Query 019817
Match_columns 335
No_of_seqs 312 out of 1473
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 04:46:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019817.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019817hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00601 rad23 UV excision re 100.0 6.3E-65 1.4E-69 494.5 33.7 316 1-332 1-378 (378)
2 KOG0011 Nucleotide excision re 100.0 6E-65 1.3E-69 473.4 26.9 297 1-333 1-340 (340)
3 cd01807 GDX_N ubiquitin-like d 99.8 2.9E-18 6.2E-23 130.6 9.5 73 1-76 1-73 (74)
4 cd01805 RAD23_N Ubiquitin-like 99.7 2.1E-17 4.5E-22 126.4 10.2 75 1-78 1-77 (77)
5 cd01797 NIRF_N amino-terminal 99.7 1.5E-17 3.3E-22 128.1 9.4 74 1-77 1-76 (78)
6 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 2.9E-17 6.2E-22 125.0 8.7 70 1-73 2-71 (73)
7 cd01793 Fubi Fubi ubiquitin-li 99.7 5.6E-17 1.2E-21 123.5 9.3 73 1-78 1-73 (74)
8 PTZ00044 ubiquitin; Provisiona 99.7 7.7E-17 1.7E-21 123.0 9.7 74 1-77 1-74 (76)
9 cd01804 midnolin_N Ubiquitin-l 99.7 1.2E-16 2.7E-21 123.0 9.0 72 1-76 2-73 (78)
10 cd01802 AN1_N ubiquitin-like d 99.7 1.4E-16 3E-21 129.1 9.5 74 1-77 28-101 (103)
11 cd01806 Nedd8 Nebb8-like ubiq 99.7 2.3E-16 5E-21 119.9 10.2 74 1-77 1-74 (76)
12 cd01792 ISG15_repeat1 ISG15 ub 99.7 1.7E-16 3.6E-21 122.8 8.5 74 1-77 3-78 (80)
13 cd01803 Ubiquitin Ubiquitin. U 99.7 3.1E-16 6.7E-21 119.2 9.6 74 1-77 1-74 (76)
14 cd01809 Scythe_N Ubiquitin-lik 99.7 3.6E-16 7.7E-21 117.6 9.5 72 1-75 1-72 (72)
15 cd01810 ISG15_repeat2 ISG15 ub 99.7 3.2E-16 6.9E-21 119.3 8.8 72 3-77 1-72 (74)
16 cd01794 DC_UbP_C dendritic cel 99.7 2.6E-16 5.6E-21 118.8 8.1 69 3-74 1-69 (70)
17 cd01798 parkin_N amino-termina 99.7 3.2E-16 6.9E-21 118.0 8.3 70 3-75 1-70 (70)
18 cd01808 hPLIC_N Ubiquitin-like 99.6 7.8E-16 1.7E-20 116.2 9.0 71 1-75 1-71 (71)
19 cd01790 Herp_N Homocysteine-re 99.6 5.5E-16 1.2E-20 119.2 7.9 73 1-74 2-78 (79)
20 PF00240 ubiquitin: Ubiquitin 99.6 1.2E-15 2.7E-20 114.0 8.3 69 6-77 1-69 (69)
21 cd01813 UBP_N UBP ubiquitin pr 99.6 3.1E-15 6.7E-20 114.1 8.3 70 1-74 1-73 (74)
22 cd01796 DDI1_N DNA damage indu 99.6 6E-15 1.3E-19 111.5 7.8 67 3-72 1-69 (71)
23 cd01812 BAG1_N Ubiquitin-like 99.6 1E-14 2.2E-19 109.5 8.4 70 1-74 1-70 (71)
24 KOG0005 Ubiquitin-like protein 99.5 5.6E-15 1.2E-19 105.3 5.0 70 1-73 1-70 (70)
25 cd01800 SF3a120_C Ubiquitin-li 99.5 2.3E-14 5E-19 109.7 8.5 68 8-78 5-72 (76)
26 KOG0010 Ubiquitin-like protein 99.5 7E-14 1.5E-18 137.8 10.2 77 1-81 16-92 (493)
27 KOG0944 Ubiquitin-specific pro 99.5 5.6E-14 1.2E-18 142.0 9.3 105 153-332 571-676 (763)
28 cd01763 Sumo Small ubiquitin-r 99.5 5.6E-13 1.2E-17 104.7 10.0 74 1-77 12-85 (87)
29 smart00213 UBQ Ubiquitin homol 99.4 4.1E-13 8.9E-18 98.0 7.9 64 1-68 1-64 (64)
30 KOG0003 Ubiquitin/60s ribosoma 99.4 3E-14 6.5E-19 113.3 0.3 76 1-79 1-76 (128)
31 KOG0004 Ubiquitin/40S ribosoma 99.4 3.2E-13 6.9E-18 114.7 5.2 81 1-84 1-81 (156)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 6.1E-13 1.3E-17 101.1 5.8 55 19-74 19-74 (75)
33 cd01814 NTGP5 Ubiquitin-like N 99.4 1.6E-12 3.4E-17 105.4 7.3 78 2-79 6-94 (113)
34 cd01769 UBL Ubiquitin-like dom 99.3 1.1E-11 2.3E-16 91.7 8.2 68 4-74 1-68 (69)
35 cd01799 Hoil1_N Ubiquitin-like 99.3 1E-11 2.2E-16 94.9 7.7 65 6-74 8-74 (75)
36 PF11976 Rad60-SLD: Ubiquitin- 99.2 4.6E-11 9.9E-16 90.0 7.9 71 1-74 1-72 (72)
37 COG5207 UBP14 Isopeptidase T [ 99.1 3.2E-10 7E-15 112.1 8.1 103 154-332 559-662 (749)
38 cd01795 USP48_C USP ubiquitin- 99.1 4.2E-10 9.2E-15 89.0 7.2 62 12-76 16-78 (107)
39 cd00194 UBA Ubiquitin Associat 99.0 6.4E-10 1.4E-14 73.6 5.3 37 292-328 2-38 (38)
40 PF00627 UBA: UBA/TS-N domain; 99.0 5.1E-10 1.1E-14 73.9 4.6 36 291-326 2-37 (37)
41 PF00627 UBA: UBA/TS-N domain; 99.0 7.9E-10 1.7E-14 72.9 5.1 36 153-191 2-37 (37)
42 PF13881 Rad60-SLD_2: Ubiquiti 99.0 4.4E-09 9.6E-14 86.3 10.5 76 2-77 4-90 (111)
43 smart00165 UBA Ubiquitin assoc 99.0 1.1E-09 2.4E-14 72.0 5.1 36 292-327 2-37 (37)
44 cd01789 Alp11_N Ubiquitin-like 99.0 4.1E-09 8.9E-14 82.3 8.9 71 2-75 3-81 (84)
45 KOG4248 Ubiquitin-like protein 98.9 3.1E-09 6.7E-14 112.4 7.0 71 2-76 4-74 (1143)
