63
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.0012 Score=54.43 Aligned_cols=73 Identities=11% Similarity=0.226 Sum_probs=65.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
++|.|+.-++....+.|..+.....|++.-++..| +.....|++|+|+.+.+..|=.+++.++++.|.++...
T Consensus 21 i~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~G---l~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q 93 (99)
T KOG1769|consen 21 INLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQG---LSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQ 93 (99)
T ss_pred EEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcC---CccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeec
Confidence 56777776677778899999999999999999999 88999999999999999999999999999999988654
No 64
>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=97.26 E-value=0.0007 Score=53.57 Aligned_cols=72 Identities=19% Similarity=0.275 Sum_probs=51.1
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAA---QQMLI-YQGKVLKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~---~QkLi-~~GkiL~D~~tL~d~gI~~~s~I~v 73 (390)
++|+|...+|+.+.+.+..+.+|.+|...|.+..+....... ..+|. -+|..|.++.+|.++||.+|+.|++
T Consensus 3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 578888655688999999999999999999998773212222 35666 6899999999999999999999986
No 65
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.22 E-value=0.0025 Score=50.41 Aligned_cols=69 Identities=23% Similarity=0.326 Sum_probs=58.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQ-QMLI--YQGKVLKDD--TTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLi--~~GkiL~D~--~tL~d~gI~~~s~I~v 73 (390)
.+|.||..+|+.+...+..++||.+|...|..... .+... .+|+ |-.+.|.++ ++|+++|+..+.+|+|
T Consensus 7 ~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~---~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 7 VRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF---SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH---CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC---CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 57999999999999999999999999999998877 34443 6775 678888654 6999999999998876
No 66
>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=97.07 E-value=0.00094 Score=46.51 Aligned_cols=39 Identities=28% Similarity=0.390 Sum_probs=35.2
Q ss_pred hHHHHHHHHHc--cCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 159 LEGAIQQILDM--GGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 159 ~e~~I~~i~~M--G~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
+++.|+.|.+| . |+++.+.++|++.-+|.|+||++|+.|
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 6 999999999999999999999999875
No 67
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.03 E-value=0.0045 Score=48.98 Aligned_cols=69 Identities=14% Similarity=0.141 Sum_probs=56.4
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD---DTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D---~~tL~d~gI~~~s~I~v 73 (390)
.+|.||..+|+.+...+..++||.+|...|....+ ......+|+ |-.|.|.+ +++|.++|+....+|+|
T Consensus 5 ~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 5 CRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 47899999999999999999999999999966555 445567775 67788864 47999999988887765
No 68
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.93 E-value=0.005 Score=48.07 Aligned_cols=72 Identities=13% Similarity=0.247 Sum_probs=58.6
Q ss_pred EEEE--EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCeEEEeCCeecCCCCchhhhccCCCCEEEE
Q 016387 2 MKIF--VKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYP--AAQQMLIYQGKVLKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~--Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip--~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v 73 (390)
|+|| ++...|++|.+.++.-.+|+.|-..+.+....+-.+ -..+|+.-++++|.++..|.+|+|.+|+.+.+
T Consensus 5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 5555 467789999999999999999998887776533122 24568889999999999999999999998875
No 69
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.85 E-value=0.0021 Score=61.09 Aligned_cols=70 Identities=17% Similarity=0.177 Sum_probs=53.4
Q ss_pred EEEEEEeCCCc--EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE----eCCeecCCCCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGT--SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI----YQGKVLKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~--~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi----~~GkiL~D~~tL~d~gI~~~s~I~v 73 (390)
|+|+++..++. ...++++...||.|+++.|..+..+ +.+..+|+. -+||.|.|+.+|++|+..++.+|+|
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 68999877663 2336778899999999888877653 556555443 4799999999999999999866643
No 70
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.84 E-value=0.002 Score=59.74 Aligned_cols=65 Identities=25% Similarity=0.387 Sum_probs=55.9
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCC--EEEEEEec
Q 016387 10 KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENS--FVVIMLTK 77 (390)
Q Consensus 10 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s--~I~v~v~k 77 (390)
+++.|.+.+...+||.++|.++....+ +.+-.|+++|+|+.|.|...|..|+|..|. +|.++|..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq 221 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQ 221 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEEEEecc
Confidence 466788889999999999999999999 668899999999999999999999999984 44444443
No 71
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00072 Score=71.87 Aligned_cols=43 Identities=35% Similarity=0.649 Sum_probs=40.1
Q ss_pred cchHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhCCC
Q 016387 157 NNLEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSGIP 202 (390)
Q Consensus 157 ~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~GIP 202 (390)
+..|+.|..|++|| |.|.|++.||++..||++|||||+++-+-
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 99999999999999999999999999855
No 72
>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=96.77 E-value=0.011 Score=46.27 Aligned_cols=67 Identities=24% Similarity=0.330 Sum_probs=53.8
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD---DTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D---~~tL~d~gI~~~s~I~v 73 (390)
.+|.||..+|+.+...+..++||.+|...|..... - .....|+ |-.|.|.| +.+|.++|+. .+.+.+
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~---~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~ 74 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP---P-AEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQ 74 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC---C-CCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEE
Confidence 47899999999999999999999999999987654 2 4556775 66788865 6799999999 455544
No 73
>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=96.72 E-value=0.012 Score=46.56 Aligned_cols=68 Identities=19% Similarity=0.408 Sum_probs=55.9
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhhccCCCCEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD---DTTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D---~~tL~d~gI~~~s~I~v 73 (390)
.+|.||..+|+.+.-.+..++||.+|+..|....+ . ....+|+ |-.|.+.+ +++|.++|+.+..+|+|
T Consensus 5 ~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~---~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 5 TRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG---N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC---C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 47899999999999899999999999999986654 2 2556775 77899964 47999999998887765
No 74
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0024 Score=66.17 Aligned_cols=43 Identities=26% Similarity=0.393 Sum_probs=38.7
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHhCC-CHHHHHHHHhhcCCCCC
Q 016387 347 REAIERLEAMGFDRAIVLEVFFACNK-NEELAANYLLDHMHEFE 389 (390)
Q Consensus 347 ~~ai~rL~~lGF~~~~~iqAy~ac~k-ne~~Aan~L~~~~~d~~ 389 (390)
+-+|++|++|||+...+.+|+++++. |-|-|-||||+++.|-|
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPd 602 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPD 602 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcc
Confidence 44699999999999999999999875 89999999999998754
No 75
>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=96.61 E-value=0.015 Score=46.12 Aligned_cols=64 Identities=22% Similarity=0.283 Sum_probs=52.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCchhhhccCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD-DTTLEENKVAE 67 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D-~~tL~d~gI~~ 67 (390)
.+|.||..+|+.+...+..++||.+|+..|....+. .......|+ |-.|.|.| +.||++.|+..
T Consensus 5 t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~ 71 (79)
T cd01770 5 TSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLN 71 (79)
T ss_pred eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcC
Confidence 478999999999999999999999999999987641 223556775 77888865 67999999985
No 76
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.44 E-value=0.026 Score=45.29 Aligned_cols=70 Identities=16% Similarity=0.377 Sum_probs=60.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD---DTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D---~~tL~d~gI~~~s~I~v~v 75 (390)
-+|.||..+|+.+.-.+..++|+.+|...|.. .| .+.+..+|+ |--|.|.. +.+|.+.|+....+|+|--
T Consensus 6 t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 6 ARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 47999999999999999999999999999988 56 678889997 66788842 4799999999999887743
No 77
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=96.40 E-value=0.0041 Score=42.86 Aligned_cols=35 Identities=51% Similarity=0.712 Sum_probs=29.3
Q ss_pred hhCCHHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHH
Q 016387 268 LRNSPQFQVLRAMVQANPQLLQPMLQELGKQNPQLVRLI 306 (390)
Q Consensus 268 L~~~P~~~~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I 306 (390)
+.++|+|+++++.+++||+++..+++. ||++++.|
T Consensus 7 ~l~~P~~~~~l~~~~~nP~~~~~~~~~----nP~~~~~i 41 (41)
T smart00727 7 RLQNPQVQSLLQDMQQNPDMLAQMLQE----NPQLLQLI 41 (41)
T ss_pred HHcCHHHHHHHHHHHHCHHHHHHHHHh----CHHhHhhC
Confidence 445999999999999999988877655 99998764
No 78
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.005 Score=65.71 Aligned_cols=44 Identities=30% Similarity=0.568 Sum_probs=40.4
Q ss_pred HHHHHHHHHHcCCChHHHHHHHHHh-CCCHHHHHHHHhhcCCCCC
Q 016387 346 EREAIERLEAMGFDRAIVLEVFFAC-NKNEELAANYLLDHMHEFE 389 (390)
Q Consensus 346 e~~ai~rL~~lGF~~~~~iqAy~ac-~kne~~Aan~L~~~~~d~~ 389 (390)
++..|.+|++|||+.+.+.+|++.+ +.+.|.|-||||+++.|.|
T Consensus 571 d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd 615 (763)
T KOG0944|consen 571 DRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPD 615 (763)
T ss_pred hHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcc
Confidence 5667999999999999999999888 8999999999999998865
No 79
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=96.31 E-value=0.0053 Score=60.63 Aligned_cols=40 Identities=33% Similarity=0.520 Sum_probs=36.5
Q ss_pred HHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhcCCC
Q 016387 348 EAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDHMHE 387 (390)
Q Consensus 348 ~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~~~d 387 (390)
..|.+|++|||+|+.|+.|+.|..+|-|.|++||+...-+
T Consensus 137 ~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~ 176 (340)
T KOG0011|consen 137 QTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPE 176 (340)
T ss_pred HHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCcc
Confidence 4599999999999999999999999999999999986543
No 80
>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=96.28 E-value=0.0091 Score=41.49 Aligned_cols=37 Identities=32% Similarity=0.487 Sum_probs=32.8
Q ss_pred HHHHHHHHc--CCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 348 EAIERLEAM--GFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 348 ~ai~rL~~l--GF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
..|++|++| .++++.+..+|.+|++|.+.|++.||+.
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 458999999 6899999999999999999999999974
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=96.23 E-value=0.04 Score=44.40 Aligned_cols=68 Identities=15% Similarity=0.150 Sum_probs=56.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC--CeecC--------CCCchhhhccCCCCEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ--GKVLK--------DDTTLEENKVAENSFV 71 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~--GkiL~--------D~~tL~d~gI~~~s~I 71 (390)
.+|.||..+|+.+.-.+..++||.+|...|.. .+ ..++...|+++ -|.|. .+.||++.|+....+|
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 68999999999998899999999999999964 44 45678888854 48885 2579999999987777
Q ss_pred EE
Q 016387 72 VI 73 (390)
Q Consensus 72 ~v 73 (390)
.|
T Consensus 81 ~V 82 (85)
T cd01774 81 FV 82 (85)
T ss_pred EE
Confidence 65
No 82
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.15 E-value=0.0066 Score=55.40 Aligned_cols=47 Identities=21% Similarity=0.258 Sum_probs=44.0
Q ss_pred cccccCcchHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 151 SNLVAGNNLEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 151 s~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
..+..+..+.+.|.+|.+|| |+|+.++.+|+-...|..+|.|+|++|
T Consensus 154 ~~~~~~~~~~~~v~~l~~mG---f~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 154 GRLPDDPWDKKKVDSLIEMG---FSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCCCchhHHHHHHHHHhc---ccHHHHHHHhhccccchhhhhHhhccC
Confidence 33778889999999999999 999999999999999999999999987
No 83
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.016 Score=53.76 Aligned_cols=73 Identities=21% Similarity=0.307 Sum_probs=57.5
Q ss_pred CEEEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eecC-CCCchhhhccCCCCEEE
Q 016387 1 MMKIFVKTLKGT-SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML-IYQG-----KVLK-DDTTLEENKVAENSFVV 72 (390)
Q Consensus 1 mMkI~Vktl~g~-~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-i~~G-----kiL~-D~~tL~d~gI~~~s~I~ 72 (390)
|++|.|.+...+ .+...+..+.||.+||.|++..+| .+++.++| +|.| ..|. ++..|..|+..+|-.||
T Consensus 1 ~v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G---~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rih 77 (234)
T KOG3206|consen 1 MVRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTG---TEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIH 77 (234)
T ss_pred CeEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhC---CCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEE
Confidence 567777654332 244567899999999999999999 89999999 5765 3465 46799999999999999
Q ss_pred EEEe
Q 016387 73 IMLT 76 (390)
Q Consensus 73 v~v~ 76 (390)
|+=.
T Consensus 78 viD~ 81 (234)
T KOG3206|consen 78 VIDS 81 (234)
T ss_pred EEec
Confidence 8853
No 84
>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=96.09 E-value=0.027 Score=43.20 Aligned_cols=63 Identities=17% Similarity=0.144 Sum_probs=46.4
Q ss_pred eCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEE
Q 016387 8 TLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 8 tl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v 73 (390)
..+++.+.|.|.++.|+.++-+....++| +.+++-.|.|++|.|+-+.++.-.|+-.|..+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~---l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFG---LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT-----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcC---CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 36788999999999999999999999999 8888999999999999999999999999988764
No 85
>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=96.06 E-value=0.016 Score=40.51 Aligned_cols=40 Identities=25% Similarity=0.309 Sum_probs=33.1
Q ss_pred HHHHHHHHc-CCChHHHHHHHHHhCCCHHHHHHHHhhcCCC
Q 016387 348 EAIERLEAM-GFDRAIVLEVFFACNKNEELAANYLLDHMHE 387 (390)
Q Consensus 348 ~ai~rL~~l-GF~~~~~iqAy~ac~kne~~Aan~L~~~~~d 387 (390)
+.|.+++++ |.+++.+++-+.+|++|.+.|++..|++..+
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~ 42 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA 42 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence 458888887 9999999999999999999999999987643
No 86
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.0089 Score=54.55 Aligned_cols=45 Identities=22% Similarity=0.293 Sum_probs=41.0
Q ss_pred ccCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 340 IQVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
....+.+...|.+|++|||+|..+|.++.--++|.+.|.+.||++
T Consensus 156 ~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 156 LPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 455777888899999999999999999999999999999999874
No 87
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.94 E-value=0.067 Score=42.62 Aligned_cols=69 Identities=20% Similarity=0.273 Sum_probs=58.5
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC--C-CCchhhhccCCCCEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLK--D-DTTLEENKVAENSFVVIM 74 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~--D-~~tL~d~gI~~~s~I~v~ 74 (390)
.+|.||..+|+.+.-.+..++|+.+|...|... | ++....+|+ |--|.+. | +.+|.+.|+....+|+|-
T Consensus 5 ~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~---~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 5 SKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-G---YPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-C---CCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 589999999999988999999999999999864 6 667788886 7788885 2 469999999988888763
No 88
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.92 E-value=0.053 Score=48.85 Aligned_cols=77 Identities=17% Similarity=0.259 Sum_probs=55.4
Q ss_pred EEEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe-EEEe-CCeec--CCCCchhhhccCCCC----
Q 016387 2 MKIFVKTLKG----TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQ-MLIY-QGKVL--KDDTTLEENKVAENS---- 69 (390)
Q Consensus 2 MkI~Vktl~g----~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Q-kLi~-~GkiL--~D~~tL~d~gI~~~s---- 69 (390)
|+|+|+++.| .++.+.+..+.||.+|+.+|....+ ++...+ .|.+ .++.| .++..++.+.-...+
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 6899999999 5888999999999999999999999 666663 3443 34444 456677777544332
Q ss_pred EEEEEEecCCCC
Q 016387 70 FVVIMLTKNKRP 81 (390)
Q Consensus 70 ~I~v~v~k~~~~ 81 (390)
+|+|+++.....
T Consensus 78 ~l~l~~rl~GGK 89 (162)
T PF13019_consen 78 TLRLSLRLRGGK 89 (162)
T ss_pred EEEEEEeccCCC
Confidence 456666655443
No 89
>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=95.90 E-value=0.021 Score=39.84 Aligned_cols=39 Identities=26% Similarity=0.418 Sum_probs=36.0
Q ss_pred hHHHHHHHHHc--cCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 159 LEGAIQQILDM--GGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 159 ~e~~I~~i~~M--G~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
.++.|..|.+| . ++++.|++.|++.-||.|+|++.|+.|
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 6 899999999999999999999999976
No 90
>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=94.97 E-value=0.066 Score=37.26 Aligned_cols=37 Identities=35% Similarity=0.454 Sum_probs=32.6
Q ss_pred HHHHHHHHc--CCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 348 EAIERLEAM--GFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 348 ~ai~rL~~l--GF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
..|++|++| .+++..+...|.+|++|.+.|.|.||+.
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 468999999 3478999999999999999999999975
No 91
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=94.59 E-value=0.13 Score=41.73 Aligned_cols=70 Identities=17% Similarity=0.200 Sum_probs=59.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
.+.|-.-+|..+.+.|..+.|...|-+..+...| -..+..|++|+|+.++-++|=.+++..+++.|.++.
T Consensus 26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqG---K~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~ 95 (103)
T COG5227 26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQG---KNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVT 95 (103)
T ss_pred ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhC---cCcceeEEEEcceecCCCCChhhcCCccchHHHHHH
Confidence 3455555677788899999999999999999999 458899999999999999999999999988776543
No 92
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.55 E-value=0.14 Score=40.51 Aligned_cols=67 Identities=13% Similarity=0.162 Sum_probs=47.3
Q ss_pred CEEEEEEeCC------C-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCchhhhccCCCCEE
Q 016387 1 MMKIFVKTLK------G-TSFDVEVKPEDTVFDVKMKIETVQGSDVYPA--AQQMLIYQGKVLKDDTTLEENKVAENSFV 71 (390)
Q Consensus 1 mMkI~Vktl~------g-~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~--~~QkLi~~GkiL~D~~tL~d~gI~~~s~I 71 (390)
||+|+|+... | ....+++....||.+|++.|...... +.. ....+..+|+...++ +-|++|+.|
T Consensus 1 ~m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~--l~~~~~~~~vavN~~~v~~~-----~~l~dgDeV 73 (82)
T PLN02799 1 SVEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPS--LEEVRSCCVLALNEEYTTES-----AALKDGDEL 73 (82)
T ss_pred CeEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChh--HHHHhhCcEEEECCEEcCCC-----cCcCCCCEE
Confidence 7999999864 4 45677888889999999999876521 111 123456788887543 457889999
Q ss_pred EEE
Q 016387 72 VIM 74 (390)
Q Consensus 72 ~v~ 74 (390)
.++
T Consensus 74 ai~ 76 (82)
T PLN02799 74 AII 76 (82)
T ss_pred EEe
Confidence 876
No 93
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=94.05 E-value=0.095 Score=41.36 Aligned_cols=57 Identities=23% Similarity=0.257 Sum_probs=46.5
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhh-ccCCCCEEEEEEe
Q 016387 18 VKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEEN-KVAENSFVVIMLT 76 (390)
Q Consensus 18 V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~-gI~~~s~I~v~v~ 76 (390)
|+++++|.+||+.|...... ..-....|.++|+.|+|...|+++ |++++..|.|+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t--~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPET--CYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCccc--cceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence 56889999999999877542 344566888999999999999988 6899999888753
No 94
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.92 E-value=0.062 Score=39.74 Aligned_cols=23 Identities=39% Similarity=0.715 Sum_probs=19.6
Q ss_pred HHHHHHHHHccCCCCCHHHHHHHHHH
Q 016387 160 EGAIQQILDMGGGTWDRDTVVRALRA 185 (390)
Q Consensus 160 e~~I~~i~~MG~~~f~r~qv~~ALrA 185 (390)
...|.++++|| |+|+.|+.|||.