46 cd00194 UBA Ubiquitin Associat 98.8 7E-09 1.5E-13 68.5 5.0 37 154-193 2-38 (38)
47 smart00165 UBA Ubiquitin assoc 98.8 7.6E-09 1.7E-13 68.0 4.6 36 154-192 2-37 (37)
48 PF14560 Ubiquitin_2: Ubiquiti 98.8 2.2E-08 4.8E-13 78.4 7.9 72 2-76 3-84 (87)
49 KOG0001 Ubiquitin and ubiquiti 98.8 5.7E-08 1.2E-12 71.4 9.7 72 3-77 2-73 (75)
50 PLN02560 enoyl-CoA reductase 98.8 2E-08 4.3E-13 96.4 8.7 71 1-73 1-81 (308)
51 cd01788 ElonginB Ubiquitin-lik 98.7 5.8E-08 1.3E-12 78.7 7.7 73 1-76 1-81 (119)
52 cd01801 Tsc13_N Ubiquitin-like 98.7 7.9E-08 1.7E-12 73.6 7.2 69 2-72 2-74 (77)
53 cd00196 UBQ Ubiquitin-like pro 98.4 1.8E-06 3.8E-11 60.2 8.1 67 5-74 2-68 (69)
54 PF11543 UN_NPL4: Nuclear pore 98.4 5.2E-07 1.1E-11 69.8 5.6 69 1-73 5-78 (80)
55 KOG1872 Ubiquitin-specific pro 98.1 5.7E-06 1.2E-10 81.9 7.7 73 2-78 5-78 (473)
56 cd01811 OASL_repeat1 2'-5' oli 98.1 1.7E-05 3.7E-10 59.6 8.3 71 1-75 1-76 (80)
57 KOG0006 E3 ubiquitin-protein l 98.1 4.6E-06 9.9E-11 78.7 6.0 73 1-76 1-76 (446)
58 KOG2561 Adaptor protein NUB1, 98.0 2.2E-05 4.7E-10 77.4 9.1 59 14-75 53-111 (568)
59 KOG3493 Ubiquitin-like protein 98.0 2.2E-06 4.7E-11 62.6 1.5 69 2-73 3-71 (73)
60 KOG1769 Ubiquitin-like protein 97.9 6.6E-05 1.4E-09 59.7 8.5 72 2-76 22-93 (99)
61 KOG0944 Ubiquitin-specific pro 97.8 1.5E-05 3.3E-10 81.8 4.4 46 151-199 633-678 (763)
62 TIGR00601 rad23 UV excision re 97.8 2E-05 4.4E-10 77.7 4.9 40 290-329 155-194 (378)
63 KOG2561 Adaptor protein NUB1, 97.8 8.8E-05 1.9E-09 73.2 8.7 93 154-330 376-468 (568)
64 COG5207 UBP14 Isopeptidase T [ 97.7 3.8E-05 8.2E-10 76.8 5.0 44 291-334 558-602 (749)
65 KOG4495 RNA polymerase II tran 97.6 0.00012 2.7E-09 57.6 4.8 62 1-65 1-65 (110)
66 PF08817 YukD: WXG100 protein 97.4 0.00039 8.5E-09 53.4 5.6 71 2-72 4-78 (79)
67 PF10302 DUF2407: DUF2407 ubiq 97.3 0.00057 1.2E-08 54.8 6.4 60 2-62 2-64 (97)
68 PF00789 UBX: UBX domain; Int 97.1 0.0042 9.2E-08 47.6 8.7 68 2-72 8-80 (82)
69 KOG4583 Membrane-associated ER 97.1 7.4E-05 1.6E-09 71.2 -1.8 79 2-81 11-93 (391)
70 smart00166 UBX Domain present 97.0 0.0052 1.1E-07 47.2 8.7 68 2-72 6-78 (80)
71 PF11470 TUG-UBL1: GLUT4 regul 96.9 0.005 1.1E-07 45.7 7.0 63 7-72 3-65 (65)
72 COG5417 Uncharacterized small 96.9 0.0052 1.1E-07 46.4 6.9 71 2-72 6-80 (81)
73 cd01767 UBX UBX (ubiquitin reg 96.8 0.013 2.8E-07 44.5 9.0 66 2-72 4-74 (77)
74 COG5227 SMT3 Ubiquitin-like pr 96.8 0.0052 1.1E-07 48.1 6.7 69 3-74 27-95 (103)
75 KOG0013 Uncharacterized conser 96.8 0.0024 5.3E-08 57.4 5.6 65 9-76 155-221 (231)
76 cd01772 SAKS1_UBX SAKS1-like U 96.8 0.013 2.9E-07 44.9 8.8 67 2-72 6-77 (79)
77 cd01770 p47_UBX p47-like ubiqu 96.7 0.015 3.3E-07 44.7 8.7 65 2-68 6-73 (79)
78 KOG1639 Steroid reductase requ 96.5 0.006 1.3E-07 56.3 6.4 70 1-72 1-76 (297)
79 PF02845 CUE: CUE domain; Int 96.5 0.0051 1.1E-07 41.4 4.2 40 154-194 2-41 (42)
80 cd01773 Faf1_like1_UBX Faf1 ik 96.5 0.03 6.5E-07 43.5 9.0 69 2-74 7-80 (82)
81 KOG0011 Nucleotide excision re 96.5 0.0036 7.8E-08 59.9 4.6 40 290-329 134-173 (340)
82 PF14555 UBA_4: UBA-like domai 96.3 0.0092 2E-07 40.4 4.8 40 293-332 2-42 (43)
83 KOG3206 Alpha-tubulin folding 96.1 0.015 3.3E-07 52.3 6.5 71 2-75 3-81 (234)
84 KOG0418 Ubiquitin-protein liga 96.0 0.0078 1.7E-07 53.2 4.2 42 288-329 159-200 (200)
85 PF02845 CUE: CUE domain; Int 96.0 0.014 3.1E-07 39.2 4.7 38 292-329 2-41 (42)
86 PF13019 Telomere_Sde2: Telome 95.9 0.061 1.3E-06 46.9 9.1 75 1-78 1-87 (162)
87 cd01774 Faf1_like2_UBX Faf1 ik 95.8 0.078 1.7E-06 41.4 8.7 68 2-73 6-83 (85)
88 cd01771 Faf1_UBX Faf1 UBX doma 95.7 0.1 2.2E-06 40.2 8.8 68 2-73 6-78 (80)
89 smart00546 CUE Domain that may 95.3 0.054 1.2E-06 36.5 5.3 41 153-194 2-42 (43)
90 PF09288 UBA_3: Fungal ubiquit 95.2 0.018 3.8E-07 41.2 2.7 39 290-328 8-51 (55)
91 smart00546 CUE Domain that may 95.0 0.07 1.5E-06 35.9 5.1 38 292-329 3-42 (43)
92 KOG0418 Ubiquitin-protein liga 94.7 0.048 1E-06 48.3 4.6 45 147-194 156-200 (200)
93 PF15044 CLU_N: Mitochondrial 94.1 0.1 2.2E-06 39.9 4.8 56 17-74 1-57 (76)
94 PRK06437 hypothetical protein; 93.2 0.63 1.4E-05 34.5 7.6 59 4-74 4-62 (67)
95 PF14555 UBA_4: UBA-like domai 93.1 0.27 5.8E-06 33.2 5.0 38 154-194 1-39 (43)
96 KOG0012 DNA damage inducible p 93.1 0.14 3.1E-06 49.8 5.0 70 1-73 1-74 (380)
97 PF11626 Rap1_C: TRF2-interact 92.9 0.12 2.7E-06 40.3 3.6 35 295-329 1-35 (87)
98 TIGR00116 tsf translation elon 92.4 0.19 4.1E-06 48.1 4.8 37 155-194 6-43 (290)
99 KOG2689 Predicted ubiquitin re 92.4 0.18 4E-06 47.3 4.4 40 157-199 4-45 (290)
100 PRK12332 tsf elongation factor 92.2 0.22 4.8E-06 45.0 4.8 37 155-194 6-43 (198)
101 PLN02799 Molybdopterin synthas 91.8 0.72 1.6E-05 35.2 6.6 66 1-73 2-76 (82)
102 PRK09377 tsf elongation factor 91.8 0.24 5.3E-06 47.3 4.8 36 155-193 7-43 (290)
103 CHL00098 tsf elongation factor 91.7 0.28 6E-06 44.4 4.7 36 155-193 3-39 (200)
104 PF09379 FERM_N: FERM N-termin 91.5 1.1 2.5E-05 33.6 7.4 63 5-69 1-69 (80)
105 PF14453 ThiS-like: ThiS-like 91.1 1.3 2.8E-05 32.0 6.7 56 1-75 1-56 (57)
106 cd06409 PB1_MUG70 The MUG70 pr 90.8 0.85 1.8E-05 35.7 6.1 45 2-49 2-49 (86)
107 PRK06488 sulfur carrier protei 90.1 1.3 2.9E-05 32.2 6.3 60 1-74 1-60 (65)
108 cd00754 MoaD Ubiquitin domain 89.9 1.6 3.4E-05 32.8 6.9 57 12-73 17-74 (80)
109 PF11626 Rap1_C: TRF2-interact 89.9 0.51 1.1E-05 36.8 4.2 35 157-194 1-35 (87)
110 PRK08364 sulfur carrier protei 89.8 2.4 5.2E-05 31.5 7.6 50 12-73 15-64 (70)
111 cd06406 PB1_P67 A PB1 domain i 89.7 1.1 2.5E-05 34.5 5.8 37 12-51 12-48 (80)
112 PF09288 UBA_3: Fungal ubiquit 89.3 0.49 1.1E-05 33.8 3.3 24 154-180 10-33 (55)
113 KOG0010 Ubiquitin-like protein 89.2 0.64 1.4E-05 47.1 5.3 40 151-193 452-492 (493)
114 PF06972 DUF1296: Protein of u 89.0 1.5 3.3E-05 31.7 5.6 42 153-195 5-46 (60)
115 PF10209 DUF2340: Uncharacteri 88.5 1.6 3.5E-05 36.3 6.3 60 16-75 21-108 (122)
116 PF14836 Ubiquitin_3: Ubiquiti 88.3 2.5 5.5E-05 33.2 7.0 62 11-76 14-81 (88)
117 cd06407 PB1_NLP A PB1 domain i 88.0 3 6.5E-05 32.3 7.3 70 1-74 1-80 (82)
118 COG0264 Tsf Translation elonga 87.1 0.95 2.1E-05 43.2 4.7 36 155-193 7-43 (296)
119 PF12754 Blt1: Cell-cycle cont 86.4 0.21 4.6E-06 47.8 0.0 59 2-63 80-158 (309)
120 TIGR01682 moaD molybdopterin c 85.9 4.7 0.0001 30.5 7.3 59 10-73 14-74 (80)
121 PF10790 DUF2604: Protein of U 85.8 4 8.8E-05 30.2 6.3 68 8-75 3-71 (76)
122 PF02597 ThiS: ThiS family; I 84.6 2.9 6.3E-05 30.9 5.5 60 12-74 13-72 (77)
123 KOG2086 Protein tyrosine phosp 84.1 2 4.4E-05 42.3 5.5 67 2-70 307-376 (380)
124 smart00666 PB1 PB1 domain. Pho 84.0 4.9 0.00011 30.2 6.6 45 2-50 3-47 (81)
125 TIGR00264 alpha-NAC-related pr 83.5 2.3 4.9E-05 35.2 4.7 37 291-327 78-115 (116)
126 PF11620 GABP-alpha: GA-bindin 83.5 3.8 8.3E-05 32.0 5.7 61 13-76 5-65 (88)
127 PRK06369 nac nascent polypepti 83.4 2.6 5.7E-05 34.8 5.1 37 154-193 77-114 (115)
128 TIGR01687 moaD_arch MoaD famil 83.3 8.5 0.00018 29.5 7.8 59 11-73 16-82 (88)
129 smart00295 B41 Band 4.1 homolo 83.1 12 0.00026 32.7 9.8 61 2-65 5-72 (207)
130 PF07499 RuvA_C: RuvA, C-termi 83.0 0.97 2.1E-05 31.1 2.1 25 292-316 4-28 (47)
131 PRK05659 sulfur carrier protei 82.1 7 0.00015 28.3 6.6 61 1-74 1-61 (66)
132 PRK06369 nac nascent polypepti 82.0 3 6.5E-05 34.4 4.9 38 291-328 76-114 (115)
133 PRK05863 sulfur carrier protei 82.0 7.2 0.00016 28.5 6.6 60 1-74 1-60 (65)
134 PF08938 HBS1_N: HBS1 N-termin 81.7 0.59 1.3E-05 35.8 0.7 27 168-194 43-70 (79)
135 PF07499 RuvA_C: RuvA, C-termi 80.0 2 4.3E-05 29.5 2.8 26 153-181 3-28 (47)
136 cd06408 PB1_NoxR The PB1 domai 79.8 8 0.00017 30.3 6.4 45 3-51 3-48 (86)
137 KOG2982 Uncharacterized conser 79.3 2.1 4.5E-05 41.5 3.5 56 16-74 353-416 (418)
138 cd01760 RBD Ubiquitin-like dom 78.9 13 0.00028 28.1 7.1 45 3-50 2-46 (72)
139 PRK08053 sulfur carrier protei 78.0 15 0.00032 26.8 7.2 61 1-74 1-61 (66)
140 PRK06944 sulfur carrier protei 77.6 16 0.00036 26.2 7.3 60 1-74 1-60 (65)
141 cd00565 ThiS ThiaminS ubiquiti 77.0 10 0.00022 27.5 6.0 57 8-74 4-60 (65)
142 PF08938 HBS1_N: HBS1 N-termin 77.0 1.9 4.1E-05 33.0 2.1 45 286-330 19-71 (79)
143 TIGR02958 sec_mycoba_snm4 secr 76.7 18 0.00039 36.8 9.7 72 2-74 4-79 (452)
144 TIGR00264 alpha-NAC-related pr 76.5 5.6 0.00012 32.9 4.9 36 154-192 79-115 (116)
145 smart00455 RBD Raf-like Ras-bi 76.3 8.7 0.00019 28.7 5.6 45 3-50 2-46 (70)