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 57999999999 999999999995
No 95
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=93.87 E-value=0.4 Score=36.98 Aligned_cols=61 Identities=20% Similarity=0.379 Sum_probs=43.9
Q ss_pred CEEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 1 MMKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 1 mMkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
||+|+|... ++...++++...||.+|.+.+ + ++.....+..+|+++.. +.-+++|+.|.++
T Consensus 4 mm~v~vng~-~~~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 4 MIRVKVIGR-GIEKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred EEEEEEecc-ccceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 456666421 225678888889999998766 5 66667777899999864 4457888888876
No 96
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.66 E-value=0.053 Score=40.09 Aligned_cols=37 Identities=30% Similarity=0.557 Sum_probs=25.4
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHh-----CCCHHHHHHHHhh
Q 016387 347 REAIERLEAMGFDRAIVLEVFFAC-----NKNEELAANYLLD 383 (390)
Q Consensus 347 ~~ai~rL~~lGF~~~~~iqAy~ac-----~kne~~Aan~L~~ 383 (390)
.+.|+|++.|||+++.||+||.-- +++-+...|+.++
T Consensus 10 ~~lVd~F~~mGF~~dkVvevlrrlgik~~n~~dn~t~~~ilE 51 (55)
T PF09288_consen 10 KDLVDQFENMGFERDKVVEVLRRLGIKSMNGVDNETENKILE 51 (55)
T ss_dssp HHHHHHHHHHT--HHHHHHHHHHS--SS--SS--HHHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCccchhHHHHHH
Confidence 456999999999999999998754 3345677777665
No 97
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=93.08 E-value=0.13 Score=41.51 Aligned_cols=35 Identities=29% Similarity=0.628 Sum_probs=31.1
Q ss_pred HHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 350 IERLEAMGFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 350 i~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
|+++.++||++..|++|+.+|-+|..+|..|++..
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 67789999999999999999999999999998876
No 98
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=93.05 E-value=0.25 Score=36.95 Aligned_cols=56 Identities=23% Similarity=0.403 Sum_probs=40.0
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
|+|+|. |+ .+++..+.|+.+||+++... .=.+||+|-..+++. -+++|+.|+++.|
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~---------~DI~I~NGF~~~~d~-----~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKPD---------ADIVILNGFPTKEDI-----ELKEGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCCC---------CCEEEEcCcccCCcc-----ccCCCCEEEEEeC
Confidence 566664 44 36777888999999865443 227799998887754 4678898888753
No 99
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=93.02 E-value=0.13 Score=53.55 Aligned_cols=41 Identities=34% Similarity=0.524 Sum_probs=37.4
Q ss_pred cchHHHHHHHHHccCCCC-CHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 157 NNLEGAIQQILDMGGGTW-DRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 157 ~~~e~~I~~i~~MG~~~f-~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
..|..-.++|-+|| | +|+.-++||+|.+.+.++|||-|+.+
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 45777899999999 9 99999999999999999999999853
No 100
>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=92.27 E-value=0.21 Score=40.32 Aligned_cols=35 Identities=29% Similarity=0.475 Sum_probs=31.3
Q ss_pred HHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 163 IQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 163 I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
|+.+.+.| |+++.|.+||++.-+++..|..|++++
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 56788899 999999999999999999999999988
No 101
>PRK06437 hypothetical protein; Provisional
Probab=91.79 E-value=0.97 Score=34.61 Aligned_cols=54 Identities=22% Similarity=0.309 Sum_probs=42.7
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 10 KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 10 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
.++...++++...||.+|-+.+ + ++++...+..+|+++. .++-+++|+.|.++-
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~L----g---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKDL----G---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 4555778888889999887654 6 7788888899999998 455678899988774
No 102
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=91.16 E-value=0.33 Score=48.78 Aligned_cols=69 Identities=14% Similarity=0.180 Sum_probs=58.4
Q ss_pred EEEEEEeC--CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC--CchhhhccCCCCEEEE
Q 016387 2 MKIFVKTL--KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDD--TTLEENKVAENSFVVI 73 (390)
Q Consensus 2 MkI~Vktl--~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~--~tL~d~gI~~~s~I~v 73 (390)
|.++|.+. ..++|.|.|..+-....|+..+....| +..+..-|+|++++|.++ ..|..||++.+++|.+
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 45555544 667788999999999999999999999 889999999999999765 6899999999887743
No 103
>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=91.12 E-value=0.57 Score=32.59 Aligned_cols=37 Identities=27% Similarity=0.403 Sum_probs=30.9
Q ss_pred HHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 160 EGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 160 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
++.|.+.|+. | -+++.++.-|+.+.+|.++||+..+.
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 6 79999999999999999999987664
No 104
>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=90.64 E-value=0.56 Score=33.66 Aligned_cols=39 Identities=28% Similarity=0.451 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHH--cCCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 344 PEEREAIERLEA--MGFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 344 ~ee~~ai~rL~~--lGF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
|||. |++-.. -|=+|+..|+-+..++-|+++|+|-||+.
T Consensus 9 Pedl--I~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 9 PEDL--INQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp -HHH--HHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHH--HHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 4443 555444 38899999999999999999999999998
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=90.61 E-value=0.37 Score=34.27 Aligned_cols=37 Identities=24% Similarity=0.493 Sum_probs=29.3
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHH
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLY 198 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~ 198 (390)
.++.+.-|+.+| |.+.++.+|++....+++.-+|.++
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 478999999999 9999999999998756665566654
No 106
>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=90.56 E-value=1.5 Score=33.91 Aligned_cols=68 Identities=25% Similarity=0.265 Sum_probs=49.5
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCchhhhccCCCCEEEEEE
Q 016387 6 VKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY----QG--KVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 6 Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~----~G--kiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+.++|...+++|+.+.|+.+|=..|+...+. ...+-.-|.| +| .-|+.+++|.+...+.+....+..
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~f 74 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYF 74 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEE
Confidence 67789999999999999999999999999993 2344456767 23 236778899988777333333333
No 107
>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=90.13 E-value=1.5 Score=35.07 Aligned_cols=43 Identities=21% Similarity=0.255 Sum_probs=37.1
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
+||+++ + ++-|.|.+..+..+|+++|.++.+ ++.+..+|-|+.
T Consensus 5 vKV~f~---~-tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkd 47 (80)
T cd06406 5 VKVHFK---Y-TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKS 47 (80)
T ss_pred EEEEEE---E-EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEecc
Confidence 455555 3 888999999999999999999999 889999999964
No 108
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=89.07 E-value=0.47 Score=49.00 Aligned_cols=42 Identities=21% Similarity=0.375 Sum_probs=38.5
Q ss_pred HHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhCCCCc
Q 016387 160 EGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSGIPEQ 204 (390)
Q Consensus 160 e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~GIP~~ 204 (390)
...|.+|+.|| |++-..+.||++.-||.|.|.++|+--++..
T Consensus 430 ~~~la~Lv~mG---F~e~~A~~ALe~~gnn~~~a~~~L~~s~~n~ 471 (568)
T KOG2561|consen 430 GISLAELVSMG---FEEGKARSALEAGGNNEDTAQRLLSASVANE 471 (568)
T ss_pred hhhHHHHHHhc---cccchHHHHHHhcCCcHHHHHHHHHHhCCCC
Confidence 45799999999 9999999999999999999999999887753
No 109
>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=89.00 E-value=1.1 Score=33.55 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=37.1
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
..++|++|-|.-|+ +..+++-..|+-.+++||.||+-|++=
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 46899999998766 899999999999999999999999974
No 110
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=88.46 E-value=1.6 Score=32.90 Aligned_cols=60 Identities=17% Similarity=0.283 Sum_probs=41.5
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+.+.+ + ..||.+|.+.+ + +..+...+-++|+++.. ....+.-+++|+.|.++-
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---YEGNWLATAVNGELVHK-EARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEEC---CeEEEc--C-cCcHHHHHHHc----C---CCCCeEEEEECCEEcCH-HHcCccccCCCCEEEEEE
Confidence 456554 777666 3 35899988765 5 55566677899999873 234456688999988774
No 111
>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=88.37 E-value=2.1 Score=33.06 Aligned_cols=57 Identities=14% Similarity=0.101 Sum_probs=41.2
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 13 SFDVEVKPEDTVFDVKMKIETVQGS-DVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 13 ~~~ieV~~~~TV~dLK~~I~~~~g~-~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
...++++...||.+|.+.+...++. .........+..+|+.... +.-|++|+.|.++
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ 74 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAII 74 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEe
Confidence 3567887789999999999988541 0012345567789998873 4568899999887
No 112
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=88.03 E-value=0.15 Score=50.28 Aligned_cols=62 Identities=24% Similarity=0.432 Sum_probs=0.0
Q ss_pred EEEEEEeCCCcEEEEEeC---C--CCCHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCchh
Q 016387 2 MKIFVKTLKGTSFDVEVK---P--EDTVFDVKMKIET----------VQGSDVYPAAQQM-----LIYQGKVLKDDTTLE 61 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~---~--~~TV~dLK~~I~~----------~~g~~~ip~~~Qk-----Li~~GkiL~D~~tL~ 61 (390)
+.|++|.+.+-.+.|.+. + +.||.+||..++. +.+ +|.+++| |+|+.|.+.|.++|.
T Consensus 79 ItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~---vp~dKik~~~~~lL~~kkPv~~~ktl~ 155 (309)
T PF12754_consen 79 ITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETR---VPLDKIKNFRCRLLYKKKPVGDSKTLA 155 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhccccccccccc---CCHHHhhhhhhhheecCccCCCcCcHH
Confidence 456777776666555443 2 5789999999999 777 8999999 999999999999988
Q ss_pred hhccC
Q 016387 62 ENKVA 66 (390)
Q Consensus 62 d~gI~ 66 (390)
+..-.
T Consensus 156 e~l~~ 160 (309)
T PF12754_consen 156 EVLAD 160 (309)
T ss_dssp -----
T ss_pred HHHhc
Confidence 87433
No 113
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=87.82 E-value=3.8 Score=33.32 Aligned_cols=63 Identities=16% Similarity=0.256 Sum_probs=42.8
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--e--CC-eecCC-CCchhhhccCCCCEEEEEEec
Q 016387 11 GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--Y--QG-KVLKD-DTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 11 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~--~G-kiL~D-~~tL~d~gI~~~s~I~v~v~k 77 (390)
...++..++..+||..+++.+.+.+. + ..+-||- | ++ ..|.+ +.||.+.||.+|-.|++=.+.
T Consensus 13 ~~~~t~~FSk~DTI~~v~~~~rklf~---i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 13 QSVLTKQFSKTDTIGFVEKEMRKLFN---I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp CEEEEEEE-TTSBHHHHHHHHHHHCT-----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred ccHhHhhccccChHHHHHHHHHHHhC---C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 34677889999999999999999999 8 6777883 3 22 24654 579999999999877766654
No 114
>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=87.28 E-value=1.8 Score=35.11 Aligned_cols=74 Identities=20% Similarity=0.250 Sum_probs=49.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CCeec-CCCCchhhh-c---cCCCCEEEE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY----QGKVL-KDDTTLEEN-K---VAENSFVVI 73 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~----~GkiL-~D~~tL~d~-g---I~~~s~I~v 73 (390)
.+++|..+|+.+.+.+.+++.+.+|+..|..+.|.+........|.| +-++| .-+.-|.+| . .....+|.+
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 46788999999999999999999999999999993312225677777 23443 333334443 2 233445655
Q ss_pred EEe
Q 016387 74 MLT 76 (390)
Q Consensus 74 ~v~ 76 (390)
++.
T Consensus 82 ~v~ 84 (86)
T cd06409 82 HLH 84 (86)
T ss_pred EEe
Confidence 553
No 115
>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=84.43 E-value=8 Score=30.97 Aligned_cols=57 Identities=25% Similarity=0.439 Sum_probs=40.2
Q ss_pred HHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCCCCCCCCccccccCCCCccccCCHHHHHHH-----HHHHHcCCChHHH
Q 016387 289 QPMLQELGKQNPQLVRLIQEHQADFLRLINEPVQGGEGNLGDQLAGLMPQSIQVTPEEREAI-----ERLEAMGFDRAIV 363 (390)
Q Consensus 289 ~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~~~~~g~~~~~~~~~~~~~~~~t~ee~~ai-----~rL~~lGF~~~~~ 363 (390)
+.++++|.. +|.+.+...++|+.|+.- ..||+||+++| ..|..+|-+--..
T Consensus 7 nrli~~L~~-dp~~rerF~~DPea~~~~-----------------------~gLt~eE~~aL~~~D~~~L~~lGvhp~L~ 62 (81)
T cd07922 7 NRLIQELFK-DPGLIERFQDDPSAVFEE-----------------------YGLTPAERAALREGTFGALTSIGVHPILQ 62 (81)
T ss_pred HHHHHHHhc-CHHHHHHHHHCHHHHHHH-----------------------cCCCHHHHHHHHccCHHHHHHcCCCHHHH
Confidence 667777655 899999999999888753 35699999994 4577777655444
Q ss_pred HHHHHH
Q 016387 364 LEVFFA 369 (390)
Q Consensus 364 iqAy~a 369 (390)
..=++.
T Consensus 63 mh~~~~ 68 (81)
T cd07922 63 MHYLMY 68 (81)
T ss_pred HHHHHH
Confidence 444433
No 116
>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=83.90 E-value=11 Score=33.91 Aligned_cols=62 Identities=21% Similarity=0.193 Sum_probs=46.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEe--C-C---eecCCCCchhhhccC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPA-AQQMLIY--Q-G---KVLKDDTTLEENKVA 66 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLi~--~-G---kiL~D~~tL~d~gI~ 66 (390)
+.|.|..++|....+.++.+.||.+|...|+.+.| +.. ...-|.+ . + .-|+...+|.+...+
T Consensus 4 ~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 4 RVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 57889999999999999999999999999999999 532 2224433 1 2 346666777777655
No 117
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=82.94 E-value=4.7 Score=32.41 Aligned_cols=61 Identities=8% Similarity=0.205 Sum_probs=42.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+| +|+.+ +++...||.+|-+. .+ ++....-+-++|.++.- ....++-+++|+.|.++-
T Consensus 19 m~I~V---NG~~~--~~~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 19 ITISI---NDQSI--QVDISSSLAQIIAQ----LS---LPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred EEEEE---CCeEE--EcCCCCcHHHHHHH----cC---CCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEE
Confidence 45554 46654 44667788887764 35 66777777899999953 244566689999998874
No 118
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=82.88 E-value=7.3 Score=31.13 Aligned_cols=70 Identities=16% Similarity=0.192 Sum_probs=46.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCe----e-cCCCCchhh----hccCCCCEEE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPA-AQQMLIYQGK----V-LKDDTTLEE----NKVAENSFVV 72 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLi~~Gk----i-L~D~~tL~d----~gI~~~s~I~ 72 (390)
+|++. .+|..+.+.+.++.+..+|+.+|.++++ +.. ....|-|..- + |..+.-|.+ |.....++|.
T Consensus 2 ~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v~ 77 (82)
T cd06407 2 RVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTIR 77 (82)
T ss_pred EEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeEE
Confidence 44444 3567888999999999999999999998 543 4667777432 1 233333444 3444556666
Q ss_pred EEEe
Q 016387 73 IMLT 76 (390)
Q Consensus 73 v~v~ 76 (390)
+.+.
T Consensus 78 l~v~ 81 (82)
T cd06407 78 LLVH 81 (82)
T ss_pred EEee
Confidence 6653
No 119
>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=82.66 E-value=9.1 Score=30.29 Aligned_cols=58 Identities=14% Similarity=0.267 Sum_probs=39.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCC---CCC-----CCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 13 SFDVEVKPEDTVFDVKMKIETVQGSD---VYP-----AAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 13 ~~~ieV~~~~TV~dLK~~I~~~~g~~---~ip-----~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
...++++ ..||.+|.+.|.++++.. .+. .....+..+|+...++.. .-|++|+.|.++
T Consensus 17 ~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 17 SEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred eEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 4677776 889999999999886410 000 123556678888765432 568899999887
No 120
>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=82.54 E-value=5.7 Score=30.81 Aligned_cols=46 Identities=17% Similarity=0.240 Sum_probs=37.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
++|+|+. ++..+.+.+..+.|..+|+.+|..+++ ......+|-|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~---~~~~~~~l~Y~D 47 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFG---LDNQSFTLKYQD 47 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhC---CCCCCeEEEEEC
Confidence 4566664 667888999999999999999999999 666778888864
No 121
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=82.32 E-value=1.8 Score=45.68 Aligned_cols=39 Identities=31% Similarity=0.603 Sum_probs=34.9
Q ss_pred HHHHHHHHHccCCCCCHHHHHHHHHHHhC-ChHHHHHHHHhCC
Q 016387 160 EGAIQQILDMGGGTWDRDTVVRALRAAYN-NPERAVEYLYSGI 201 (390)
Q Consensus 160 e~~I~~i~~MG~~~f~r~qv~~ALrAafn-NpdrAveyL~~GI 201 (390)
..+|.+|++|| |+.+.+.|||-+..| +.+.|+.||+--+
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 999999999998776 6899999999764
No 122
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=82.22 E-value=0.65 Score=36.76 Aligned_cols=46 Identities=20% Similarity=0.392 Sum_probs=34.7
Q ss_pred ccCCHHHHHHHHH----HH-HcC--C-ChHHHHHHHHHhCCCHHHHHHHHhhcC
Q 016387 340 IQVTPEEREAIER----LE-AMG--F-DRAIVLEVFFACNKNEELAANYLLDHM 385 (390)
Q Consensus 340 ~~~t~ee~~ai~r----L~-~lG--F-~~~~~iqAy~ac~kne~~Aan~L~~~~ 385 (390)
..||++|++.+.. ++ .|| . ++..+++|++-|.-|++-|++||++..