146 PF08337 Plexin_cytopl: Plexin 75.5 11 0.00023 39.3 7.7 65 11-76 202-290 (539)
147 COG2104 ThiS Sulfur transfer p 75.5 16 0.00035 27.2 6.8 63 1-74 1-63 (68)
148 PF14732 UAE_UbL: Ubiquitin/SU 75.4 3.8 8.2E-05 32.0 3.5 52 19-73 7-67 (87)
149 PRK07696 sulfur carrier protei 74.4 14 0.00031 27.2 6.2 61 1-74 1-62 (67)
150 cd05992 PB1 The PB1 domain is 73.4 13 0.00029 27.6 6.1 45 2-50 2-47 (81)
151 COG5100 NPL4 Nuclear pore prot 73.2 15 0.00032 36.8 7.6 73 1-75 1-79 (571)
152 PRK07440 hypothetical protein; 72.4 18 0.00039 26.9 6.5 57 8-74 9-65 (70)
153 PRK06083 sulfur carrier protei 72.1 19 0.00042 27.9 6.7 57 8-74 23-79 (84)
154 PF00564 PB1: PB1 domain; Int 71.2 16 0.00034 27.5 6.0 44 3-50 4-48 (84)
155 TIGR01683 thiS thiamine biosyn 70.1 18 0.00038 26.1 5.8 57 8-74 3-59 (64)
156 KOG1071 Mitochondrial translat 68.7 8.6 0.00019 37.2 4.8 39 290-328 45-84 (340)
157 PF11069 DUF2870: Protein of u 68.7 10 0.00022 30.4 4.5 31 45-76 3-33 (98)
158 cd01787 GRB7_RA RA (RAS-associ 65.3 44 0.00095 26.1 7.4 67 3-71 5-81 (85)
159 PF02954 HTH_8: Bacterial regu 65.2 5.6 0.00012 26.4 2.1 24 303-326 5-28 (42)
160 PF02196 RBD: Raf-like Ras-bin 63.5 59 0.0013 24.2 8.5 57 3-62 3-61 (71)
161 cd06396 PB1_NBR1 The PB1 domai 63.2 28 0.00061 26.9 5.9 34 3-40 3-38 (81)
162 PF00788 RA: Ras association ( 62.7 51 0.0011 24.8 7.6 57 3-60 5-72 (93)
163 smart00144 PI3K_rbd PI3-kinase 62.7 41 0.00089 27.2 7.2 75 3-77 20-106 (108)
164 PF11547 E3_UbLigase_EDD: E3 u 61.7 17 0.00037 25.3 3.9 40 293-332 11-52 (53)
165 KOG4250 TANK binding protein k 61.7 28 0.0006 37.3 7.4 48 3-53 316-364 (732)
166 KOG2689 Predicted ubiquitin re 61.6 28 0.0006 33.1 6.7 68 2-72 212-284 (290)
167 PF14451 Ub-Mut7C: Mut7-C ubiq 61.5 35 0.00077 26.3 6.2 53 10-74 22-75 (81)
168 COG5272 UBI4 Ubiquitin [Posttr 61.2 3 6.6E-05 29.7 0.3 46 286-332 7-52 (57)
169 PRK11840 bifunctional sulfur c 61.0 28 0.0006 34.0 6.8 63 1-76 1-63 (326)
170 KOG1071 Mitochondrial translat 60.9 14 0.00031 35.7 4.8 39 153-194 46-85 (340)
171 PF02017 CIDE-N: CIDE-N domain 59.9 36 0.00077 26.2 5.9 65 3-76 5-72 (78)
172 PF14533 USP7_C2: Ubiquitin-sp 59.7 41 0.00089 30.5 7.5 48 12-62 35-90 (213)
173 PF12616 DUF3775: Protein of u 59.7 14 0.0003 28.2 3.7 40 155-194 19-59 (75)
174 COG1308 EGD2 Transcription fac 59.5 19 0.00042 29.9 4.7 34 293-326 86-120 (122)
175 KOG2507 Ubiquitin regulatory p 59.3 20 0.00043 36.1 5.5 73 2-77 316-393 (506)
176 PF11547 E3_UbLigase_EDD: E3 u 58.8 35 0.00075 23.8 5.0 38 154-194 10-49 (53)
177 KOG3391 Transcriptional co-rep 57.2 13 0.00028 31.6 3.3 31 51-81 112-142 (151)
178 cd06411 PB1_p51 The PB1 domain 57.2 25 0.00054 27.1 4.6 36 12-50 8-43 (78)
179 cd06398 PB1_Joka2 The PB1 doma 55.5 63 0.0014 25.4 6.9 69 3-75 3-87 (91)
180 PF06972 DUF1296: Protein of u 55.5 36 0.00079 24.7 4.9 38 292-329 6-45 (60)
181 cd01764 Urm1 Urm1-like ubuitin 55.4 47 0.001 26.2 6.2 54 15-73 23-88 (94)
182 PF11372 DUF3173: Domain of un 54.8 14 0.0003 26.9 2.8 20 296-315 7-26 (59)
183 PRK11130 moaD molybdopterin sy 54.7 79 0.0017 23.8 7.2 49 20-73 25-75 (81)
184 PF08825 E2_bind: E2 binding d 54.3 16 0.00035 28.4 3.3 58 15-73 1-69 (84)
185 PF07223 DUF1421: Protein of u 53.9 13 0.00029 36.6 3.4 25 151-178 319-343 (358)
186 PF13556 HTH_30: PucR C-termin 53.7 15 0.00033 26.1 2.9 23 307-329 3-25 (59)
187 PF10407 Cytokin_check_N: Cdc1 53.6 43 0.00093 25.4 5.4 63 11-76 3-71 (73)
188 PRK13901 ruvA Holliday junctio 53.5 16 0.00035 33.0 3.7 28 292-319 145-172 (196)
189 PF09145 Ubiq-assoc: Ubiquitin 52.7 10 0.00022 25.9 1.6 21 294-314 9-29 (46)
190 PF02961 BAF: Barrier to autoi 52.3 27 0.00059 27.5 4.2 37 292-328 29-66 (89)
191 PF02954 HTH_8: Bacterial regu 51.8 14 0.0003 24.5 2.3 27 168-196 5-31 (42)
192 PF12053 DUF3534: Domain of un 51.2 1E+02 0.0022 26.5 8.0 74 1-76 1-81 (145)
193 TIGR00084 ruvA Holliday juncti 50.6 29 0.00063 31.1 4.8 27 152-181 146-172 (191)
194 cd01775 CYR1_RA Ubiquitin doma 50.6 68 0.0015 25.7 6.3 70 3-75 5-87 (97)
195 KOG1364 Predicted ubiquitin re 49.6 20 0.00043 35.1 3.7 66 2-69 279-349 (356)
196 PF10152 DUF2360: Predicted co 48.8 1.3E+02 0.0029 25.7 8.5 33 149-185 112-144 (148)
197 cd06410 PB1_UP2 Uncharacterize 47.4 71 0.0015 25.5 6.1 39 5-47 17-55 (97)
198 cd01611 GABARAP Ubiquitin doma 47.1 1.1E+02 0.0024 25.0 7.4 59 15-76 45-107 (112)
199 PRK14606 ruvA Holliday junctio 46.4 20 0.00044 32.1 3.1 26 292-317 144-169 (188)
200 TIGR00084 ruvA Holliday juncti 46.4 35 0.00077 30.5 4.7 26 292-317 148-173 (191)
201 smart00266 CAD Domains present 46.2 71 0.0015 24.3 5.6 50 20-75 18-69 (74)
202 PF00794 PI3K_rbd: PI3-kinase 46.0 76 0.0016 25.2 6.2 75 2-76 18-103 (106)
203 cd01768 RA RA (Ras-associating 43.7 1.4E+02 0.003 22.4 8.7 50 10-60 12-68 (87)
204 KOG1796 Vacuolar protein sorti 43.4 8.8 0.00019 39.3 0.4 34 297-330 382-415 (609)
205 PF02824 TGS: TGS domain; Int 43.0 76 0.0016 22.6 5.2 59 3-73 1-59 (60)
206 PF07462 MSP1_C: Merozoite sur 42.6 59 0.0013 33.8 6.0 6 25-30 225-230 (574)
207 PRK14600 ruvA Holliday junctio 42.0 27 0.00059 31.2 3.2 26 292-317 146-171 (186)
208 PF07223 DUF1421: Protein of u 41.9 24 0.00052 34.8 3.1 21 293-313 323-343 (358)
209 PF11372 DUF3173: Domain of un 41.6 32 0.00069 25.0 2.9 22 157-181 6-27 (59)
210 PRK14605 ruvA Holliday junctio 41.2 33 0.00071 30.8 3.7 27 291-317 148-174 (194)
211 PRK14604 ruvA Holliday junctio 40.8 32 0.00069 31.0 3.5 26 292-317 150-175 (195)
212 COG1308 EGD2 Transcription fac 40.6 61 0.0013 27.0 4.8 35 154-191 85-120 (122)
213 PRK14604 ruvA Holliday junctio 40.4 55 0.0012 29.5 5.0 25 153-180 149-173 (195)
214 PRK01777 hypothetical protein; 40.3 1.8E+02 0.004 23.0 7.4 62 1-74 4-75 (95)
215 PF12436 USP7_ICP0_bdg: ICP0-b 39.8 34 0.00074 31.8 3.7 58 15-75 89-152 (249)
216 KOG0559 Dihydrolipoamide succi 39.6 81 0.0017 31.3 6.2 59 12-72 72-139 (457)
217 PRK14602 ruvA Holliday junctio 39.5 34 0.00074 30.9 3.5 25 292-316 156-180 (203)
218 PRK14601 ruvA Holliday junctio 39.0 35 0.00077 30.4 3.5 25 292-316 143-167 (183)
219 cd01615 CIDE_N CIDE_N domain, 38.8 98 0.0021 23.8 5.4 50 20-75 20-71 (78)
220 PF10440 WIYLD: Ubiquitin-bind 38.5 44 0.00096 24.8 3.3 22 291-312 11-32 (65)
221 COG4008 Predicted metal-bindin 38.3 81 0.0018 26.5 5.2 37 153-193 114-150 (153)
222 COG0632 RuvA Holliday junction 37.8 33 0.00071 31.2 3.1 30 289-318 154-183 (201)
223 PRK14603 ruvA Holliday junctio 37.3 90 0.002 28.1 5.9 26 152-180 151-176 (197)
224 PRK13901 ruvA Holliday junctio 37.2 50 0.0011 29.8 4.2 27 152-181 143-169 (196)
225 PRK14602 ruvA Holliday junctio 37.0 87 0.0019 28.3 5.7 26 152-180 154-179 (203)
226 PRK14606 ruvA Holliday junctio 36.0 83 0.0018 28.1 5.4 27 152-181 142-168 (188)
227 PF14847 Ras_bdg_2: Ras-bindin 35.8 1.2E+02 0.0025 24.6 5.7 45 3-50 3-50 (105)
228 PTZ00380 microtubule-associate 35.6 82 0.0018 26.3 4.9 58 15-75 45-105 (121)
229 PLN02983 biotin carboxyl carri 35.4 1.2E+02 0.0026 28.9 6.4 28 53-81 115-142 (274)
230 PF02505 MCR_D: Methyl-coenzym 34.8 77 0.0017 27.5 4.7 47 13-67 77-124 (153)
231 PRK08769 DNA polymerase III su 34.5 83 0.0018 30.5 5.5 41 151-194 172-212 (319)
232 PF00276 Ribosomal_L23: Riboso 34.4 84 0.0018 24.6 4.6 40 11-53 21-61 (91)
233 PRK14600 ruvA Holliday junctio 33.9 1E+02 0.0022 27.6 5.6 27 152-181 144-170 (186)
234 cd01817 RGS12_RBD Ubiquitin do 33.2 1.5E+02 0.0033 22.5 5.5 43 5-50 4-46 (73)
235 TIGR03260 met_CoM_red_D methyl 33.2 84 0.0018 27.1 4.6 43 13-62 76-118 (150)
236 KOG4248 Ubiquitin-like protein 32.8 27 0.00058 38.9 2.0 68 7-77 331-398 (1143)
237 cd01612 APG12_C Ubiquitin-like 32.3 2.4E+02 0.0052 21.9 8.1 59 14-75 19-81 (87)
238 PRK14603 ruvA Holliday junctio 32.1 51 0.0011 29.7 3.4 25 292-316 153-177 (197)
239 PRK05738 rplW 50S ribosomal pr 31.9 1.2E+02 0.0025 23.9 5.0 40 10-52 20-60 (92)
240 KOG3439 Protein conjugation fa 31.7 1.4E+02 0.003 24.6 5.4 39 12-53 46-84 (116)
241 KOG4146 Ubiquitin-like protein 31.3 2.7E+02 0.0059 22.2 8.2 54 19-76 34-98 (101)
242 PRK14601 ruvA Holliday junctio 30.3 63 0.0014 28.8 3.6 26 152-180 141-166 (183)
243 PF12436 USP7_ICP0_bdg: ICP0-b 29.9 1E+02 0.0022 28.6 5.2 43 2-47 178-223 (249)
244 PF08783 DWNN: DWNN domain; I 29.4 1.5E+02 0.0032 22.5 5.0 32 4-35 2-35 (74)
245 cd06397 PB1_UP1 Uncharacterize 28.7 2.1E+02 0.0045 22.2 5.7 44 2-49 2-45 (82)