T Consensus 18 ~~Ls~ed~~~L~~~l~~vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~~ 71 (79)
T PF08938_consen 18 DELSPEDQAQLYSCLPQVREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLSKF 71 (79)
T ss_dssp HH-TCHHHHHHCHHCCCHHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred ccCCHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHhc
Confidence 4688898887433 33 356 5 899999999999999999999999863
No 123
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=81.84 E-value=5 Score=34.55 Aligned_cols=60 Identities=20% Similarity=0.189 Sum_probs=42.9
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-------CCCCCCeEEEeC-----------------Ceec---CCCCchhhhccCCC
Q 016387 17 EVKP-EDTVFDVKMKIETVQGSD-------VYPAAQQMLIYQ-----------------GKVL---KDDTTLEENKVAEN 68 (390)
Q Consensus 17 eV~~-~~TV~dLK~~I~~~~g~~-------~ip~~~QkLi~~-----------------GkiL---~D~~tL~d~gI~~~ 68 (390)
.|+. +.||.+|++.|.+..... ++.-+..||++. ..+| +++++|.+|||.+.
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 899999999998764311 133455566542 2467 67889999999998
Q ss_pred CEEEEEEe
Q 016387 69 SFVVIMLT 76 (390)
Q Consensus 69 s~I~v~v~ 76 (390)
.-|-++.+
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 88887764
No 124
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=81.78 E-value=2.6 Score=34.89 Aligned_cols=34 Identities=24% Similarity=0.372 Sum_probs=24.1
Q ss_pred EEEeCCeecCCCCchhhh-ccCCCCEEEEEEecCC
Q 016387 46 MLIYQGKVLKDDTTLEEN-KVAENSFVVIMLTKNK 79 (390)
Q Consensus 46 kLi~~GkiL~D~~tL~d~-gI~~~s~I~v~v~k~~ 79 (390)
.|-|.||.|..+++|++| |-.+...|+|=+.++.
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 477999999999999999 4344555555444443
No 125
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=81.64 E-value=4.3 Score=30.68 Aligned_cols=60 Identities=15% Similarity=0.209 Sum_probs=42.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+.+.+ ....||.+|-+. .+ ++.....+.++|+++..+.- ..+ +++|+.|.++-
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 456554 666554 567788877654 46 77888899999998864332 235 89999998874
No 126
>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=80.81 E-value=3.7 Score=31.33 Aligned_cols=60 Identities=15% Similarity=0.123 Sum_probs=46.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 13 SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 13 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
...+.+....||.+|.+.+....+.- .......+..+|+.+.+ .-.+.-+++|+.|.++-
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 66788889999999999999886411 12367788899999988 35566788999998873
No 127
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=80.56 E-value=9.3 Score=29.77 Aligned_cols=57 Identities=21% Similarity=0.250 Sum_probs=41.2
Q ss_pred CcE-EEEEeCCC-CCHHHHHHHHHHHhCCCCCC--CCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 11 GTS-FDVEVKPE-DTVFDVKMKIETVQGSDVYP--AAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 11 g~~-~~ieV~~~-~TV~dLK~~I~~~~g~~~ip--~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
|+. ..+++... .||.+|++.+.++++. +- .....+..+|+...+ +.-|++|+.|.++
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 56788866 8999999999988641 11 133466778988875 4568889999887
No 128
>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=80.47 E-value=6.9 Score=31.71 Aligned_cols=46 Identities=13% Similarity=0.240 Sum_probs=35.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGK 52 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~Gk 52 (390)
|+|.|. ..|..+.|.|.++.+..+|..+|.++++ +. ...+|-|...
T Consensus 3 ikVKv~-~~~Dv~~i~v~~~i~f~dL~~kIrdkf~---~~-~~~~iKykDE 48 (86)
T cd06408 3 IRVKVH-AQDDTRYIMIGPDTGFADFEDKIRDKFG---FK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEE-ecCcEEEEEcCCCCCHHHHHHHHHHHhC---CC-CceEEEEEcC
Confidence 444444 3677899999999999999999999999 63 5666666554
No 129
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=80.45 E-value=7.6 Score=29.79 Aligned_cols=67 Identities=19% Similarity=0.239 Sum_probs=52.3
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 10 KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI-YQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 10 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi-~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
+|+...++.+....+.-+..+--+..|...-|++...|- -+|.+|+-++.++|||+..+-++++.++
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 577788888888888777777777766333566666663 4789999999999999999988887764
No 130
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=79.73 E-value=2.9 Score=42.53 Aligned_cols=65 Identities=25% Similarity=0.343 Sum_probs=51.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCchhhhccCCCC
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQGKVLKD-DTTLEENKVAENS 69 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~GkiL~D-~~tL~d~gI~~~s 69 (390)
.|-||..+|+.....++...||.||+..|...... .+..-+.|+ |--|.|.| +.||++-|+.+..
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 47788889998889999999999999999988763 334455554 56789976 4699999998643
No 131
>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=79.68 E-value=5.2 Score=32.35 Aligned_cols=61 Identities=13% Similarity=0.126 Sum_probs=42.1
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 14 FDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 14 ~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
+...++-...+..||+.++.+.+ +.-+.-.+......|+.+++|.+-||+-...|.+.+--
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~---~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLG---ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH----S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhC---CCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 34456667789999999999999 66777788778877999999999999988888887653
No 132
>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=79.46 E-value=6.7 Score=29.51 Aligned_cols=38 Identities=18% Similarity=0.444 Sum_probs=32.9
Q ss_pred HHHHHHHHHc-C-CChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 347 REAIERLEAM-G-FDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 347 ~~ai~rL~~l-G-F~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
+.-|+-|++. | ++++.+.-.|.-|+-|.+.|++.||++
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 4557788876 4 599999999999999999999999985
No 133
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=79.26 E-value=1.2 Score=35.24 Aligned_cols=27 Identities=30% Similarity=0.428 Sum_probs=23.9
Q ss_pred C-CHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 174 W-DRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 174 f-~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
. ++.+++.||.-.|+|+++||.||++-
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 6 89999999999999999999999987
No 134
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=76.56 E-value=13 Score=27.63 Aligned_cols=60 Identities=13% Similarity=0.147 Sum_probs=38.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+. +++....||.+|.+.+ + +. ....+.++|+++..+. -.+.-+++|+.|.++-
T Consensus 1 m~i~vN---g~~--~~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQLN---QQT--LSLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEEC---CEE--EECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 455554 655 4556778999988765 3 32 3456778999875432 2233378899998874
No 135
>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=76.09 E-value=8.4 Score=30.08 Aligned_cols=45 Identities=24% Similarity=0.155 Sum_probs=38.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
++|-..+|+.-.+.|.+..||.++-.++.++.| +.++.-.|.+.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEec
Confidence 456678899999999999999999999999999 777777665543
No 136
>PRK07440 hypothetical protein; Provisional
Probab=75.65 E-value=13 Score=28.54 Aligned_cols=61 Identities=16% Similarity=0.285 Sum_probs=42.2
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+. +++....||.+|-+ ..+ +.....-+-++|+++.-+ ...++-+++|+.|.++-
T Consensus 5 m~i~vN---G~~--~~~~~~~tl~~lL~----~l~---~~~~~vav~~N~~iv~r~-~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 5 ITLQVN---GET--RTCSSGTSLPDLLQ----QLG---FNPRLVAVEYNGEILHRQ-FWEQTQVQPGDRLEIVT 65 (70)
T ss_pred eEEEEC---CEE--EEcCCCCCHHHHHH----HcC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 666654 665 55567789988775 345 667777888999998632 23445588899888764
No 137
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=74.95 E-value=14 Score=27.86 Aligned_cols=61 Identities=10% Similarity=0.243 Sum_probs=40.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+.+. +....||.+|.+.+ + +......+-.+++++..+ .-.++-+++|+.|.++-
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 566664 66654 46677999888653 4 445567788999998632 22344588999888764
No 138
>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=74.88 E-value=12 Score=29.04 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=36.1
Q ss_pred EEEEEEeCCCcEEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 2 MKIFVKTLKGTSFD-VEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 2 MkI~Vktl~g~~~~-ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
++|+++. ++..+. +.+....|..+|+.+|...++ ......+|.|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~D 48 (84)
T PF00564_consen 2 VRVKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYKD 48 (84)
T ss_dssp EEEEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEEE
T ss_pred EEEEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEeeC
Confidence 4555653 455555 899999999999999999999 666888998853
No 139
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=74.68 E-value=12 Score=27.94 Aligned_cols=61 Identities=16% Similarity=0.280 Sum_probs=41.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+.+ ++....||.+|-+. .+ ++.....+.++|+++.-.. -.+.-+++|+.|.++-
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 455554 6654 55667898887754 46 7777888889998886432 2334478899888764
No 140
>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=73.55 E-value=7.1 Score=33.34 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=31.5
Q ss_pred cCCHHHHHHHHHHHH-cCCChHHHHHHHHHhCCCHHHHHHHHh
Q 016387 341 QVTPEEREAIERLEA-MGFDRAIVLEVFFACNKNEELAANYLL 382 (390)
Q Consensus 341 ~~t~ee~~ai~rL~~-lGF~~~~~iqAy~ac~kne~~Aan~L~ 382 (390)
.++++| |+-+++ -|-+|+.+++||..|++|.--|.-+|-
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 356666 555555 488999999999999999999998874
No 141
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=73.24 E-value=5.9 Score=26.89 Aligned_cols=32 Identities=31% Similarity=0.601 Sum_probs=18.8
Q ss_pred HHHHHHhCccchHHHHHHHhhhCHHHHHHHHH-hHH
Q 016387 277 LRAMVQANPQLLQPMLQELGKQNPQLVRLIQE-HQA 311 (390)
Q Consensus 277 lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~-n~e 311 (390)
++++++ ||.+ ..+++++. +||++++.+-+ ||.
T Consensus 4 ~~~~l~-~P~~-~~~l~~~~-~nP~~~~~~~~~nP~ 36 (41)
T smart00727 4 MALRLQ-NPQV-QSLLQDMQ-QNPDMLAQMLQENPQ 36 (41)
T ss_pred HHHHHc-CHHH-HHHHHHHH-HCHHHHHHHHHhCHH
Confidence 445555 8854 33555544 48887776665 554
No 142
>smart00455 RBD Raf-like Ras-binding domain.
Probab=72.88 E-value=13 Score=28.66 Aligned_cols=49 Identities=24% Similarity=0.206 Sum_probs=41.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG--KVLK 55 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G--kiL~ 55 (390)
+.|-..+|+...+.+.+..||.++-.+|.++.| +.++...|.+.| |.|.
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 888888888755 4443
No 143
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=71.79 E-value=6.7 Score=31.64 Aligned_cols=52 Identities=15% Similarity=0.142 Sum_probs=28.1
Q ss_pred CCCCHHHHHHHHHH-HhCCCCCCCC----CeEEEeCCee----cCCCCchhhhccCCCCEEEEE
Q 016387 20 PEDTVFDVKMKIET-VQGSDVYPAA----QQMLIYQGKV----LKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 20 ~~~TV~dLK~~I~~-~~g~~~ip~~----~QkLi~~Gki----L~D~~tL~d~gI~~~s~I~v~ 74 (390)
...|+.+|-++|.. +.| +..- .-+++|.... -..+++|+++||++|++|.|.
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 46799999998754 555 2221 3344454322 123479999999999988764
No 144
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=71.53 E-value=6.2 Score=36.83 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=32.8
Q ss_pred HHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 161 GAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 161 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
.+|.+|-++ | +.=-+|..||..+.+|.|.|++||--
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 578899887 7 88899999999999999999999974
No 145
>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=70.42 E-value=6.1 Score=31.16 Aligned_cols=40 Identities=23% Similarity=0.498 Sum_probs=32.0
Q ss_pred HHHHHHHccCCCCCHHHHHHHHHHHhCC-hHHHHHHHHhCCC
Q 016387 162 AIQQILDMGGGTWDRDTVVRALRAAYNN-PERAVEYLYSGIP 202 (390)
Q Consensus 162 ~I~~i~~MG~~~f~r~qv~~ALrAafnN-pdrAveyL~~GIP 202 (390)
-+--||=+|+|.|+-++-..|++-|-.+ -.+.++||+ |.|
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 3456777899999999999999988655 567889997 555
No 146
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=69.89 E-value=9.5 Score=32.58 Aligned_cols=38 Identities=24% Similarity=0.274 Sum_probs=34.2
Q ss_pred HHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 160 EGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 160 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
++.|.-+++- | -+|+++++||+.+.|+.-.|+-||..+
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 6789989986 7 899999999999999999999999753
No 147
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=69.80 E-value=6.6 Score=38.81 Aligned_cols=36 Identities=19% Similarity=0.234 Sum_probs=32.8
Q ss_pred HHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 161 GAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 161 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
..|++|-++ | +.=-+|..||..+-||-|.|++||--
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 578999998 7 88899999999999999999999973
No 148
>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=69.75 E-value=15 Score=28.29 Aligned_cols=45 Identities=24% Similarity=0.189 Sum_probs=34.2
Q ss_pred EEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 3 KIFVKTLKGTSFDVEVK-PEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
+|+++. +|..+.+.+. ...|..+|+.+|..+++ ......+|-|..
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 345553 3567888888 89999999999999999 554566777754
No 149
>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=69.62 E-value=31 Score=36.23 Aligned_cols=74 Identities=18% Similarity=0.226 Sum_probs=55.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCC---CCCCCeEEE-eCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDV---YPAAQQMLI-YQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~---ip~~~QkLi-~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.+|+|...+ +..++-+..+..|.+|--.|-+..+.+. .....-.|. -+|..|+.+.+|.+.||.+|+.+++.-+
T Consensus 3 ~RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 3 CRVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 467887543 4577888899999999999998887320 112233443 4788999999999999999999988753
No 150
>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=69.42 E-value=17 Score=27.20 Aligned_cols=56 Identities=13% Similarity=0.251 Sum_probs=39.3
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 10 KGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 10 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
+|+. ++++...||.+|.+++ + ++.+...+.++|+++..+ .-.++-|++|+.|.++-
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 5 NGEP--REVEEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT 60 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 4555 4556678999998765 4 556778888999998653 22334588999888764
No 151
>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=69.31 E-value=17 Score=39.03 Aligned_cols=65 Identities=29% Similarity=0.349 Sum_probs=42.0
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCCeEEE--eC--Ce-ecCCC-------------CchhhhccCC
Q 016387 12 TSFDVEVKPEDTVFDVKMKIETVQGSDVYP------AAQQMLI--YQ--GK-VLKDD-------------TTLEENKVAE 67 (390)
Q Consensus 12 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip------~~~QkLi--~~--Gk-iL~D~-------------~tL~d~gI~~ 67 (390)
..+.+.|-..|||.++|+||-+..=++ .| +++.-|- .+ |+ +|.|. .||..|+|.+
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 447788889999999999998764322 32 2334442 22 33 56553 2689999999
Q ss_pred CCEEEEEEec
Q 016387 68 NSFVVIMLTK 77 (390)
Q Consensus 68 ~s~I~v~v~k 77 (390)
|++|.++.+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9998888764
No 152
>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=69.28 E-value=3.4 Score=31.02 Aligned_cols=36 Identities=47% Similarity=0.807 Sum_probs=22.0
Q ss_pred hhCCHHHH--HHHHHHHhCccchHHHHHHHhhhCH-HHHHHHHH
Q 016387 268 LRNSPQFQ--VLRAMVQANPQLLQPMLQELGKQNP-QLVRLIQE 308 (390)
Q Consensus 268 L~~~P~~~--~lrq~vq~NP~ll~~~l~~i~~~NP-ql~~~I~~ 308 (390)
+++||++. -|.++-++||++++ +.++|| +|+++|.+
T Consensus 17 vq~NP~lL~~lLqql~~~nP~l~q-----~I~~n~e~Fl~ll~~ 55 (59)
T PF09280_consen 17 VQQNPQLLPPLLQQLGQSNPQLLQ-----LIQQNPEEFLRLLNE 55 (59)
T ss_dssp HHC-GGGHHHHHHHHHCCSHHHHH-----HHHHTHHHHHHHHHS
T ss_pred HHHCHHHHHHHHHHHhccCHHHHH-----HHHHCHHHHHHHHcC
Confidence 45577754 56777778887765 455564 45666653
No 153
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=69.15 E-value=10 Score=32.33 Aligned_cols=41 Identities=17% Similarity=0.175 Sum_probs=32.9
Q ss_pred ccCCHHHHHHHHHHHH-cCCChHHHHHHHHHhCCCHHHHHHHHhh
Q 016387 340 IQVTPEEREAIERLEA-MGFDRAIVLEVFFACNKNEELAANYLLD 383 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~-lGF~~~~~iqAy~ac~kne~~Aan~L~~ 383 (390)
..++++| |+-+++ -|-+|+.+++||..|++|.--|.-+|-+
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 3467777 555554 4899999999999999999999988853
No 154
>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=68.75 E-value=5.7 Score=40.37 Aligned_cols=30 Identities=23% Similarity=0.418 Sum_probs=24.4
Q ss_pred ccccCcchHHHHHHHHHccCCCCCHHHHHHHHH
Q 016387 152 NLVAGNNLEGAIQQILDMGGGTWDRDTVVRALR 184 (390)
Q Consensus 152 ~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALr 184 (390)
.++..--++++|+.++.|| |.||+|+.-.|
T Consensus 314 ~~~~~~p~ddvidKv~~MG---f~rDqV~a~v~ 343 (358)
T PF07223_consen 314 QSGNRHPYDDVIDKVASMG---FRRDQVRATVR 343 (358)
T ss_pred cccccCcHHHHHHHHHHcC---CcHHHHHHHHH
Confidence 3555566899999999999 99999977443
No 155
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=68.08 E-value=24 Score=36.40 Aligned_cols=73 Identities=19% Similarity=0.246 Sum_probs=57.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CCee--cCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY----QGKV--LKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~----~Gki--L~D~~tL~d~gI~~~s~I~v~v 75 (390)
|-+.+|...| ...++|.++++.+.|-.+|-.-...+ +.++...++- .|.+ +..+.++.++|++.|..|+|-.
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 5678887666 57799999999999999998776654 7788887764 3443 3456899999999999999887
Q ss_pred e
Q 016387 76 T 76 (390)
Q Consensus 76 ~ 76 (390)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 4
No 156
>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=68.08 E-value=33 Score=29.08 Aligned_cols=59 Identities=14% Similarity=0.125 Sum_probs=42.4
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCchhhh--ccC-CCCEEEEEEec
Q 016387 16 VEVKPEDTVFDVKMKIETVQGSDVYPAAQ-QMLIYQGKVLKDDTTLEEN--KVA-ENSFVVIMLTK 77 (390)
Q Consensus 16 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLi~~GkiL~D~~tL~d~--gI~-~~s~I~v~v~k 77 (390)
+-|..+.||.+|...|....+ +.+++ .-|+.++.....+.+++++ .-+ ++.+|+|..+.