246 TIGR01446 DnaD_dom DnaD and ph 28.7 77 0.0017 23.2 3.4 32 286-317 12-44 (73)
247 PF04126 Cyclophil_like: Cyclo 28.6 36 0.00078 28.1 1.7 29 1-30 1-29 (120)
248 PF13936 HTH_38: Helix-turn-he 28.6 39 0.00085 22.6 1.6 25 286-310 4-28 (44)
249 cd06539 CIDE_N_A CIDE_N domain 28.3 1.7E+02 0.0037 22.5 5.1 48 21-73 21-70 (78)
250 PF03931 Skp1_POZ: Skp1 family 28.2 42 0.0009 24.1 1.8 32 1-32 1-32 (62)
251 KOG4598 Putative ubiquitin-spe 28.2 99 0.0022 33.4 5.0 59 12-75 878-942 (1203)
252 PF09138 Urm1: Urm1 (Ubiquitin 28.0 42 0.0009 26.8 1.9 61 11-76 18-93 (96)
253 PF06234 TmoB: Toluene-4-monoo 27.6 2.4E+02 0.0052 22.1 5.9 61 13-74 17-83 (85)
254 PF15652 Tox-SHH: HNH/Endo VII 27.2 86 0.0019 25.2 3.5 29 150-181 68-96 (100)
255 COG3760 Uncharacterized conser 27.0 1.1E+02 0.0025 26.5 4.4 59 2-73 47-105 (164)
256 PLN03196 MOC1-like protein; Pr 26.6 3.1E+02 0.0067 28.2 8.4 24 292-315 269-292 (487)
257 PRK07993 DNA polymerase III su 26.5 1.4E+02 0.0029 29.2 5.5 39 152-193 168-207 (334)
258 PF07261 DnaB_2: Replication i 25.7 20 0.00044 26.4 -0.3 41 286-326 12-53 (77)
259 PF02192 PI3K_p85B: PI3-kinase 24.2 88 0.0019 24.0 3.0 23 13-35 2-24 (78)
260 cd06536 CIDE_N_ICAD CIDE_N dom 24.1 1.9E+02 0.0042 22.3 4.8 50 20-75 20-73 (80)
261 COG4738 Predicted transcriptio 23.9 1.1E+02 0.0023 25.4 3.5 35 285-319 7-41 (124)
262 PF02991 Atg8: Autophagy prote 23.7 1.8E+02 0.0039 23.5 4.8 56 17-75 39-98 (104)
263 KOG0514 Ankyrin repeat protein 23.7 71 0.0015 31.8 2.9 33 288-320 316-367 (452)
264 PRK00116 ruvA Holliday junctio 23.6 82 0.0018 28.1 3.2 27 291-317 149-175 (192)
265 PRK01905 DNA-binding protein F 23.4 1.1E+02 0.0024 22.9 3.4 24 303-326 37-60 (77)
266 PF09469 Cobl: Cordon-bleu ubi 23.0 79 0.0017 24.3 2.4 42 29-76 2-46 (79)
267 PF03671 Ufm1: Ubiquitin fold 22.7 3.1E+02 0.0068 20.8 5.5 58 13-73 18-76 (76)
268 COG0089 RplW Ribosomal protein 22.7 1.9E+02 0.004 23.1 4.6 39 10-51 21-60 (94)
269 PF14490 HHH_4: Helix-hairpin- 22.7 1.6E+02 0.0034 22.9 4.3 40 290-332 7-46 (94)
270 cd06538 CIDE_N_FSP27 CIDE_N do 22.6 2.3E+02 0.0049 21.9 4.9 50 20-75 20-70 (79)
271 PF06135 DUF965: Bacterial pro 22.6 76 0.0016 24.4 2.3 24 173-196 24-48 (79)
272 PF07929 PRiA4_ORF3: Plasmid p 22.4 2.5E+02 0.0053 24.4 5.9 29 13-44 20-48 (179)
273 smart00314 RA Ras association 22.3 3.5E+02 0.0075 20.4 6.4 47 10-59 15-69 (90)
274 PF14788 EF-hand_10: EF hand; 22.2 73 0.0016 22.5 2.0 30 290-319 5-34 (51)
275 KOG2500 Uncharacterized conser 22.2 5E+02 0.011 24.2 7.8 16 60-75 148-163 (253)
276 PRK05473 hypothetical protein; 22.1 95 0.0021 24.3 2.8 25 172-196 26-51 (86)
277 PF08587 UBA_2: Ubiquitin asso 22.1 30 0.00065 23.9 0.0 22 155-179 4-26 (46)
278 PF11834 DUF3354: Domain of un 22.0 1.2E+02 0.0026 22.7 3.3 44 21-73 26-69 (69)
279 PF14533 USP7_C2: Ubiquitin-sp 22.0 75 0.0016 28.8 2.6 51 10-63 132-194 (213)
280 cd01818 TIAM1_RBD Ubiquitin do 21.9 3E+02 0.0065 21.1 5.3 40 4-46 3-42 (77)
281 TIGR03636 L23_arch archaeal ri 21.8 2E+02 0.0042 22.0 4.5 34 10-46 14-47 (77)
282 KOG4572 Predicted DNA-binding 20.9 1.4E+02 0.003 32.8 4.6 62 9-73 3-68 (1424)
283 PRK00430 fis global DNA-bindin 20.9 84 0.0018 24.9 2.4 24 303-326 55-78 (95)
284 KOG4147 Uncharacterized conser 20.8 2.4E+02 0.0053 23.1 5.0 59 16-74 28-112 (127)
285 smart00143 PI3K_p85B PI3-kinas 20.8 1.2E+02 0.0025 23.4 3.0 23 13-35 2-24 (78)
286 PF09278 MerR-DNA-bind: MerR, 20.7 1.2E+02 0.0027 21.4 3.1 21 293-313 5-25 (65)
287 cd01777 SNX27_RA Ubiquitin dom 20.4 2.1E+02 0.0045 22.5 4.4 41 2-45 3-43 (87)
288 COG0632 RuvA Holliday junction 20.3 1.3E+02 0.0027 27.4 3.6 26 153-181 156-181 (201)
289 PF03474 DMA: DMRTA motif; In 20.3 2E+02 0.0044 19.1 3.7 33 295-327 5-39 (39)
290 PRK14605 ruvA Holliday junctio 20.2 2.4E+02 0.0053 25.2 5.5 27 152-181 147-173 (194)
291 smart00804 TAP_C C-terminal do 20.1 3.4E+02 0.0074 19.8 5.3 43 153-198 12-60 (63)
No 1
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=6.3e-65 Score=494.48 Aligned_cols=316 Identities=43% Similarity=0.680 Sum_probs=207.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~~~ 80 (335)
|+|+||+++|++|.|+|++++||.+||++|+...|++.+++++|||||+||+|+|+++|++|+|+++++|+||+++++..