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 348999999999999999988 66665 3444466555667777765 233 47899888764
No 157
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=67.19 E-value=36 Score=27.14 Aligned_cols=53 Identities=23% Similarity=0.290 Sum_probs=40.1
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCchhhhccCCCCEEEEEE
Q 016387 11 GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 11 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
+..+.+.++...||+++-+ ..| +|..+..+|+ +|+...= +|-+++|+.|.|.-
T Consensus 22 ~~~~~~~~~~~~tvkd~IE----sLG---VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIE----SLG---VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHH----HcC---CChHHeEEEEECCEECCC-----cccCCCCCEEEEEe
Confidence 4567788899999987654 568 8988887765 8886654 36678999998874
No 158
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=67.18 E-value=27 Score=32.72 Aligned_cols=59 Identities=17% Similarity=0.240 Sum_probs=35.4
Q ss_pred EEEEEEeCCC---cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCchhhh
Q 016387 2 MKIFVKTLKG---TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAA---QQML--IYQGKV---LKDDTTLEEN 63 (390)
Q Consensus 2 MkI~Vktl~g---~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~---~QkL--i~~Gki---L~D~~tL~d~ 63 (390)
|+|++-..+. +.+.+-|+.+.||.||.+++..+.+ ++.+ ..|| ++++|+ +..+..|.++
T Consensus 21 ~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~---~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 21 FKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVG---FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT-------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcC---CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 5555553332 3477889999999999999999988 5443 5555 578876 5677888876
No 159
>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=67.03 E-value=18 Score=28.44 Aligned_cols=63 Identities=21% Similarity=0.225 Sum_probs=40.7
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 12 TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY------QGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 12 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~------~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
++|-+=..++.||.+|+..|.+++.+ +.|....|.. .|--|..+..+++. ...++.|.|+++.
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 45555578999999999999999874 3344434421 23344444555554 3467888888764
No 160
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=65.88 E-value=16 Score=35.76 Aligned_cols=70 Identities=9% Similarity=0.201 Sum_probs=52.7
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC---CCchhhhccCCCCEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKD---DTTLEENKVAENSFVV 72 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D---~~tL~d~gI~~~s~I~ 72 (390)
..|-||..+|+++...+....|+.+|+..|.-..+.. ..|-...--|-.+.+.+ .++|..+++...++|+
T Consensus 211 crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~-~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~li 283 (290)
T KOG2689|consen 211 CRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDG-LDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLI 283 (290)
T ss_pred eEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCC-CCCeeeecCCCceecccccccccHHHhccccchhee
Confidence 3688998999999999999999999999999998843 22233322355566643 3689999998877664
No 161
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.87 E-value=7.1 Score=39.09 Aligned_cols=55 Identities=15% Similarity=0.169 Sum_probs=43.6
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeec-----CCCCchhhhccCCCCEEEEE
Q 016387 17 EVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY---QGKVL-----KDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 17 eV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~---~GkiL-----~D~~tL~d~gI~~~s~I~v~ 74 (390)
-|.-.-||.|||+++..+.| +...++||+| .||.- .-++.|-.|+|.+|+.+.|-
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 45543 23467889999999988664
No 162
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=65.81 E-value=24 Score=26.78 Aligned_cols=61 Identities=15% Similarity=0.223 Sum_probs=40.5
Q ss_pred EEEEEEeCCCcEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPE-DTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~-~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|+|. |+.+. +... .||.+|-+ ..+ +.+...-+-++|+++.-+ ...++-+++|+.|.++.
T Consensus 1 m~I~vN---G~~~~--~~~~~~tv~~lL~----~l~---~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKIN---GNQIE--VPESVKTVAELLT----HLE---LDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEEC---CEEEE--cCCCcccHHHHHH----HcC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 455554 76654 4444 57887765 346 666777778999998643 23445588999888774
No 163
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=65.65 E-value=12 Score=38.70 Aligned_cols=74 Identities=19% Similarity=0.242 Sum_probs=59.5
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCchhhhccCCCCEEEEEEe
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML--IYQGKVLKD---DTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL--i~~GkiL~D---~~tL~d~gI~~~s~I~v~v~ 76 (390)
.+|.||..+|..|.-.+..++-+..+|..|....+ +.....-| -|-.|+..| +++|.++.+.+...|+|+-+
T Consensus 315 ~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~---i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk 391 (506)
T KOG2507|consen 315 VRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQT---IGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPK 391 (506)
T ss_pred eEEEEecCCccchhhcCCcchHHHHHHHHHHhccc---ccccceeeccccccccccchhhhhhHHHhccCCcceEEEEec
Confidence 46889999999999889888888999999997777 55666666 588888865 37999999999887777755
Q ss_pred cC
Q 016387 77 KN 78 (390)
Q Consensus 77 k~ 78 (390)
++
T Consensus 392 ~r 393 (506)
T KOG2507|consen 392 KR 393 (506)
T ss_pred CC
Confidence 43
No 164
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=65.44 E-value=27 Score=30.15 Aligned_cols=59 Identities=14% Similarity=0.238 Sum_probs=45.1
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhh---ccCCCCEEEEEEec
Q 016387 16 VEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEEN---KVAENSFVVIMLTK 77 (390)
Q Consensus 16 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~---gI~~~s~I~v~v~k 77 (390)
+-|..+.||.+|...|..+.+ +.+++.-|+.++.++.-+.+++++ .-.++.+|++..+.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~ 106 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVRT 106 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEcc
Confidence 468999999999999999998 888875555577666777788776 22457789887753
No 165
>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=64.79 E-value=50 Score=27.54 Aligned_cols=76 Identities=22% Similarity=0.137 Sum_probs=47.2
Q ss_pred EEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHh--CCC-CCCCC-CeEEEeCCe--ecCCCCchhhh-----ccCCCCE
Q 016387 3 KIFVKTLK-GTSFDVEVKPEDTVFDVKMKIETVQ--GSD-VYPAA-QQMLIYQGK--VLKDDTTLEEN-----KVAENSF 70 (390)
Q Consensus 3 kI~Vktl~-g~~~~ieV~~~~TV~dLK~~I~~~~--g~~-~ip~~-~QkLi~~Gk--iL~D~~tL~d~-----gI~~~s~ 70 (390)
.|.|...+ ...+++.|+.++|+.+|.+.+-.+. ..+ .-+.+ +-.|--.|+ -|..+..|.+| .++.+..
T Consensus 19 ~v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~ 98 (108)
T smart00144 19 LIVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGRE 98 (108)
T ss_pred EEEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCC
Confidence 44554433 3568999999999999999887762 100 02222 445544554 25556666666 3677888
Q ss_pred EEEEEecC
Q 016387 71 VVIMLTKN 78 (390)
Q Consensus 71 I~v~v~k~ 78 (390)
++|++..+
T Consensus 99 ~~L~L~~~ 106 (108)
T smart00144 99 PHLVLMTL 106 (108)
T ss_pred ceEEEEec
Confidence 88877643
No 166
>CHL00098 tsf elongation factor Ts
Probab=64.78 E-value=10 Score=35.46 Aligned_cols=36 Identities=25% Similarity=0.278 Sum_probs=32.5
Q ss_pred HHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 161 GAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 161 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
.+|.+|-++ | ..=-+|..||..+-||.|.|++||--
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 167
>PRK09377 tsf elongation factor Ts; Provisional
Probab=63.86 E-value=10 Score=37.50 Aligned_cols=36 Identities=22% Similarity=0.318 Sum_probs=32.9
Q ss_pred HHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh
Q 016387 161 GAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS 199 (390)
Q Consensus 161 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~ 199 (390)
..|++|-++ | +.=-+|..||..+.||.|.|++||-.
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 578999988 7 88899999999999999999999974
No 168
>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=63.58 E-value=5.8 Score=27.27 Aligned_cols=24 Identities=25% Similarity=0.488 Sum_probs=20.3
Q ss_pred CChHHHHHHHHHhCCCHHHHHHHH
Q 016387 358 FDRAIVLEVFFACNKNEELAANYL 381 (390)
Q Consensus 358 F~~~~~iqAy~ac~kne~~Aan~L 381 (390)
|+++.+.+|+..|++|...||..|
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 457888999999999999999987
No 169
>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=63.25 E-value=6 Score=28.01 Aligned_cols=25 Identities=20% Similarity=0.312 Sum_probs=20.5
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHhC
Q 016387 347 REAIERLEAMGFDRAIVLEVFFACN 371 (390)
Q Consensus 347 ~~ai~rL~~lGF~~~~~iqAy~ac~ 371 (390)
.++++-|..|||++..+-+|.-...
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 4678999999999999999887774
No 170
>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=63.00 E-value=79 Score=25.47 Aligned_cols=60 Identities=10% Similarity=0.142 Sum_probs=41.1
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeec-CCCCchhhh--ccCCCCEEEEEEec
Q 016387 15 DVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QGKVL-KDDTTLEEN--KVAENSFVVIMLTK 77 (390)
Q Consensus 15 ~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~GkiL-~D~~tL~d~--gI~~~s~I~v~v~k 77 (390)
.+-|+.+.||.+|...|..+.+ +.+++--.+| +...+ ..+.+++++ .-+++.+|+|....
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~---l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLK---LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhC---CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEeC
Confidence 3458999999999999999988 6555533344 44323 345666655 23678899887754
No 171
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=62.81 E-value=63 Score=25.22 Aligned_cols=54 Identities=7% Similarity=0.090 Sum_probs=32.7
Q ss_pred EEeCC-CCCHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 16 VEVKP-EDTVFDVKMKIETVQGS--DVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 16 ieV~~-~~TV~dLK~~I~~~~g~--~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
++++. ..||.+|++.|.+++.. ........++..+++...+ +.-|++|+.|.++
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 47999999999888641 0011233344456654433 2358889988876
No 172
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=62.78 E-value=46 Score=25.62 Aligned_cols=61 Identities=18% Similarity=0.293 Sum_probs=41.3
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
|+|.+. |+. +++....||.+|-+. .+ ++.+..-+.++|.++..+. -.+.-+++++.|.++.
T Consensus 3 m~i~~n---g~~--~e~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~ 63 (68)
T COG2104 3 MTIQLN---GKE--VEIAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVR 63 (68)
T ss_pred EEEEEC---CEE--EEcCCCCcHHHHHHH----hC---CCCceEEEEECCEEccchh-hhhccccCCCEEEEEE
Confidence 555544 554 556666899988754 46 6677888889999987432 2344577788887763
No 173
>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=62.71 E-value=19 Score=38.44 Aligned_cols=10 Identities=30% Similarity=0.517 Sum_probs=6.9
Q ss_pred HHHHHHhcCC
Q 016387 311 ADFLRLINEP 320 (390)
Q Consensus 311 e~fl~~l~~~ 320 (390)
..||..|+..
T Consensus 415 nyFL~VLnsD 424 (574)
T PF07462_consen 415 NYFLDVLNSD 424 (574)
T ss_pred HHHHHHHhhh
Confidence 3788887754
No 174
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=62.23 E-value=23 Score=38.98 Aligned_cols=71 Identities=15% Similarity=0.294 Sum_probs=49.5
Q ss_pred EEEEEe-CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCC--chhhhccCCCCEEEEEEecC
Q 016387 3 KIFVKT-LKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDT--TLEENKVAENSFVVIMLTKN 78 (390)
Q Consensus 3 kI~Vkt-l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~--tL~d~gI~~~s~I~v~v~k~ 78 (390)
.|+|=. .+...+.+-++++.|+..|+..|...+| +|.+.|-|+|.|......+ +..--| -.+-|+|+....
T Consensus 315 vvhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h~~~~~Q~~~dg--~~~~l~l~~~~~ 388 (732)
T KOG4250|consen 315 VVHIFSMVQATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSHLEDSAQCIPDG--LDSPLYLVSDQD 388 (732)
T ss_pred eeEEEeeccceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccccCcccccCCCC--CCCceEEEecCC
Confidence 344433 3456688899999999999999999999 9999999999976554333 211112 234566666543
No 175
>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=62.15 E-value=7.4 Score=26.74 Aligned_cols=27 Identities=26% Similarity=0.459 Sum_probs=23.1
Q ss_pred CCHHHHHHHHHHHhCChHHHHHHHHhCCC
Q 016387 174 WDRDTVVRALRAAYNNPERAVEYLYSGIP 202 (390)
Q Consensus 174 f~r~qv~~ALrAafnNpdrAveyL~~GIP 202 (390)
|+|+-+..||+..-+|..+|.+.| ||+
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 789999999999999999999999 665
No 176
>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=61.98 E-value=27 Score=37.24 Aligned_cols=20 Identities=15% Similarity=0.313 Sum_probs=11.7
Q ss_pred cccccCcchHHHHHHHHHcc
Q 016387 151 SNLVAGNNLEGAIQQILDMG 170 (390)
Q Consensus 151 s~l~~g~~~e~~I~~i~~MG 170 (390)
..+.+|+.-......|+.-|
T Consensus 350 dQV~tGeae~~~~e~Iv~~~ 369 (574)
T PF07462_consen 350 DQVTTGEAENAQPENIVPEG 369 (574)
T ss_pred ccceeccccccchhhhhcCc
Confidence 34566666555566666655
No 177
>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=61.16 E-value=28 Score=25.90 Aligned_cols=57 Identities=14% Similarity=0.257 Sum_probs=39.1
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 9 LKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 9 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
++|+.+ ++....||.+|.+.+ + ++++...+.++|+++..+ .-.++-+++|+.|.++-
T Consensus 3 iNg~~~--~~~~~~tv~~ll~~l----~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPV--EVEDGLTLAALLESL----G---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEE--EcCCCCcHHHHHHHc----C---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 356654 446677999988754 4 556777778999988532 22345688999888764
No 178
>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=60.87 E-value=63 Score=26.14 Aligned_cols=67 Identities=21% Similarity=0.166 Sum_probs=46.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCchhh----hccCCCCEE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI------YQGKVLKDDTTLEE----NKVAENSFV 71 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi------~~GkiL~D~~tL~d----~gI~~~s~I 71 (390)
-|+|-..+|....|.|+...|+.++-+.+..+.++. +...--|+ +=-+.|+|+..|-+ .++..++.|
T Consensus 4 vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~--~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l 80 (85)
T cd01787 4 VVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ--DDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVL 80 (85)
T ss_pred EEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC--CCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEE
Confidence 355666789999999999999999999999999852 22333342 12467788765544 455444444
No 179
>PF13556 HTH_30: PucR C-terminal helix-turn-helix domain; PDB: 3ONQ_B.
Probab=59.99 E-value=9.7 Score=28.10 Aligned_cols=23 Identities=26% Similarity=0.211 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCHHHHHHHHhhc
Q 016387 362 IVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 362 ~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
..+++|+.|++|...||..|+=+
T Consensus 3 ~TL~~yl~~~~n~~~tA~~L~iH 25 (59)
T PF13556_consen 3 ETLRAYLENNGNISKTARALHIH 25 (59)
T ss_dssp -HHHHHHHTTT-HHHHHHHHTS-
T ss_pred hHHHHHHHcCCCHHHHHHHHCCC
Confidence 46899999999999999998743
No 180
>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=59.93 E-value=46 Score=25.65 Aligned_cols=56 Identities=21% Similarity=0.110 Sum_probs=40.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCchhh
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY--QGKVLKDDTTLEE 62 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~--~GkiL~D~~tL~d 62 (390)
+.|-..+|+...+.|.+..||.++-.++.++.| +.++...+.. ..|.|.-++....
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 456668899999999999999999999999999 7777665543 4456665554443
No 181
>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=58.60 E-value=19 Score=30.81 Aligned_cols=36 Identities=19% Similarity=0.243 Sum_probs=32.7
Q ss_pred HHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHH
Q 016387 160 EGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLY 198 (390)
Q Consensus 160 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~ 198 (390)
++.|.-+++- | -+|+.+++||+.+.|+.-.|+-||.
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 5788888886 7 8999999999999999999999985
No 182
>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=58.10 E-value=34 Score=27.75 Aligned_cols=45 Identities=27% Similarity=0.316 Sum_probs=32.7
Q ss_pred hHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCCCCCCCCccccccCCCCccccCCHHHHHH-----HHHHHHcC
Q 016387 288 LQPMLQELGKQNPQLVRLIQEHQADFLRLINEPVQGGEGNLGDQLAGLMPQSIQVTPEEREA-----IERLEAMG 357 (390)
Q Consensus 288 l~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~~~~~g~~~~~~~~~~~~~~~~t~ee~~a-----i~rL~~lG 357 (390)
|+.++.+| .+|+.++...++++.++.- -.||+||+++ +.+|..+|
T Consensus 1 lNkf~~~L--~~~~~r~~F~~D~~a~~~~-----------------------~~Lt~eer~av~~rD~~~L~~~G 50 (88)
T PF07746_consen 1 LNKFCWSL--NDPENRERFLADPEAYLDE-----------------------YGLTEEERQAVLDRDWLALIALG 50 (88)
T ss_dssp HHHHHHGG--GSHHHHHHHHH-HHHHHHC-----------------------CT--HHHHHHHHCT-HHHHHHTT
T ss_pred ChHHHHHH--cCHHHHHHHHHCHHHHHHH-----------------------cCCCHHHHHHHHcCCHHHHHHCC
Confidence 45677778 7899999998888887752 3569999999 66788888
No 183
>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=57.10 E-value=50 Score=27.16 Aligned_cols=76 Identities=17% Similarity=0.141 Sum_probs=45.6
Q ss_pred EEEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHh--CCCCCCCC-CeEEEeCCe--ecCCCCchhhh-----ccCCCCE
Q 016387 2 MKIFVKTL-KGTSFDVEVKPEDTVFDVKMKIETVQ--GSDVYPAA-QQMLIYQGK--VLKDDTTLEEN-----KVAENSF 70 (390)
Q Consensus 2 MkI~Vktl-~g~~~~ieV~~~~TV~dLK~~I~~~~--g~~~ip~~-~QkLi~~Gk--iL~D~~tL~d~-----gI~~~s~ 70 (390)
++|.|... .+..+++.|+.+.|+.+|-..+..+. +....... +-.|--.|+ -|..+..|.+| .++.+..
T Consensus 17 i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~~~ 96 (106)
T PF00794_consen 17 IKVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRGKD 96 (106)
T ss_dssp EEEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT--
T ss_pred EEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcCCC
Confidence 46677766 45679999999999999999887762 21001111 445544553 35677788887 3566777
Q ss_pred EEEEEec
Q 016387 71 VVIMLTK 77 (390)
Q Consensus 71 I~v~v~k 77 (390)
++|++..
T Consensus 97 ~~L~Lv~ 103 (106)
T PF00794_consen 97 PHLVLVH 103 (106)
T ss_dssp EEEEEEE
T ss_pred cEEEEEe
Confidence 7777654
No 184
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=56.81 E-value=27 Score=35.12 Aligned_cols=63 Identities=13% Similarity=0.122 Sum_probs=44.5
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
|+|+|. |+. +++....||.+|-+. .+ ++.+...+.+||+++.-+ ...++-+++|+.|.++---
T Consensus 1 M~I~VN---Gk~--~el~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVpr~-~w~~t~LkeGD~IEII~~V 63 (326)
T PRK11840 1 MRIRLN---GEP--RQVPAGLTIAALLAE----LG---LAPKKVAVERNLEIVPRS-EYGQVALEEGDELEIVHFV 63 (326)
T ss_pred CEEEEC---CEE--EecCCCCcHHHHHHH----cC---CCCCeEEEEECCEECCHH-HcCccccCCCCEEEEEEEe
Confidence 455554 665 455667788887764 46 778888899999999532 3445568999999887543
No 185
>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=55.31 E-value=4 Score=29.17 Aligned_cols=21 Identities=29% Similarity=0.681 Sum_probs=13.5
Q ss_pred HHHHHH-HccCCCCCHHHHHHHHHH
Q 016387 162 AIQQIL-DMGGGTWDRDTVVRALRA 185 (390)
Q Consensus 162 ~I~~i~-~MG~~~f~r~qv~~ALrA 185 (390)
.|..|- .|| |+|+++..||+.
T Consensus 5 vv~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 5 VVSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp CHHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHHhC---CCHHHHHHHHHc
Confidence 344444 399 999999999997
No 186
>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=55.01 E-value=61 Score=26.40 Aligned_cols=64 Identities=22% Similarity=0.221 Sum_probs=42.4
Q ss_pred CCcEEEEEeCC-----CCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCC---ee--cCCCCchhhh-c----cCCCCEEEE
Q 016387 10 KGTSFDVEVKP-----EDTVFDVKMKIETVQGSDVYPA-AQQMLIYQG---KV--LKDDTTLEEN-K----VAENSFVVI 73 (390)
Q Consensus 10 ~g~~~~ieV~~-----~~TV~dLK~~I~~~~g~~~ip~-~~QkLi~~G---ki--L~D~~tL~d~-g----I~~~s~I~v 73 (390)
.|....+.+.. +.+..+|+.+|.+.++ ++. ....|.|.. .. |.++.-|.++ . .....+|.+
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~~lrl 84 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLNPLRI 84 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCceEEE
Confidence 45566666664 7999999999999998 766 567777753 22 3444444443 2 235677777
Q ss_pred EEe
Q 016387 74 MLT 76 (390)
Q Consensus 74 ~v~ 76 (390)
.++
T Consensus 85 ~v~ 87 (91)
T cd06398 85 DVT 87 (91)
T ss_pred EEE
Confidence 765
No 187
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=54.28 E-value=15 Score=35.98 Aligned_cols=35 Identities=23% Similarity=0.372 Sum_probs=29.8
Q ss_pred HHHHHccCCCCCHHHHHHHHHHH-hCChHHHHHHH-HhCC
Q 016387 164 QQILDMGGGTWDRDTVVRALRAA-YNNPERAVEYL-YSGI 201 (390)
Q Consensus 164 ~~i~~MG~~~f~r~qv~~ALrAa-fnNpdrAveyL-~~GI 201 (390)
+.+|+|| |++..+.+||--. .-+.+-|++|| +.+.
T Consensus 5 ~~l~~mg---fps~k~e~al~~~~n~~~e~al~wl~~d~~ 41 (290)
T KOG2689|consen 5 QSLEEMG---FPSGKAEKALAVYGNRGIEQALDWLEMDHA 41 (290)
T ss_pred HHHHHhc---CchhhhhhHhhhhccccHHHHHHHHHhccc
Confidence 8899999 9999999999876 55788899999 6653
No 188
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=54.26 E-value=16 Score=30.32 Aligned_cols=30 Identities=20% Similarity=0.495 Sum_probs=27.4
Q ss_pred CcchHHHHHHHHHccCCCCCHHHHHHHHHHHhC
Q 016387 156 GNNLEGAIQQILDMGGGTWDRDTVVRALRAAYN 188 (390)
Q Consensus 156 g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 188 (390)
-.|+..++.+|.+-| |+++....+|+++|+
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 467888999999999 999999999999886
No 189
>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=53.45 E-value=43 Score=26.69 Aligned_cols=35 Identities=11% Similarity=0.145 Sum_probs=31.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC
Q 016387 13 SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQ 50 (390)
Q Consensus 13 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~ 50 (390)
++-|.+.+..+..+|..+|+++.. .+++..+|-|.
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~---l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALP---QQAQRGQLSYR 42 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhc---CChhhcEEEec
Confidence 566788999999999999999999 88999999985
No 190
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=52.83 E-value=19 Score=33.62 Aligned_cols=29 Identities=28% Similarity=0.406 Sum_probs=25.7
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHhCC
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAYNN 189 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN 189 (390)
..+++|..|+++| |.+.++.+|++...++
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 4688999999999 9999999999987663
No 191
>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=52.67 E-value=50 Score=26.48 Aligned_cols=34 Identities=21% Similarity=0.182 Sum_probs=27.5
Q ss_pred EEEEeCCCcEEEEEeCC--CCCHHHHHHHHHHHhCCCCCC
Q 016387 4 IFVKTLKGTSFDVEVKP--EDTVFDVKMKIETVQGSDVYP 41 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~--~~TV~dLK~~I~~~~g~~~ip 41 (390)
|++. .+|.+..+.+++ ..|..+|+..|...++ +.
T Consensus 3 vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~---l~ 38 (81)
T cd06396 3 LKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFG---LN 38 (81)
T ss_pred EEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhC---CC
Confidence 3443 457788888888 7799999999999999 66
No 192
>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=52.62 E-value=1.1e+02 Score=23.82 Aligned_cols=66 Identities=23% Similarity=0.239 Sum_probs=41.8
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCCC-Cchhh--hccCCCCEEEEEEec
Q 016387 11 GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI--YQG----KVLKDD-TTLEE--NKVAENSFVVIMLTK 77 (390)
Q Consensus 11 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi--~~G----kiL~D~-~tL~d--~gI~~~s~I~v~v~k 77 (390)
+...+|.|+.++|..+|-..+.++++.+. .+....|+ +.+ +.|.|+ ..|.- .....+....+++++
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl~~~~~~~~~~~~~~F~lr~ 86 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPLQIQLNAPRQREDLRFLLRK 86 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChHHHHHhcCCCCCcEEEEEec
Confidence 55678999999999999999999999431 35555664 232 456554 45442 222334445555543
No 193
>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=52.22 E-value=55 Score=27.37 Aligned_cols=57 Identities=18% Similarity=0.160 Sum_probs=41.6
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCchhhh---ccCCCCEEEEEEec
Q 016387 18 VKPEDTVFDVKMKIETVQGSDVYPAAQ-QMLIYQGKVLKDDTTLEEN---KVAENSFVVIMLTK 77 (390)
Q Consensus 18 V~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLi~~GkiL~D~~tL~d~---gI~~~s~I~v~v~k 77 (390)
|..+.||.+|...|..... +.+++ .-|+.++..+..+.+|+++ .-.++.+|+|....
T Consensus 39 vp~~~tv~qf~~~ir~rl~---l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys~ 99 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQ---LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYSS 99 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT-----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEES
T ss_pred EcCCCchhhHHHHhhhhhc---CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEecc
Confidence 6788999999999999988 65543 4556678777888888776 22468899987653
No 194
>PLN03196 MOC1-like protein; Provisional
Probab=51.77 E-value=1.3e+02 Score=32.01 Aligned_cols=42 Identities=24% Similarity=0.410 Sum_probs=32.6
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHH--------HhCChHHHHHHHHh-CCCC
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRA--------AYNNPERAVEYLYS-GIPE 203 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrA--------afnNpdrAveyL~~-GIP~ 203 (390)
....|.-|.++| ++++++.+.+.. --+|...-|+||.. |++.
T Consensus 196 l~p~v~fL~~lG---vs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~ 246 (487)
T PLN03196 196 MSTSVAYLVSIG---VAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPR 246 (487)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCH
Confidence 446788999999 999999888762 23577888999986 5654
No 195
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=51.65 E-value=32 Score=29.67 Aligned_cols=39 Identities=13% Similarity=0.136 Sum_probs=31.3
Q ss_pred cCCHHHHHHHHHHH-HcCCChHHHHHHHHHhCCCHHHHHHHHh
Q 016387 341 QVTPEEREAIERLE-AMGFDRAIVLEVFFACNKNEELAANYLL 382 (390)
Q Consensus 341 ~~t~ee~~ai~rL~-~lGF~~~~~iqAy~ac~kne~~Aan~L~ 382 (390)
.+++||.+- .. .-|-+|+.+++||.+|++|.--|+-.|-
T Consensus 82 ~i~eeDIkL---V~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 82 DISEEDIKL---VMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCCHHHHHH---HHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 478888543 33 3599999999999999999999987763
No 196
>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=50.31 E-value=1.2e+02 Score=23.52 Aligned_cols=74 Identities=18% Similarity=0.159 Sum_probs=45.4
Q ss_pred EEEEeCCCc----EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-e---CC--eecCCC-Cchhhhcc-C-CCCE
Q 016387 4 IFVKTLKGT----SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI-Y---QG--KVLKDD-TTLEENKV-A-ENSF 70 (390)
Q Consensus 4 I~Vktl~g~----~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi-~---~G--kiL~D~-~tL~d~gI-~-~~s~ 70 (390)
|+|-...+. ...|.|+...|+.+|-..+.++++.. -.+....|+ + .| +.|.|+ ..|.-..- . .+..
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~~~~~~~ 83 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLA-EDPSDYCLVEVEESGGEERPLDDDECPLQIQLQWPKDSQN 83 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-SSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTTSSGTTT
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCC-CCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhCccccCc
Confidence 445555565 78899999999999999999999931 234555663 2 23 567655 44433322 1 1124
Q ss_pred EEEEEecC
Q 016387 71 VVIMLTKN 78 (390)
Q Consensus 71 I~v~v~k~ 78 (390)
..++++++
T Consensus 84 ~~f~lr~~ 91 (93)
T PF00788_consen 84 SRFVLRRK 91 (93)
T ss_dssp EEEEEEEC
T ss_pred eEEEEEEc
Confidence 55555543
No 197
>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=46.78 E-value=70 Score=26.39 Aligned_cols=40 Identities=18% Similarity=0.193 Sum_probs=32.0
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 016387 6 VKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY 49 (390)
Q Consensus 6 Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~ 49 (390)
++-..|.+..+.|+.+.|..+|+.++.+..+ +... ..|-|
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 5544 55544
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=46.67 E-value=23 Score=28.43 Aligned_cols=58 Identities=19% Similarity=0.205 Sum_probs=38.1
Q ss_pred EEeCCCCCHHHHHHHHHHHhC--CC--CCCCCCeEEEeCCe-ecC------CCCchhhhccCCCCEEEEE
Q 016387 16 VEVKPEDTVFDVKMKIETVQG--SD--VYPAAQQMLIYQGK-VLK------DDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 16 ieV~~~~TV~dLK~~I~~~~g--~~--~ip~~~QkLi~~Gk-iL~------D~~tL~d~gI~~~s~I~v~ 74 (390)
|+|++++|+.+|-+.+++... .. .+..+.-.|++.+- .|+ =+++|.++ +.+|..|+|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 688999999999999998743 00 12223334444332 121 25789999 8999988773
No 199
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=46.59 E-value=22 Score=35.96 Aligned_cols=66 Identities=17% Similarity=0.050 Sum_probs=52.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecCC--CCchhhhccCCCCE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG---KVLKD--DTTLEENKVAENSF 70 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G---kiL~D--~~tL~d~gI~~~s~ 70 (390)
.|.||..+|+.+...+-.+++|.-|-..+...... .+-+..+|+++= |.|.+ +.||.++||.+..+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg--~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDG--SDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcc--cccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 48899999988777778899999888877766542 667788998876 66643 57999999988664
No 200
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.60 E-value=1.1e+02 Score=29.31 Aligned_cols=17 Identities=12% Similarity=0.089 Sum_probs=14.6
Q ss_pred hhhccCCCCEEEEEEec
Q 016387 61 EENKVAENSFVVIMLTK 77 (390)
Q Consensus 61 ~d~gI~~~s~I~v~v~k 77 (390)
-|||.|+|.||.+-++.
T Consensus 148 lDlgFKEGeTIkinikn 164 (253)
T KOG2500|consen 148 LDLGFKEGETIKINIKN 164 (253)
T ss_pred ccccccCCcEEEEEeec
Confidence 35999999999999883
No 201
>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=44.15 E-value=25 Score=32.48 Aligned_cols=28 Identities=14% Similarity=0.387 Sum_probs=25.2
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHhC
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAYN 188 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 188 (390)
..++.+..|+.+| |++.++.+|++....
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIKN 173 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3578999999999 999999999999865
No 202
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=42.88 E-value=27 Score=30.76 Aligned_cols=62 Identities=15% Similarity=0.270 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHhC---CCCCCCCCeEEEe-----------------CCe-ecCCCCchhhhccCCCCEEEEEEec
Q 016387 19 KPEDTVFDVKMKIETVQG---SDVYPAAQQMLIY-----------------QGK-VLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 19 ~~~~TV~dLK~~I~~~~g---~~~ip~~~QkLi~-----------------~Gk-iL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
..+.|+.+|-..|.+... +. --.-+..++| .|+ -.+|+++|..++++-|++|.|-++.
T Consensus 59 W~datL~ELtsLvkevnpeaR~k-gt~f~fa~Vf~d~~~~~y~~RevG~t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~~ 137 (151)
T KOG3391|consen 59 WMDATLRELTSLVKEVNPEARKK-GTSFDFAVVFPDKKSPRYIVREVGTTCLGRKGIDDNKTLQQTKFEIGDYLDVAITP 137 (151)
T ss_pred hhhhhHHHHHHHHHHcCHHHhcc-CceEEEEEEeccCCCCCceeeeecccccCcccCCccchhhhCCccccceEEEEecC
Confidence 346788888888876421 00 0011222332 233 3477899999999999999999987
Q ss_pred CCCC
Q 016387 78 NKRP 81 (390)
Q Consensus 78 ~~~~ 81 (390)
++..
T Consensus 138 p~~~ 141 (151)
T KOG3391|consen 138 PNRR 141 (151)
T ss_pred cccC
Confidence 6544
No 203
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=42.74 E-value=79 Score=26.88 Aligned_cols=50 Identities=12% Similarity=0.307 Sum_probs=37.6
Q ss_pred EEEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec
Q 016387 2 MKIFVKTLKG----TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVL 54 (390)
Q Consensus 2 MkI~Vktl~g----~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL 54 (390)
+.|.+|...+ +.-...|++++|+..+-..|....+ ++..++-++|=..-.
T Consensus 31 V~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sF 84 (116)
T KOG3439|consen 31 VQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSF 84 (116)
T ss_pred EEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCcc
Confidence 3455554433 3355788999999999999999999 889999888855444
No 204
>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=41.71 E-value=44 Score=23.52 Aligned_cols=31 Identities=23% Similarity=0.519 Sum_probs=22.1
Q ss_pred hHHHHHHHhhhCHHHHHHHHH--hHHHHHHHhcC
Q 016387 288 LQPMLQELGKQNPQLVRLIQE--HQADFLRLINE 319 (390)
Q Consensus 288 l~~~l~~i~~~NPql~~~I~~--n~e~fl~~l~~ 319 (390)
|..+|..+ ++||+|++.+.+ ++++|+.+..+
T Consensus 6 l~~Fl~~~-~~d~~l~~~l~~~~~~~e~~~lA~~ 38 (49)
T PF07862_consen 6 LKAFLEKV-KSDPELREQLKACQNPEEVVALARE 38 (49)
T ss_pred HHHHHHHH-hcCHHHHHHHHhcCCHHHHHHHHHH
Confidence 34455555 568888888876 78888888654
No 205
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=41.67 E-value=30 Score=32.32 Aligned_cols=27 Identities=11% Similarity=0.357 Sum_probs=24.7
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHh
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAY 187 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 187 (390)
..++++..|+.+| |.+.++.+|++...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3688999999999 99999999999885
No 206
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=40.97 E-value=2e+02 Score=23.71 Aligned_cols=73 Identities=25% Similarity=0.187 Sum_probs=44.0
Q ss_pred CEEEEEEeCCCc--------EEEE--EeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCee------c-CC--CCch
Q 016387 1 MMKIFVKTLKGT--------SFDV--EVK-PEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKV------L-KD--DTTL 60 (390)
Q Consensus 1 mMkI~Vktl~g~--------~~~i--eV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~Gki------L-~D--~~tL 60 (390)
||.|+|+.+.|- ...+ ++. ...||.+|-..|..+.-. - +++ -+|..|.+ | .| ...|
T Consensus 4 ~~~vkvef~Gg~dllfn~~k~~~~~l~~~e~~~tvgdll~yi~~~~ie--~-r~~-lFi~~gsvrpGii~lINd~DWEll 79 (101)
T KOG4146|consen 4 AHEVKVEFLGGLDLLFNKQKIHLTRLEVGESPATVGDLLDYIFGKYIE--T-RDS-LFIHHGSVRPGIIVLINDMDWELL 79 (101)
T ss_pred ceeEEEEEcCceeeeECCeEEEEEecccCCCcccHHHHHHHHHHHHhc--C-Ccc-eEeeCCcCcCcEEEEEeccchhhh
Confidence 466777766542 2223 332 557999999999886541 1 222 44566542 2 22 2233
Q ss_pred --hhhccCCCCEEEEEEec
Q 016387 61 --EENKVAENSFVVIMLTK 77 (390)
Q Consensus 61 --~d~gI~~~s~I~v~v~k 77 (390)
++|.+++|+.|+++-+.
T Consensus 80 ekedy~ledgD~ivfiSTl 98 (101)
T KOG4146|consen 80 EKEDYPLEDGDHIVFISTL 98 (101)
T ss_pred cccccCcccCCEEEEEEec
Confidence 67899999999887653
No 207
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=40.68 E-value=7.3 Score=37.70 Aligned_cols=67 Identities=16% Similarity=0.206 Sum_probs=45.4
Q ss_pred CEEEEEEe-CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEE
Q 016387 1 MMKIFVKT-LKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFV 71 (390)
Q Consensus 1 mMkI~Vkt-l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I 71 (390)
|++|.++. +.|..+.++++..++|.|.+.++.+..+ +.+...||++.+ .|++...|.++=.++..+.