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 99999999999999999999999999999999987445899999999999999999999999999999999999987764
Q ss_pred CCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----CCCCcc-ccccCCCCCcccccccccCCCCcHH
Q 019817 81 GSAGASSAQPA-HTTPPTTAPSSNSTPPQEASVPPPAPTPSIPA----SNVTSN-VTAANANSDTYGQAASNLVAGNDLE 154 (335)
Q Consensus 81 ~~~~~~~~~~~-~~~~p~~~~~~~~~~~~~p~~~~~~~~~~~~p----~~~~~~-~~~~~~~~~~~~~~~s~~~~~~~~~ 154 (335)
+++.+++...+ +++.+.+ .++. +++.++.++++...+...| ..++.. +.+++. ......+.++|++|++++
T Consensus 81 ~~~~~~~~~~~~~~p~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~s~l~~g~~~e 157 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTP-SPPA-SPASGMSAAPASAVEEKSPSEESATATAPESPSTSV-PSSGSDAASTLVVGSERE 157 (378)
T ss_pred CCCCCCCCCCCCCCCCCCC-CCCC-CCCCCCCCCCCCCCccccccCCCCCCCCCCCCCccc-cccCCCcccccccchHHH
Confidence 32221111011 1111110 0000 0111110000000000000 000110 001110 010114578999999999
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhCCCCcccccCCCCCCCCcchhhcccCCCCCCCCCCCCCCCC
Q 019817 155 QTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSPLN 234 (335)
Q Consensus 155 ~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~giP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (335)
++|++||+|| |+|++|++|||++|||||||||||++|||++.....+..+ +... . . ....+....+ |
T Consensus 158 ~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~~~~----~~~~-~---~-~~~~~~~~~~-~ 224 (378)
T TIGR00601 158 TTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEPVQQ----TAAS-T---A-AATTETPQHG-S 224 (378)
T ss_pred HHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCccccccccCCC----cccc-c---c-cccCCCCCCc-c
Confidence 9999999999 9999999999999999999999999999987542111110 0000 0 0 0111122223 7
Q ss_pred CcchhcccCCC------CCCCCcHHHhhcchh------------------------------------------hhcCCC
Q 019817 235 MFPQETLSGAP------AGGLGSLDFLRNNQQ------------------------------------------LINEPV 266 (335)
Q Consensus 235 ~~~~~~~~~~~------~~~~~~l~~lr~np~------------------------------------------~~~e~~ 266 (335)
||+++...... ..+.+.|+|||+||+ ||+++.
T Consensus 225 lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~ 304 (378)
T TIGR00601 225 VFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEPV 304 (378)
T ss_pred hhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcc
Confidence 88877543210 013346777777776 556653
Q ss_pred CC--CCCCCC---CCCCC-CCCc--cccCCcccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhccCCC
Q 019817 267 DG--SEGDMF---DQPEQ-DMPH--AINVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 267 ~~--~~~~~~---~~~~~-~~~~--~~~lt~ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~~~d 332 (335)
.. +.+++. ++..+ ..++ .|+||+||+++|+|||+|||+|++|||||||||||||+||||||++.+|
T Consensus 305 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~~~ 378 (378)
T TIGR00601 305 GELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQNFD 378 (378)
T ss_pred cccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhcCC
Confidence 21 122222 11111 1122 6899999999999999999999999999999999999999999999775
No 2
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=6e-65 Score=473.42 Aligned_cols=297 Identities=52% Similarity=0.796 Sum_probs=221.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~~~ 80 (335)
|+|+||+++|.+|+|+|.+++||.++|++|+...|.+ +|++.|||||+||+|+|+++|.+|+|+++++|+||++|+|..
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 8999999999999999999999999999999999977 999999999999999999999999999999999999988731
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCCCCcccccccccCCCCcHHHHHHHH
Q 019817 81 GSAGASSAQPAHTTPPTTAPSSNSTPPQEASVPPPAPTPSIPASNVTSNVTAANANSDTYGQAASNLVAGNDLEQTIQQI 160 (335)
Q Consensus 81 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~p~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~v~~l 160 (335)
.+.. .+.+. +. ...|...++|..+. +....|.. .+.......++.+.+.|++|++++.+|.+|
T Consensus 80 ~t~~----ap~s~--~~-----~~~p~~~~ap~~s~-a~~~s~~~-----~~~~~~~~~~~~aas~Lv~G~~~e~~V~~I 142 (340)
T KOG0011|consen 80 STQV----APQSS--AA-----THLPKAAEAPPSSA-AEDASPAT-----PAQTSQEDTYEIAASTLVVGSEYEQTVQQI 142 (340)
T ss_pred ccCC----CCCCc--cc-----cCCCccCCCCCccc-cccCCCCc-----cccccccchhhhhhhhhhccchhHHHHHHH
Confidence 1111 00000 00 00011111100000 00000100 000122344667889999999999999999
Q ss_pred HHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhCCCCcccccCCCCCCCCcchhhcccCCCCCCCCCCCCCCCCCcchhc
Q 019817 161 MDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSPLNMFPQET 240 (335)
Q Consensus 161 ~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~giP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (335)
|+|| |+|++|++|||++||||||||+||++|||+....+.+.....+... .+ .+..++++|++..