T Consensus 1 ~~~i~~~~~~~gn~i~ls~~~~~ri~D~~~~l~K~~~---vss~~~kll~~~-llk~iahl~~p~mkEh~f~ 68 (278)
T KOG4842|consen 1 MIAIKTEGIKSGNAIYLSMAGSQRIPDKNPHLQKVAV---VSSKPNKLLALN-LLKEIAHLVSPLMKEHHFK 68 (278)
T ss_pred CccEEEEEEecCcEEEEEeccccccCCCCcccceeee---eccchHHHHhhh-hhhhhhhhhhhhhccccce
Confidence 33344333 3577899999999999999999999988 777888888766 3444444444433443333
No 208
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=40.53 E-value=43 Score=33.58 Aligned_cols=40 Identities=15% Similarity=0.270 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHc-CCChHHHHHHHHHhCCCHHHHHHHHhhc
Q 016387 345 EEREAIERLEAM-GFDRAIVLEVFFACNKNEELAANYLLDH 384 (390)
Q Consensus 345 ee~~ai~rL~~l-GF~~~~~iqAy~ac~kne~~Aan~L~~~ 384 (390)
..++.|.+|.+- |++-..|.+|+.-|++|..+|..||-+.
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~ 85 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKK 85 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence 356779999875 9999999999999999999999999653
No 209
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=40.43 E-value=43 Score=33.21 Aligned_cols=36 Identities=22% Similarity=0.328 Sum_probs=30.3
Q ss_pred HHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHH
Q 016387 161 GAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLY 198 (390)
Q Consensus 161 ~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~ 198 (390)
.+|++|-++-| -.=-+|.+||..+.+|-|.|++||-
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 57888888732 4456899999999999999999996
No 210
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=40.06 E-value=8.3 Score=28.39 Aligned_cols=46 Identities=11% Similarity=-0.049 Sum_probs=38.3
Q ss_pred cCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhcCCC
Q 016387 341 QVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDHMHE 387 (390)
Q Consensus 341 ~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~~~d 387 (390)
.++.+......+++..|+.+.. .+++..|.+..+++..+.+.+.+.
T Consensus 7 ~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 52 (57)
T COG5272 7 KATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMDCERNLEA 52 (57)
T ss_pred ccccccccccchHHHHhhccch-hhhhhhccChhhhhcccccccccc
Confidence 4455556667788999999999 999999999999999998877654
No 211
>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=39.82 E-value=97 Score=26.12 Aligned_cols=45 Identities=20% Similarity=0.331 Sum_probs=32.1
Q ss_pred hHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCCCCCCCCccccccCCCCccccCCHHHHHHH-----HHHHHcC
Q 016387 288 LQPMLQELGKQNPQLVRLIQEHQADFLRLINEPVQGGEGNLGDQLAGLMPQSIQVTPEEREAI-----ERLEAMG 357 (390)
Q Consensus 288 l~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~~~~~g~~~~~~~~~~~~~~~~t~ee~~ai-----~rL~~lG 357 (390)
|..++.+|. .|+.++...+|++.+++-- .||+||+++| .+|.++|
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 456666664 7888888888888877532 4688888884 4566666
No 212
>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=39.73 E-value=2.3e+02 Score=25.28 Aligned_cols=74 Identities=19% Similarity=0.094 Sum_probs=38.2
Q ss_pred EEEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCC-CCCCCCe----EEE-eCCeecCCCCchhhhccCCCCEEEEE
Q 016387 2 MKIFVKTLKGTSFDVEVK-PEDTVFDVKMKIETVQGSD-VYPAAQQ----MLI-YQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~-~ip~~~Q----kLi-~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
|||+|+. ....+.+-+. .+.||.+|-++-..++.+- ...++.. +|- -.|-+|..+..|.+. +.+.+.|+.+
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 8999996 3344556665 5689999877665443210 0222322 232 256688878888875 3566777777
Q ss_pred Eec
Q 016387 75 LTK 77 (390)
Q Consensus 75 v~k 77 (390)
...
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 654
No 213
>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=38.71 E-value=84 Score=23.18 Aligned_cols=59 Identities=20% Similarity=0.246 Sum_probs=38.5
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
|+|.+.+|+... +....|+.|+=..|....++ .-.--..+|+...-+. -++++++|.++
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 456668888755 67788999999999988772 1112245776655443 45566666654
No 214
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=38.02 E-value=35 Score=31.94 Aligned_cols=28 Identities=18% Similarity=0.540 Sum_probs=24.7
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCC
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNN 189 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN 189 (390)
.+++|..|+.+| |.+.++.+|+....-+
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 455699999999 9999999999988775
No 215
>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=37.19 E-value=86 Score=24.65 Aligned_cols=31 Identities=19% Similarity=0.128 Sum_probs=21.1
Q ss_pred EEeCCCc-EEEEEeC-CCCCHHHHHHHHHHHhC
Q 016387 6 VKTLKGT-SFDVEVK-PEDTVFDVKMKIETVQG 36 (390)
Q Consensus 6 Vktl~g~-~~~ieV~-~~~TV~dLK~~I~~~~g 36 (390)
.|....+ ...|.++ ...+|.+||..|..+.+
T Consensus 3 YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 3 YKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred EEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 3433333 3457777 56799999999987766
No 216
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.71 E-value=44 Score=30.90 Aligned_cols=28 Identities=11% Similarity=0.404 Sum_probs=25.1
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHhC
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAYN 188 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 188 (390)
..++++..|+.+| |.+.++.+|++....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3678999999999 999999999998854
No 217
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=36.68 E-value=66 Score=28.85 Aligned_cols=60 Identities=32% Similarity=0.384 Sum_probs=43.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEE
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIML 75 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v 75 (390)
.+++|..+++.|-|.|+.. ++-||| .|.+..| .. ||-|.. .++.++-+|+..|++-.+-+
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk-~ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fgl 106 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLK-SIHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFGL 106 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHH-HHHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEeee
Confidence 4788988888888888754 577888 6888878 23 787764 35566667999988655543
No 218
>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=36.11 E-value=1e+02 Score=24.48 Aligned_cols=65 Identities=15% Similarity=0.243 Sum_probs=41.2
Q ss_pred EEEEeCCC-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 4 IFVKTLKG-TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY--QGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 4 I~Vktl~g-~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~--~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
+.|+..+. ..+-|-. .++.+|+.|...+.+ ++.+..+|+. .|.+++|+.-+.. +.+ .++.|++.+
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~t--Lp~-nT~lm~L~~ 72 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQT--LPD-NTVLMLLEK 72 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCC--SSS-SEEEEEEES
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhh--CCC-CCEEEEECC
Confidence 45665543 3455555 489999999999999 7777777765 6777776643332 333 445555543
No 219
>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=35.89 E-value=55 Score=31.39 Aligned_cols=72 Identities=18% Similarity=0.390 Sum_probs=45.9
Q ss_pred EEEEEEeCC--CcEEE----EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CCee--cCCCCchhhhccCCCC
Q 016387 2 MKIFVKTLK--GTSFD----VEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY----QGKV--LKDDTTLEENKVAENS 69 (390)
Q Consensus 2 MkI~Vktl~--g~~~~----ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~----~Gki--L~D~~tL~d~gI~~~s 69 (390)
+-|++|-.+ .+++. +-|+.+++|.+|-..|.+..| +|.+.--++| .+++ |+.+.++....|.+|+
T Consensus 69 iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~Gd 145 (249)
T PF12436_consen 69 ILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGD 145 (249)
T ss_dssp EEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTE
T ss_pred EEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCC
Confidence 346666553 23322 467889999999999999999 8888766666 3443 6778899999999999
Q ss_pred EEEEEEe
Q 016387 70 FVVIMLT 76 (390)
Q Consensus 70 ~I~v~v~ 76 (390)
.|++=..
T Consensus 146 Ii~fQ~~ 152 (249)
T PF12436_consen 146 IICFQRA 152 (249)
T ss_dssp EEEEEE-
T ss_pred EEEEEec
Confidence 8876653
No 220
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=35.75 E-value=66 Score=32.21 Aligned_cols=39 Identities=26% Similarity=0.313 Sum_probs=34.3
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
.++.++-|.+-| .+.+++..+++.+.++|.+|.+|+..+
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 999999999999999999999999654
No 221
>PRK01777 hypothetical protein; Validated
Probab=35.71 E-value=1.4e+02 Score=24.55 Aligned_cols=71 Identities=10% Similarity=-0.064 Sum_probs=41.6
Q ss_pred CEEEEEEeCC-C--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 1 MMKIFVKTLK-G--TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 1 mMkI~Vktl~-g--~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
||+|.|-... . ..+.+++....||.++-+...-......+....-++.-+||...-+. -+++|+.|-++--
T Consensus 3 ~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIyrP 76 (95)
T PRK01777 3 KIRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIYRP 76 (95)
T ss_pred eeEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEecC
Confidence 4788776532 2 23667889999999887665322110001112235555677665433 5778999988743
No 222
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=35.67 E-value=2.2e+02 Score=22.35 Aligned_cols=40 Identities=23% Similarity=0.388 Sum_probs=29.1
Q ss_pred hCHHHHHHHHHhHHHHHHHhcCCCCCCCCCccccccCCCCccccCCHHHHHH-----HHHHHHcCCCh
Q 016387 298 QNPQLVRLIQEHQADFLRLINEPVQGGEGNLGDQLAGLMPQSIQVTPEEREA-----IERLEAMGFDR 360 (390)
Q Consensus 298 ~NPql~~~I~~n~e~fl~~l~~~~~~~~g~~~~~~~~~~~~~~~~t~ee~~a-----i~rL~~lGF~~ 360 (390)
.+|++++...+||+.++.-- .||+||++| +.+|.++|-+-
T Consensus 14 ~~~~~re~f~~dp~a~~~~~-----------------------~Lt~eE~~al~~rD~~~L~~lG~~~ 58 (77)
T cd07321 14 VKPEVKERFKADPEAVLAEY-----------------------GLTPEEKAALLARDVGALYVLGVNP 58 (77)
T ss_pred cCHHHHHHHHhCHHHHHHHc-----------------------CCCHHHHHHHHcCCHHHHHHcCCCH
Confidence 36888888888888877532 569999999 45577777443
No 223
>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=35.35 E-value=67 Score=26.20 Aligned_cols=34 Identities=44% Similarity=0.660 Sum_probs=25.8
Q ss_pred HHHHHHcCCChHHHH-HHHHHhCCCHHHHHHHHhh
Q 016387 350 IERLEAMGFDRAIVL-EVFFACNKNEELAANYLLD 383 (390)
Q Consensus 350 i~rL~~lGF~~~~~i-qAy~ac~kne~~Aan~L~~ 383 (390)
=.||.+.||++.-++ -=|+-..||+++=.+||-+
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 469999999987655 5599999999999999875
No 224
>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=34.75 E-value=1.2e+02 Score=21.94 Aligned_cols=38 Identities=29% Similarity=0.337 Sum_probs=31.3
Q ss_pred HHHHHHHHHc--cCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 160 EGAIQQILDM--GGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 160 e~~I~~i~~M--G~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
|..|++.... | -+|+-++|-|+-..=|.+.||.-|++.
T Consensus 10 edlI~q~q~VLqg---ksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 10 EDLINQAQVVLQG---KSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp HHHHHHHHHHSTT---S-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 6778776664 7 999999999999999999999999863
No 225
>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=34.32 E-value=1.3e+02 Score=23.58 Aligned_cols=43 Identities=21% Similarity=0.244 Sum_probs=36.3
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 016387 6 VKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG 51 (390)
Q Consensus 6 Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G 51 (390)
|-..+|+.-.+.+.+..||.++-.++.++.| +..+-..++.-|
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRg---l~~~~~~vf~~g 46 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRG---INYAAVDLFLVG 46 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcC---CChhHEEEEEec
Confidence 4456888888999999999999999999999 777777776555
No 226
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=34.00 E-value=1.2e+02 Score=30.45 Aligned_cols=63 Identities=17% Similarity=0.175 Sum_probs=45.8
Q ss_pred EEeCCCCCHHHHHHHHHHHh----CCC--------CCCCCCeEEEeCCeecCCCCchhhhc---cCCCCEEEEEEecC
Q 016387 16 VEVKPEDTVFDVKMKIETVQ----GSD--------VYPAAQQMLIYQGKVLKDDTTLEENK---VAENSFVVIMLTKN 78 (390)
Q Consensus 16 ieV~~~~TV~dLK~~I~~~~----g~~--------~ip~~~QkLi~~GkiL~D~~tL~d~g---I~~~s~I~v~v~k~ 78 (390)
|....-.-|..++..|.++. ... ..+.+...|+|+|++|..+.||..+. -+.++-|+|..|.+
T Consensus 252 L~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k 329 (331)
T PF11816_consen 252 LNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRK 329 (331)
T ss_pred ecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEec
Confidence 44445566888899998887 100 03567778999999999999887774 36777788777654
No 227
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=33.98 E-value=55 Score=26.30 Aligned_cols=27 Identities=30% Similarity=0.562 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHHHhCccchHHHHHHHh
Q 016387 270 NSPQFQVLRAMVQANPQLLQPMLQELG 296 (390)
Q Consensus 270 ~~P~~~~lrq~vq~NP~ll~~~l~~i~ 296 (390)
.-|.|..|+.+.+.||+.+..+-+.+.
T Consensus 2 ~lp~FD~L~~LA~~dPe~fe~lr~~~~ 28 (83)
T PF11333_consen 2 ELPDFDELKELAQNDPEAFEQLRQELI 28 (83)
T ss_pred CCCCHHHHHHHHHhCHHHHHHHHHHHH
Confidence 357899999999999998876555443
No 228
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.96 E-value=47 Score=30.67 Aligned_cols=27 Identities=11% Similarity=0.382 Sum_probs=24.4
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHh
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAY 187 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 187 (390)
..++.+..|+.+| |.|.++.+|++...
T Consensus 144 ~~~e~~~aL~~LG---y~~~ea~~al~~v~ 170 (186)
T PRK14600 144 INDDALAALISLG---YEKTKAFNAIQKIK 170 (186)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHhh
Confidence 3578999999999 99999999999874
No 229
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.70 E-value=46 Score=30.95 Aligned_cols=27 Identities=11% Similarity=0.183 Sum_probs=24.4
Q ss_pred hHHHHHHHHHccCCCCCHHHHHHHHHHHhC
Q 016387 159 LEGAIQQILDMGGGTWDRDTVVRALRAAYN 188 (390)
Q Consensus 159 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 188 (390)
.++++..|+.+| |.+.++.+|++....
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 578999999999 999999999998754
No 230
>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=33.55 E-value=1.2e+02 Score=24.29 Aligned_cols=57 Identities=14% Similarity=0.170 Sum_probs=41.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---e--ecCCCCchhhh
Q 016387 3 KIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQG---K--VLKDDTTLEEN 63 (390)
Q Consensus 3 kI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~G---k--iL~D~~tL~d~ 63 (390)
+.+|| ..|.+..+.++..-|-..|++||...+. +|....-|.|-. - -|.++.-|.++
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 34555 4566777888888899999999999999 888777777722 1 24555555554
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=33.45 E-value=33 Score=26.20 Aligned_cols=20 Identities=20% Similarity=0.493 Sum_probs=16.2
Q ss_pred CCHHHHHHHHHHHHcCC--ChH
Q 016387 342 VTPEEREAIERLEAMGF--DRA 361 (390)
Q Consensus 342 ~t~ee~~ai~rL~~lGF--~~~ 361 (390)
||.+|.+-++--.+||| ++.
T Consensus 1 lTd~dldELkGc~dLGFgF~~~ 22 (64)
T PF07939_consen 1 LTDDDLDELKGCIDLGFGFDEE 22 (64)
T ss_pred CcHhHHHHHhhhhhhccccCcc
Confidence 68899888888899986 555
No 232
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=33.44 E-value=4.4e+02 Score=27.19 Aligned_cols=18 Identities=17% Similarity=0.104 Sum_probs=13.3
Q ss_pred CCCchhhhccCCCCEEEE
Q 016387 56 DDTTLEENKVAENSFVVI 73 (390)
Q Consensus 56 D~~tL~d~gI~~~s~I~v 73 (390)
..-+|.++.+++|++|..
T Consensus 122 ~sGvi~e~lvk~gdtV~~ 139 (457)
T KOG0559|consen 122 ASGVITELLVKDGDTVTP 139 (457)
T ss_pred CcceeeEEecCCCCcccC
Confidence 445778888888888763
No 233
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.26 E-value=48 Score=30.52 Aligned_cols=26 Identities=15% Similarity=0.551 Sum_probs=23.7
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHH
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAA 186 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAa 186 (390)
..++++..|+.+| |.+.++.+|++..
T Consensus 141 ~~~ea~~AL~~LG---y~~~ea~~a~~~~ 166 (183)
T PRK14601 141 DKSEALAALLTLG---FKQEKIIKVLASC 166 (183)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHhc
Confidence 3578999999999 9999999999976
No 234
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=32.80 E-value=1.4e+02 Score=29.22 Aligned_cols=28 Identities=14% Similarity=0.221 Sum_probs=16.8
Q ss_pred cCCCCchhhhccCCCCEEEEEEecCCCCC
Q 016387 54 LKDDTTLEENKVAENSFVVIMLTKNKRPT 82 (390)
Q Consensus 54 L~D~~tL~d~gI~~~s~I~v~v~k~~~~~ 82 (390)
|-|++.+-++.+|.-+ +.+++||+..-+
T Consensus 115 lv~~~di~e~~lk~~~-~e~~irkkeal~ 142 (274)
T PLN02983 115 LVDSRDIVELQLKQLD-CELVIRKKEALP 142 (274)
T ss_pred hhccccceeeeccccc-eEEEEecccccC
Confidence 4466666667676544 455677666543
No 235
>PF09030 Creb_binding: Creb binding; InterPro: IPR014744 This entry represents the interlocking domain of the eukaryotic nuclear receptor coactivators CREBP and p300. The interlocking domain forms a 3-helical non-globular array that forms interlocked heterodimers with its target. Nuclear receptors are ligand-activated transcription factors involved in the regulation of many processes, including development, reproduction and homeostasis. Nuclear receptor coactivators act to modulate the function of nuclear receptors. Coactivators associate with promoters and enhancers primarily through protein-protein contacts to facilitate the interaction between DNA-bound transcription factors and the transcription machinery. Many of these coactivators are structurally related, including CBP (CREB-binding protein) and p300 []. CBP and p300 both have histone acetyltransferase activity (2.3.1.48 from EC). CBP/p300 proteins function synergistically to activate transcription, acting to remodel chromatin and to recruit RNA polymerase II and the basal transcription machinery. CBP is required for proper cell cycle control, differentiation and apoptosis. The interaction of CBP/p300 with transcription factors involves several small domains. The IBiD domain in the C-terminal of CBP is responsible for CBP interaction with IRF-3, as well as with the adenoviral oncoprotein E1A, TIF-2 coactivator, and the IRF homologue KSHV IRF-1 []. ; GO: 0003713 transcription coactivator activity, 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0016573 histone acetylation, 0000123 histone acetyltransferase complex, 0005634 nucleus; PDB: 2KKJ_A 2C52_A 1JJS_A 2L14_A 1KBH_B 1ZOQ_C.
Probab=31.87 E-value=47 Score=27.83 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhCccchHHHHHHHh
Q 016387 273 QFQVLRAMVQANPQLLQPMLQELG 296 (390)
Q Consensus 273 ~~~~lrq~vq~NP~ll~~~l~~i~ 296 (390)
+=+++-.++++||+|+-.||.+-.
T Consensus 71 QQQQVLnILkSNPqLMAAFIKQR~ 94 (104)
T PF09030_consen 71 QQQQVLNILKSNPQLMAAFIKQRA 94 (104)
T ss_dssp HHHHHHHHHHTSHHHHHHHHHHCC
T ss_pred HHHHHHHHHhhCHHHHHHHHHHHH
Confidence 445777788888888877776543
No 236
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=31.73 E-value=2.5e+02 Score=22.12 Aligned_cols=58 Identities=16% Similarity=0.071 Sum_probs=43.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCchhhhccCCCCEEEEE
Q 016387 14 FDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 14 ~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
..+.|..+.....+-+..++++. +++..--+|- .|--+....+..+.-+|.|+.|.++
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~---vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFK---VPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTT---S-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcC---CCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 34688888888888889999999 8888887775 4666778889999999999988764
No 237
>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=31.55 E-value=1e+02 Score=25.04 Aligned_cols=54 Identities=22% Similarity=0.212 Sum_probs=32.4
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC------eecCCC---Cch--hhhccCCCCEEEEE
Q 016387 16 VEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QG------KVLKDD---TTL--EENKVAENSFVVIM 74 (390)
Q Consensus 16 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~G------kiL~D~---~tL--~d~gI~~~s~I~v~ 74 (390)
++++...||.+|-..|...+. ..+-+|+. .| -+|-++ ..| .++-+++|+.|.++
T Consensus 23 ~~~~~~~tV~dll~~L~~~~~-----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNLL-----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhCc-----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 344456799999999988753 23333332 22 122222 223 35678999999887
No 238
>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=31.44 E-value=1.1e+02 Score=27.54 Aligned_cols=52 Identities=23% Similarity=0.367 Sum_probs=33.0
Q ss_pred EEEEEEeCCCcEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhh
Q 016387 2 MKIFVKTLKGTSFDVEVKP-EDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEEN 63 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~-~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~ 63 (390)
|.++|+. | .+.++++. .+.+..+++...+.+. ++. . ++-|+-++...|++||
T Consensus 68 veL~V~v--G-ri~lele~~~~~ie~I~~iCee~lp---f~y---~-i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 68 VELTVKV--G-RIILELEDEEDVIEKIREICEEVLP---FGY---D-IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEEE--e-EEEEEecCcHHHHHHHHHHHHHhCC---Cce---E-eeeeEEeccCCchhhh
Confidence 3455553 3 45677777 5666666655555443 222 2 3569999999999998
No 239
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=30.79 E-value=32 Score=23.83 Aligned_cols=24 Identities=38% Similarity=0.513 Sum_probs=9.6
Q ss_pred ccCCHHHHHHHHHHHHcCCChHHH
Q 016387 340 IQVTPEEREAIERLEAMGFDRAIV 363 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~lGF~~~~~ 363 (390)
-+||++|+..|++|.+.|++-...
T Consensus 3 ~~Lt~~eR~~I~~l~~~G~s~~~I 26 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQGMSIREI 26 (44)
T ss_dssp ---------HHHHHHCS---HHHH
T ss_pred cchhhhHHHHHHHHHHcCCCHHHH
Confidence 468999999999999999865543
No 240
>PLN03196 MOC1-like protein; Provisional
Probab=30.17 E-value=1.1e+02 Score=32.52 Aligned_cols=36 Identities=22% Similarity=0.404 Sum_probs=22.7
Q ss_pred HHHHHHHhCccchH-----------HHHHHHhhhCHHHHHHHHHhHH
Q 016387 276 VLRAMVQANPQLLQ-----------PMLQELGKQNPQLVRLIQEHQA 311 (390)
Q Consensus 276 ~lrq~vq~NP~ll~-----------~~l~~i~~~NPql~~~I~~n~e 311 (390)
+++.+|..+|.+|. .+|+.|+-.+.++..+|..+|.
T Consensus 140 ~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~ 186 (487)
T PLN03196 140 SLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPE 186 (487)
T ss_pred HHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCch
Confidence 66777777777653 2345566666666666666554
No 241
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=29.99 E-value=65 Score=29.96 Aligned_cols=27 Identities=19% Similarity=0.329 Sum_probs=24.4
Q ss_pred chHHHHHHHHHccCCCCCHHHHHHHHHHHh
Q 016387 158 NLEGAIQQILDMGGGTWDRDTVVRALRAAY 187 (390)
Q Consensus 158 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 187 (390)
..++++..|+.+| |.+.++.+|++...
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 4578999999999 99999999999874
No 242
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=29.54 E-value=94 Score=31.20 Aligned_cols=38 Identities=21% Similarity=0.247 Sum_probs=31.3
Q ss_pred HHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 160 EGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 160 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
+...+-|.+- | .+.+++..++|.+.++|.+|.+||..|
T Consensus 170 ~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 170 QYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred HHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 4555566665 7 999999999999999999999999654
No 243
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=29.10 E-value=16 Score=30.15 Aligned_cols=48 Identities=29% Similarity=0.424 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcC
Q 016387 272 PQFQVLRAMVQANPQLLQPMLQELGKQNPQLVRLIQEHQADFLRLINE 319 (390)
Q Consensus 272 P~~~~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~ 319 (390)
....+|+++++.+-.-|.-=+..|..-+|+|++.|..||..|+.++.+
T Consensus 17 ~Y~~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~ 64 (121)
T PF14551_consen 17 KYMDQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEE 64 (121)
T ss_dssp CCHHHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHH
T ss_pred HHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456789999988888776667788888999999999999988888654
No 244
>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=28.22 E-value=1.3e+02 Score=26.94 Aligned_cols=52 Identities=19% Similarity=0.315 Sum_probs=33.1
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhh
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEEN 63 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~ 63 (390)
|.++|+. | .+.|++...+.+..+++...+.+. ++- . +.-||-+++..|+.||
T Consensus 67 veL~V~V--G-rI~le~~~~~~i~~I~eiC~e~~p---F~y---~-i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 67 VELRVQV--G-RIILELEDEDIVEEIEEICKEMLP---FGY---E-VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEEEE--e-EEEEEecCHHHHHHHHHHHHhhCC---Cce---E-eeeeeEeecCCchhhh
Confidence 3455553 3 455677766667777655555543 221 1 4678899999999998
No 245
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=27.90 E-value=71 Score=25.76 Aligned_cols=31 Identities=29% Similarity=0.509 Sum_probs=25.1
Q ss_pred cccCcchHHHHHHHHHccCCCC-CHHHHHH-HHHH
Q 016387 153 LVAGNNLEGAIQQILDMGGGTW-DRDTVVR-ALRA 185 (390)
Q Consensus 153 l~~g~~~e~~I~~i~~MG~~~f-~r~qv~~-ALrA 185 (390)
+-.+..+...|..+++.| -| .+++|+| |||.
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 445788999999999997 45 9999988 5664
No 246
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=27.86 E-value=1e+02 Score=36.57 Aligned_cols=48 Identities=23% Similarity=0.173 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHhhcCCCCC
Q 016387 342 VTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLLDHMHEFE 389 (390)
Q Consensus 342 ~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~~~~~d~~ 389 (390)
.-|||.-.--+-+--|=+|+..|+-+.-++-|+|.|+|-||+...+|+
T Consensus 187 niPEELInnaQqVLQGKSRdVIIRELQRTgLdVNeAVNNLLSRDD~De 234 (3015)
T KOG0943|consen 187 NIPEELINNAQQVLQGKSRDVIIRELQRTGLDVNEAVNNLLSRDDEDE 234 (3015)
T ss_pred cCcHHHHHHHHHHHhCCchhHHHHHHHHhCCcHHHHHHhhhccccccc
Confidence 346665443344455999999999999999999999999998754443
No 247
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=27.22 E-value=1.8e+02 Score=24.42 Aligned_cols=57 Identities=18% Similarity=0.171 Sum_probs=36.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEEEeCC--------eecCCCCchhhh
Q 016387 4 IFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPA---AQQMLIYQG--------KVLKDDTTLEEN 63 (390)
Q Consensus 4 I~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~---~~QkLi~~G--------kiL~D~~tL~d~ 63 (390)
|+|-.-+|.+..|.|....+-.++|.++-.++| +.. ..-..+..| +.|.|...+.=|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg---~~~~~~~~~~~v~d~~~~~~~~~~~LsD~EL~~IC 70 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFG---LPEHPRNYCFYVLDGESPDPSNCRPLSDVELVTIC 70 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHT---SS--CCCEEEEEE-S-----SSEEEE-SSHHHHHH
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcC---CccccccceEEEecccccccccceECcHHHHHHHH
Confidence 566667899999999999999999999999999 443 333445566 445555444434
No 248
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=26.95 E-value=1.9e+02 Score=22.80 Aligned_cols=49 Identities=12% Similarity=0.312 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 22 DTVFDVKMKIETVQGSDVYPAAQQMLIY--QGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 22 ~TV~dLK~~I~~~~g~~~ip~~~QkLi~--~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.+..+|+.|..++.+ ++....+|+. .|..++|+.-+.. +.+ .++.|++.
T Consensus 19 ~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~t--Lp~-nt~l~~L~ 69 (74)
T smart00266 19 SSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQT--LPD-NTELMALE 69 (74)
T ss_pred CCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhc--CCC-CcEEEEEc
Confidence 379999999999999 7766677654 7888877644433 333 34444443
No 249
>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=26.90 E-value=2.2e+02 Score=23.47 Aligned_cols=45 Identities=22% Similarity=0.257 Sum_probs=29.9
Q ss_pred hHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcCCCCCCCCCccccccCCCCccccCCHHHHHHH-----HHHHHcC
Q 016387 288 LQPMLQELGKQNPQLVRLIQEHQADFLRLINEPVQGGEGNLGDQLAGLMPQSIQVTPEEREAI-----ERLEAMG 357 (390)
Q Consensus 288 l~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~~~~~~~g~~~~~~~~~~~~~~~~t~ee~~ai-----~rL~~lG 357 (390)
|+.++-+|. .|+.++...++++..++- --||+||+++| .+|..+|
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 455666663 677777777777766542 24688998884 4566666
No 250
>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=26.56 E-value=1.8e+02 Score=23.14 Aligned_cols=63 Identities=11% Similarity=0.147 Sum_probs=38.0
Q ss_pred EEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhhccCCCCEEEEE
Q 016387 4 IFVKTLKGT-SFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML--IYQGKVLKDDTTLEENKVAENSFVVIM 74 (390)
Q Consensus 4 I~Vktl~g~-~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL--i~~GkiL~D~~tL~d~gI~~~s~I~v~ 74 (390)
++|++.+.. .+-|.. .+..+|+.|..+..+ ++....+| --.|..++|+.-+.. +.++..++++
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 455555432 233333 379999999999999 76555555 347888877644433 3444444433
No 251
>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=26.51 E-value=45 Score=25.12 Aligned_cols=18 Identities=22% Similarity=0.737 Sum_probs=10.9
Q ss_pred HHHHHHHHHhCccchHHH
Q 016387 274 FQVLRAMVQANPQLLQPM 291 (390)
Q Consensus 274 ~~~lrq~vq~NP~ll~~~ 291 (390)
|++|+.+|++||++.+.+
T Consensus 2 ~~~lt~~I~~~p~l~ekI 19 (64)
T PF09494_consen 2 FEALTKLIRSDPELYEKI 19 (64)
T ss_pred HHHHHHHHHcCHHHHHHH
Confidence 456677777666655443
No 252
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=26.51 E-value=85 Score=24.65 Aligned_cols=25 Identities=28% Similarity=0.367 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHhCccchHHHHHHHh
Q 016387 272 PQFQVLRAMVQANPQLLQPMLQELG 296 (390)
Q Consensus 272 P~~~~lrq~vq~NP~ll~~~l~~i~ 296 (390)
.++..|-|.+-+||=+.-.+++||+
T Consensus 16 ~qi~elFq~lT~NPl~AMa~i~qLG 40 (82)
T PF11212_consen 16 EQINELFQALTQNPLAAMATIQQLG 40 (82)
T ss_pred HHHHHHHHHHhhCHHHHHHHHHHcC
Confidence 3455555556666655555566655
No 253
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=26.44 E-value=1.3e+02 Score=34.12 Aligned_cols=63 Identities=16% Similarity=0.288 Sum_probs=46.2
Q ss_pred CCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCchhhhc-c-CCCCEEEEEE
Q 016387 10 KGTSFDVEVK-PEDTVFDVKMKIETVQGSDVYPAAQQMLIY-QGKVLKDDTTLEENK-V-AENSFVVIML 75 (390)
Q Consensus 10 ~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLi~-~GkiL~D~~tL~d~g-I-~~~s~I~v~v 75 (390)
.|+..+++.+ ...|+.+||..|..+.| +....+.++- +|..+.-++.|..|. . .+.+-|+++-
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~---~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFn 69 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVG---HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFN 69 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhc---hhhceeeeeecCCcCcccccchhhhccccCCCCceEEee
Confidence 4677777766 45799999999999999 7777777654 667777788888886 2 3444565553
No 254
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=26.07 E-value=2e+02 Score=22.95 Aligned_cols=49 Identities=18% Similarity=0.338 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCchhhhccCCCCEEEEEEe
Q 016387 22 DTVFDVKMKIETVQGSDVYPAAQQMLIY--QGKVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 22 ~TV~dLK~~I~~~~g~~~ip~~~QkLi~--~GkiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.+..+|+.|..++.+ ++....+|+. .|-.++|+.-+.. +.++ ++.|++.
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~t--Lp~n-T~l~~l~ 71 (78)
T cd01615 21 SSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQT--LPDN-TVLMLLE 71 (78)
T ss_pred CCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhc--CCCC-cEEEEEC
Confidence 379999999999999 7666666654 7888877644333 3333 4444443
No 255
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=26.02 E-value=46 Score=28.33 Aligned_cols=29 Identities=21% Similarity=0.320 Sum_probs=23.6
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHH
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKI 31 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I 31 (390)
|+|+|.. +++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~i-~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITI-GGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEE-TTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEE-CCEEEEEEECCCHHHHHHHHhC
Confidence 7888884 5888999999998888888766
No 256
>KOG0514 consensus Ankyrin repeat protein [General function prediction only]
Probab=25.68 E-value=65 Score=33.10 Aligned_cols=34 Identities=29% Similarity=0.591 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHcCC-------------------ChHHHHHHHHHhCCCHHH
Q 016387 343 TPEEREAIERLEAMGF-------------------DRAIVLEVFFACNKNEEL 376 (390)
Q Consensus 343 t~ee~~ai~rL~~lGF-------------------~~~~~iqAy~ac~kne~~ 376 (390)
++.|+..++||-.||= -|-.++++++||+-|+|.
T Consensus 316 ~~~d~~vV~~LF~mgnVNaKAsQ~gQTALMLAVSHGr~d~vk~LLacgAdVNi 368 (452)
T KOG0514|consen 316 QPADRTVVERLFKMGDVNAKASQHGQTALMLAVSHGRVDMVKALLACGADVNI 368 (452)
T ss_pred chhhHHHHHHHHhccCcchhhhhhcchhhhhhhhcCcHHHHHHHHHccCCCcc
Confidence 6788999999999981 377899999999999875
No 257
>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=25.63 E-value=86 Score=24.10 Aligned_cols=21 Identities=24% Similarity=0.531 Sum_probs=0.0
Q ss_pred HHHHHHHHHcCCChHHHHHHH
Q 016387 347 REAIERLEAMGFDRAIVLEVF 367 (390)
Q Consensus 347 ~~ai~rL~~lGF~~~~~iqAy 367 (390)
.+|++.+..|||++..|..++
T Consensus 12 daA~dam~~lG~~~~~v~~vl 32 (65)
T PF10440_consen 12 DAALDAMRQLGFSKKQVRPVL 32 (65)
T ss_pred HHHHHHHHHcCCCHHHHHHHH
No 258
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=25.34 E-value=1.5e+02 Score=25.19 Aligned_cols=38 Identities=24% Similarity=0.317 Sum_probs=30.7
Q ss_pred hHHHHHHHHH--ccCCCCCHHHHHHHHHHHhCChHHHHHHHHhCCC
Q 016387 159 LEGAIQQILD--MGGGTWDRDTVVRALRAAYNNPERAVEYLYSGIP 202 (390)
Q Consensus 159 ~e~~I~~i~~--MG~~~f~r~qv~~ALrAafnNpdrAveyL~~GIP 202 (390)
+++.+++|.. .+ |.|+++..+|.+-+ +..++||++|--
T Consensus 31 l~~Ia~~i~~~~s~---~t~~di~~vl~~~~---~~~~~~l~~G~s 70 (124)
T PF14848_consen 31 LEDIAEEIAKEGST---LTRADIEAVLNALK---DEMIEALMNGYS 70 (124)
T ss_pred HHHHHHHHHHhCCC---CCHHHHHHHHHHHH---HHHHHHHhCCCE
Confidence 5677788874 56 99999999999865 578899999943
No 259
>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=25.33 E-value=2.6e+02 Score=22.62 Aligned_cols=62 Identities=21% Similarity=0.207 Sum_probs=42.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHH-hCCCCCC--CC-CeEEEeCC--eecCCCCchhhhccCCCCEEEEEEe
Q 016387 14 FDVEVKPEDTVFDVKMKIETV-QGSDVYP--AA-QQMLIYQG--KVLKDDTTLEENKVAENSFVVIMLT 76 (390)
Q Consensus 14 ~~ieV~~~~TV~dLK~~I~~~-~g~~~ip--~~-~QkLi~~G--kiL~D~~tL~d~gI~~~s~I~v~v~ 76 (390)
.-+-|+..+|+.++-.+++.- .|.. ++ +. ..++-+.| ..|..+.++.+-||+.-+.|-++..
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 446899999999999999744 2422 22 22 44666888 8999999999999999999888753
No 260
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=25.17 E-value=2.5e+02 Score=23.14 Aligned_cols=60 Identities=18% Similarity=0.220 Sum_probs=42.5
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCee---------cCCCCchhhhccCCCCEEEE
Q 016387 11 GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML-IYQGKV---------LKDDTTLEENKVAENSFVVI 73 (390)
Q Consensus 11 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-i~~Gki---------L~D~~tL~d~gI~~~s~I~v 73 (390)
..++.+.|+++.|=.++|..|++.+| +.+..... +..|+. +..+..-...-+..|..|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 46799999999999999999999999 76777644 455431 34444455555566666544
No 261
>PF06006 DUF905: Bacterial protein of unknown function (DUF905); InterPro: IPR009253 This family consists of several short hypothetical proteobacterial proteins of unknown function.; PDB: 2HJJ_A.
Probab=25.09 E-value=50 Score=25.67 Aligned_cols=18 Identities=28% Similarity=0.534 Sum_probs=9.8
Q ss_pred CCCCHHHHHHHHHHHhCCh
Q 016387 172 GTWDRDTVVRALRAAYNNP 190 (390)
Q Consensus 172 ~~f~r~qv~~ALrAafnNp 190 (390)
|+|.|+|++. ..++|.|+
T Consensus 6 g~ftr~qA~a-V~a~y~NV 23 (70)
T PF06006_consen 6 GPFTREQAEA-VAAQYRNV 23 (70)
T ss_dssp ----HHHHHH-HHHH-TTE
T ss_pred CCccHHHHHH-HHHHhcce
Confidence 6799999864 77777764
No 262
>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=24.68 E-value=1.4e+02 Score=24.02 Aligned_cols=41 Identities=27% Similarity=0.408 Sum_probs=34.6
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeecC
Q 016387 12 TSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQML-IYQGKVLK 55 (390)
Q Consensus 12 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-i~~GkiL~ 55 (390)
..+.+.|+...|=.++|+.|+..+| +.+...+. ++.||.-.
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 77777754 67887544
No 263
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=23.59 E-value=77 Score=25.24 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=24.0
Q ss_pred HHHHHhCCCCCCCCCeEEE---eCCeecCCCCchhhhccCCCCEEEEEEec
Q 016387 30 KIETVQGSDVYPAAQQMLI---YQGKVLKDDTTLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 30 ~I~~~~g~~~ip~~~QkLi---~~GkiL~D~~tL~d~gI~~~s~I~v~v~k 77 (390)
.|+++.. +.++--.|+ .++..|+-+++|.+|||++ |+++=++
T Consensus 2 ~IC~KCE---fdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~~ 46 (79)
T PF09469_consen 2 AICEKCE---FDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDTS 46 (79)
T ss_dssp HHHHHTT-----TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE--
T ss_pred ccccccc---cCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhccc
Confidence 4777766 777777775 4678899999999999987 7776655
No 264
>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=23.56 E-value=72 Score=27.09 Aligned_cols=28 Identities=18% Similarity=0.343 Sum_probs=25.7
Q ss_pred CChHHHHHHHHHhCCCHHHHHHHHhhcC
Q 016387 358 FDRAIVLEVFFACNKNEELAANYLLDHM 385 (390)
Q Consensus 358 F~~~~~iqAy~ac~kne~~Aan~L~~~~ 385 (390)
|..+.||+.++.|+-..-.|+|||-+.+
T Consensus 43 f~de~vI~~hidaGIs~~~AVN~LVeKY 70 (114)
T PF06755_consen 43 FSDETVIQEHIDAGISPADAVNFLVEKY 70 (114)
T ss_pred cchHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 7789999999999999999999998853
No 265
>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=23.30 E-value=53 Score=33.51 Aligned_cols=17 Identities=35% Similarity=0.714 Sum_probs=14.9
Q ss_pred HHHHHHHHcCCChHHHH
Q 016387 348 EAIERLEAMGFDRAIVL 364 (390)
Q Consensus 348 ~ai~rL~~lGF~~~~~i 364 (390)
+.|+++..|||.|+.|.
T Consensus 323 dvidKv~~MGf~rDqV~ 339 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVR 339 (358)
T ss_pred HHHHHHHHcCCcHHHHH
Confidence 45999999999999884
No 266
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=23.30 E-value=95 Score=23.41 Aligned_cols=21 Identities=19% Similarity=0.512 Sum_probs=18.2
Q ss_pred HHHHHHccCCCCCHHHHHHHHHHH
Q 016387 163 IQQILDMGGGTWDRDTVVRALRAA 186 (390)
Q Consensus 163 I~~i~~MG~~~f~r~qv~~ALrAa 186 (390)
-+.||+|| |...++.+=+|-|
T Consensus 6 k~dLi~lG---f~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELG---FSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcC---CCHHHHHHHHHHH
Confidence 46799999 9999999988865
No 267
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=23.17 E-value=4.6e+02 Score=30.56 Aligned_cols=43 Identities=21% Similarity=0.275 Sum_probs=30.6
Q ss_pred HHHHHHHhCccchHHHHHHHhhhCHHHHHHHHHhHHHHHHHhcC
Q 016387 276 VLRAMVQANPQLLQPMLQELGKQNPQLVRLIQEHQADFLRLINE 319 (390)
Q Consensus 276 ~lrq~vq~NP~ll~~~l~~i~~~NPql~~~I~~n~e~fl~~l~~ 319 (390)
++-.++..||.++..+ -.+....|-|.+++..+|+-+-.++..
T Consensus 75 ~~l~ll~~~p~~~~~l-~~~~~~S~~la~~l~~~p~~l~~ll~~ 117 (1007)
T PRK14109 75 ELLAALRADPGLRGRL-LAVLGASSALGDHLVAHPEDWRALLRD 117 (1007)
T ss_pred HHHHHHHhCHHHHHHH-HHHHHhCHHHHHHHHHCHHHHHHHhcC
Confidence 3445777899887754 444555788999998888877777653
No 268
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=23.04 E-value=34 Score=25.97 Aligned_cols=42 Identities=26% Similarity=0.362 Sum_probs=30.2
Q ss_pred ccCCHHHHHHHHHHHH-cCCChHHHHHHHHHhCCCHHHHHHHH
Q 016387 340 IQVTPEEREAIERLEA-MGFDRAIVLEVFFACNKNEELAANYL 381 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~-lGF~~~~~iqAy~ac~kne~~Aan~L 381 (390)
..+|+-|+..|+.+.. .||+.+.++.|+--|-.+-....+|+
T Consensus 11 ~~~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~~~~~~~Yi 53 (77)
T PF07261_consen 11 RPPSPSEIEKLEKWIDDYGFSPEVVNEAIEYALENNKRSFNYI 53 (77)
T ss_dssp SS--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCT--SHHHH
T ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 3579999999999888 69999999999887765433335554
No 269
>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=22.52 E-value=1.9e+02 Score=27.72 Aligned_cols=44 Identities=9% Similarity=0.061 Sum_probs=32.2
Q ss_pred EEEEEEeCC---CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE
Q 016387 2 MKIFVKTLK---GTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQMLI 48 (390)
Q Consensus 2 MkI~Vktl~---g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLi 48 (390)
+.|+++-.. +..|++.++...|-.+|-++|++..+ +.+...||.
T Consensus 177 v~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~---~dP~~lr~~ 223 (249)
T PF12436_consen 177 VEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLN---VDPEHLRFF 223 (249)
T ss_dssp EEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHT---S-GGGEEEE
T ss_pred EEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHC---CChHHEEEE
Confidence 456666543 34799999999999999999999999 778888884
No 270
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=22.27 E-value=1.3e+02 Score=25.88 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=28.5
Q ss_pred ccCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCH
Q 016387 340 IQVTPEEREAIERLEAMGFDRAIVLEVFFACNKNE 374 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne 374 (390)
+.||+.|..-|+-|..+|.+|..+.-.-+-.+++|
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 45899999999999999999998877655556655
No 271
>KOG4361 consensus BCL2-associated athanogene-like proteins and related BAG family chaperone regulators [Signal transduction mechanisms]
Probab=22.22 E-value=50 Score=33.50 Aligned_cols=61 Identities=20% Similarity=0.288 Sum_probs=45.2
Q ss_pred EEEEeCCCCCHH---HHHHHHHHHhCCCCCCCCCe--EEEeCCeecCCCC-chhhhccCCCCEEEEEEec
Q 016387 14 FDVEVKPEDTVF---DVKMKIETVQGSDVYPAAQQ--MLIYQGKVLKDDT-TLEENKVAENSFVVIMLTK 77 (390)
Q Consensus 14 ~~ieV~~~~TV~---dLK~~I~~~~g~~~ip~~~Q--kLi~~GkiL~D~~-tL~d~gI~~~s~I~v~v~k 77 (390)
+.+.+.+..+-. ++|+......| +.-.++ +++|.++.|+|.. .|..+++++.+.|.|+..+
T Consensus 73 ~~~~i~p~~~~g~~~d~a~~~~~~ag---~sh~d~~~k~~y~~~e~rd~~l~l~~~g~p~~sk~~~~~~~ 139 (344)
T KOG4361|consen 73 HGLAIVPQYPSGNALDLAKPLTEDAG---LSHYDQEVKLVYVDKELRDQSLRLSSAGVPDASKINVVPDP 139 (344)
T ss_pred cccccccccccccchhhhcccccccc---eeecccccccceecccccccccccccccCcccccceeccCh
Confidence 445555555444 88888777777 545555 9999999999865 7889999998888887643
No 272
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=22.21 E-value=1.9e+02 Score=23.57 Aligned_cols=42 Identities=14% Similarity=0.133 Sum_probs=35.8
Q ss_pred EEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE
Q 016387 2 MKIFVKTLKGTSFDVEVKPEDTVFDVKMKIETVQGSDVYPAAQQM 46 (390)
Q Consensus 2 MkI~Vktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Qk 46 (390)
+.|.|-..+|....++|..+++..++-+.+..+.| ++.+-.+
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~---L~~e~~~ 43 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAG---MDSYTQN 43 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhC---CCHHHHh
Confidence 35677778899999999999999999999999999 7766553
No 273
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=22.17 E-value=1.7e+02 Score=25.35 Aligned_cols=35 Identities=26% Similarity=0.411 Sum_probs=30.5
Q ss_pred HHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHH
Q 016387 160 EGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYL 197 (390)
Q Consensus 160 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL 197 (390)
|.-|.=+|+- | -+|++++.||.++.+++-.|+=-|
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 6778888885 8 999999999999999998887655
No 274
>KOG0917 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.01 E-value=7.1e+02 Score=24.70 Aligned_cols=46 Identities=17% Similarity=0.233 Sum_probs=32.2
Q ss_pred cccccCcchHHHHHHHHHccCCCCCHHHHHHHHHHHhCChHHHHHHHHhC
Q 016387 151 SNLVAGNNLEGAIQQILDMGGGTWDRDTVVRALRAAYNNPERAVEYLYSG 200 (390)
Q Consensus 151 s~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNpdrAveyL~~G 200 (390)
++.+-+.+-=..++.++..-||+..-|+|..|.. |.-.|++.|.+|
T Consensus 291 ~g~qptpE~faea~K~~kyA~sAl~yedVstave----nL~KaL~lLt~~ 336 (338)
T KOG0917|consen 291 GGVQPTPEDFAEAQKYCKYAGSALQYEDVSTAVE----NLQKALKLLTTG 336 (338)
T ss_pred CCCccCHHHHHHHHHHHHHhhhhcchHHHHHHHH----HHHHHHHHhhcC
Confidence 3444455444556677777667788888876654 788899999887
No 275
>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=21.79 E-value=1.1e+02 Score=23.79 Aligned_cols=44 Identities=11% Similarity=0.274 Sum_probs=28.0
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhhc-cCCCCEEEEE
Q 016387 21 EDTVFDVKMKIETVQGSDVYPAAQQMLIYQGKVLKDDTTLEENK-VAENSFVVIM 74 (390)
Q Consensus 21 ~~TV~dLK~~I~~~~g~~~ip~~~QkLi~~GkiL~D~~tL~d~g-I~~~s~I~v~ 74 (390)
-.|+.+|++..++++| +. ....+.- |..-+.|.. |.+|+.|+++
T Consensus 25 P~SleeLl~ia~~kfg---~~-~~~v~~~------dgaeIdDI~~IRDgD~L~~~ 69 (69)
T PF11834_consen 25 PDSLEELLKIASEKFG---FS-ATKVLNE------DGAEIDDIDVIRDGDHLYLV 69 (69)
T ss_pred CccHHHHHHHHHHHhC---CC-ceEEEcC------CCCEEeEEEEEEcCCEEEEC
Confidence 4699999999999999 53 2222222 333444443 5788888764
No 276
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=21.39 E-value=2.7e+02 Score=21.09 Aligned_cols=44 Identities=20% Similarity=0.281 Sum_probs=36.0
Q ss_pred chHHHHHHHHHc-cCCCCCHHHHHHHHHHHhCChHHHHHHHHh----C-CCCc
Q 016387 158 NLEGAIQQILDM-GGGTWDRDTVVRALRAAYNNPERAVEYLYS----G-IPEQ 204 (390)
Q Consensus 158 ~~e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNpdrAveyL~~----G-IP~~ 204 (390)
..+++|..+... | -..+=++++|.-...|.+||+.-... | ||.+
T Consensus 11 ~q~~~v~~~~~~Tg---mn~~~s~~cLe~~~Wd~~~Al~~F~~lk~~~~IP~e 60 (63)
T smart00804 11 EQQEMVQAFSAQTG---MNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPE 60 (63)
T ss_pred HHHHHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCChh
Confidence 357788888876 7 88999999999999999999976554 4 8864
No 277
>PF11266 DUF3066: Protein of unknown function (DUF3066); InterPro: IPR022612 This cyanobacterial family of fatty aldehyde decarbonylases acts on mainly C16 and C18 substrates to form hydrocarbons and carbon monoxide []. Note that the corresponding EC number (4.1.99.5 from EC) dating from 1989 refers to a nonorthologous Pisum sativum enzyme that acts on C18 and longer chains and attaches the overly narrow narrow name octadecanal decarbonylase. ; PDB: 2OC5_A.
Probab=21.27 E-value=48 Score=30.75 Aligned_cols=39 Identities=21% Similarity=0.427 Sum_probs=27.4
Q ss_pred cCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHHHh
Q 016387 341 QVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANYLL 382 (390)
Q Consensus 341 ~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~L~ 382 (390)
.+=|++++.+.||..| +..-...|.||+||..+..+.=|
T Consensus 34 ~llP~~~deL~rLakM---E~rH~kgF~aCGrNL~V~~Dm~f 72 (219)
T PF11266_consen 34 ELLPDQKDELIRLAKM---ENRHKKGFQACGRNLGVTPDMPF 72 (219)
T ss_dssp HH-GGGHHHHHHHHHH---HHHHHHHHHHHHHHTT----HHH
T ss_pred HHCcccHHHHHHHHHH---HHHHHhHHHHhccCCcCCCCcHH
Confidence 3456777888999888 78888999999999877666533
No 278
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=20.95 E-value=1.7e+02 Score=21.85 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=17.9
Q ss_pred hhCHHHHHHHHH--hHHHHHHHhcC
Q 016387 297 KQNPQLVRLIQE--HQADFLRLINE 319 (390)
Q Consensus 297 ~~NPql~~~I~~--n~e~fl~~l~~ 319 (390)
++||+|++.+++ ++++|+.+..+
T Consensus 12 ~~d~~L~~~l~~~~~~e~~~~lA~~ 36 (64)
T TIGR03798 12 KTDPDLREKLKAAEDPEDRVAIAKE 36 (64)
T ss_pred HcCHHHHHHHHHcCCHHHHHHHHHH
Confidence 457888888875 78889888764
No 279
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=20.94 E-value=97 Score=29.58 Aligned_cols=28 Identities=21% Similarity=0.329 Sum_probs=24.9
Q ss_pred cCcchHHHHHHHHHccCCCC-CHHHHHHHHHH
Q 016387 155 AGNNLEGAIQQILDMGGGTW-DRDTVVRALRA 185 (390)
Q Consensus 155 ~g~~~e~~I~~i~~MG~~~f-~r~qv~~ALrA 185 (390)
+|++.+..|.+|.+-+ | -++-|++||||
T Consensus 6 ~gs~n~~LId~L~~~~---~Ir~~~v~~A~~a 34 (237)
T KOG1661|consen 6 SGSDNDDLIDNLRENK---IIRTRRVEQAMRA 34 (237)
T ss_pred cCcchHHHHHHHHhcc---hhHHHHHHHHHHh
Confidence 4788899999999999 8 77789999998
No 280
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=20.85 E-value=78 Score=21.59 Aligned_cols=22 Identities=32% Similarity=0.558 Sum_probs=16.0
Q ss_pred cchHHHHHHHhhhCHHHHHHHH
Q 016387 286 QLLQPMLQELGKQNPQLVRLIQ 307 (390)
Q Consensus 286 ~ll~~~l~~i~~~NPql~~~I~ 307 (390)
+-|+.+|+.+-+.||++.+-|.
T Consensus 13 ~qL~~lL~~l~~~HPei~~~i~ 34 (38)
T PF14483_consen 13 DQLQSLLQSLCERHPEIQQEIR 34 (38)
T ss_dssp HHHHHHHHHHHHHSTHHHHHHH
T ss_pred HHHHHHHHHHHHhChhHHHHHH
Confidence 3456677778888888887765
No 281
>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=20.74 E-value=1.3e+02 Score=20.87 Aligned_cols=25 Identities=16% Similarity=0.185 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHHHhCChHHHHHHHH
Q 016387 174 WDRDTVVRALRAAYNNPERAVEYLY 198 (390)
Q Consensus 174 f~r~qv~~ALrAafnNpdrAveyL~ 198 (390)
..|+.++..|+...+|.-+|+|.++
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 282
>PRK14983 aldehyde decarbonylase; Provisional
Probab=20.58 E-value=41 Score=31.47 Aligned_cols=38 Identities=26% Similarity=0.417 Sum_probs=30.0
Q ss_pred ccCCHHHHHHHHHHHHcCCChHHHHHHHHHhCCCHHHHHHH
Q 016387 340 IQVTPEEREAIERLEAMGFDRAIVLEVFFACNKNEELAANY 380 (390)
Q Consensus 340 ~~~t~ee~~ai~rL~~lGF~~~~~iqAy~ac~kne~~Aan~ 380 (390)
-.+=|++.+-+.||..| +..=...|.||+||..+.++.
T Consensus 43 a~llP~~~dEL~rLakM---E~rH~kgF~aCGrNL~V~~Dm 80 (231)
T PRK14983 43 ATLLPEHAEELTRLAKM---EMRHKKGFTACGRNLGVTPDM 80 (231)
T ss_pred HHHCcccHHHHHHHHHH---HHHHHhHHHHHcccCcCCCCc
Confidence 35667888889999888 777788999999998765543
No 283
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=20.14 E-value=92 Score=23.49 Aligned_cols=33 Identities=18% Similarity=0.234 Sum_probs=27.6
Q ss_pred cCCHHHHHHHHHHH-HcCCChHHHHHHHHHhCCC
Q 016387 341 QVTPEEREAIERLE-AMGFDRAIVLEVFFACNKN 373 (390)
Q Consensus 341 ~~t~ee~~ai~rL~-~lGF~~~~~iqAy~ac~kn 373 (390)
.+|+-|++.|..+. ..||+-+.++.|+.-|-++
T Consensus 12 ~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a~~~ 45 (73)
T TIGR01446 12 MLSPFEMEDLKYWLDEFGNSPELIKEALKEAVSN 45 (73)
T ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 57999999988876 4699999999999988643
Done!