T Consensus 143 m~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~~~~---------~p---~~~~p~~~~~~~~ 207 (340)
T KOG0011|consen 143 MEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAAAAE---------LP---ANAQPLDLFPQGA 207 (340)
T ss_pred HHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCcccCCC---------CC---CCCChhhcCCccc
Confidence 9999 9999999999999999999999999999997655443321000000 00 1445667777654
Q ss_pred ccCCCCCCCCcHHHhhcchh------------------------------------------hhcCCCCCCCCCCCCCCC
Q 019817 241 LSGAPAGGLGSLDFLRNNQQ------------------------------------------LINEPVDGSEGDMFDQPE 278 (335)
Q Consensus 241 ~~~~~~~~~~~l~~lr~np~------------------------------------------~~~e~~~~~~~~~~~~~~ 278 (335)
.... +.++|+|||++|| |||||.+|++++..+...
T Consensus 208 ~~~~---~~~~l~fLr~~~qf~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~~~~~~~~~~~~~ 284 (340)
T KOG0011|consen 208 VEAS---GGDPLEFLRNQPQFQQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQENQEAFLQLLNEPVEGGDGGGTGAPA 284 (340)
T ss_pred hhhh---cCCchhhhhccHHHHHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHhhccccccccccccccc
Confidence 4332 2356677666655 889999887776666665
Q ss_pred CCCC-ccccCCcccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhccCCCC
Q 019817 279 QDMP-HAINVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLENAGDF 333 (335)
Q Consensus 279 ~~~~-~~~~lt~ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~~~d~ 333 (335)
..++ +.|++|+||++||+|||+|||+|..|||||||||||||+||||||+|++|+
T Consensus 285 ~~~~~~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~f~d 340 (340)
T KOG0011|consen 285 AEGPGHQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHSFED 340 (340)
T ss_pred ccCCcceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhccCC
Confidence 5555 789999999999999999999999999999999999999999999998543
No 3
>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=99.76 E-value=2.9e-18 Score=130.60 Aligned_cols=73 Identities=30% Similarity=0.449 Sum_probs=71.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
|+|+||+.+|+++.++|++++||.+||++|++..| +++++|||+|+||.|+|+.+|++|||+++++|||+++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~g---i~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLN---VPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 89999999999999999999999999999999999 99999999999999999999999999999999999873
No 4
>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=2.1e-17 Score=126.39 Aligned_cols=75 Identities=53% Similarity=0.774 Sum_probs=72.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNY--PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~i--p~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~ 78 (335)
|+|+||+.+|+.+.++|++++||.+||++|+...| + ++++|||+|+|+.|+|+.+|++|||++|++|++++++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~---i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~~ 77 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG---CDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKPK 77 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 8 999999999999999999999999999999999998763
No 5
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=99.73 E-value=1.5e-17 Score=128.11 Aligned_cols=74 Identities=20% Similarity=0.320 Sum_probs=70.5
Q ss_pred CEEEEEeCCCCE-EEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSH-FEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~-~~i~-V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||+.+|++ +.++ +++++||.+||++|++..| +|++.|||+|+||+|+|+.+|++|||++|++|+|+++..
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 999999999999999999999999999999999999854
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=99.72 E-value=2.9e-17 Score=124.98 Aligned_cols=70 Identities=20% Similarity=0.291 Sum_probs=68.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
|+|+||++.|+.+.++|++++||.+||++|++..| +++++|||+|+|++|+|+++|++|||++|++|||.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY 71 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence 78999999999999999999999999999999999 99999999999999999999999999999999986
No 7
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.71 E-value=5.6e-17 Score=123.53 Aligned_cols=73 Identities=26% Similarity=0.317 Sum_probs=69.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~ 78 (335)
|+|+||+ ++++.++|++++||.+||.+|++..| +|++.|||+|+||.|+|+++|++|+|+++++||++++.+.
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 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEG---IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLG 73 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhC---CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence 8999998 47899999999999999999999999 9999999999999999999999999999999999998653
No 8
>PTZ00044 ubiquitin; Provisional
Probab=99.70 E-value=7.7e-17 Score=123.01 Aligned_cols=74 Identities=30% Similarity=0.451 Sum_probs=71.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||+.+|+++.++|++++||.+||.+|+...| +|++.|||+|+|+.|+|+.+|++|+|+++++|||+++.+
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~ 74 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG---IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998854
No 9
>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=1.2e-16 Score=122.98 Aligned_cols=72 Identities=25% Similarity=0.414 Sum_probs=69.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
|+|+||+..|+.+.++|+++.||.+||++|++..| +++++|||+|+||+|+|+ +|++|||++|++|+|+...
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~---~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK---VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC---CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence 89999999999999999999999999999999999 999999999999999998 9999999999999999765
No 10
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.68 E-value=1.4e-16 Score=129.10 Aligned_cols=74 Identities=42% Similarity=0.623 Sum_probs=71.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||++.|+.+.++|++++||.+||++|++..| ++++.|||+|+||.|+|+++|++|+|+++++||++++.+
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g---ip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~ 101 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEG---IPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMR 101 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecC
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998864
No 11
>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=99.68 E-value=2.3e-16 Score=119.91 Aligned_cols=74 Identities=38% Similarity=0.583 Sum_probs=71.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||+.+|+.+.++|+++.||.+||++|+...| +|++.|||+|+|+.|.|+++|++|+|++|++|||+++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~ 74 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998754
No 12
>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=122.79 Aligned_cols=74 Identities=27% Similarity=0.403 Sum_probs=71.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL--i~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||++.|+.+.++|+++.||.+||++|+...| +++++||| +|+|++|+|+++|++|||++|++|+|++++-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~---i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG---VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC---CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 78999999999999999999999999999999999 99999999 9999999999999999999999999999853
No 13
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.67 E-value=3.1e-16 Score=119.19 Aligned_cols=74 Identities=41% Similarity=0.599 Sum_probs=71.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+|+||+.+|+.+.++|++++||.+||++|+..+| +|++.|+|+|+|+.|+|+.+|++|||++|++|||+++..
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~ 74 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998854
No 14
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.67 E-value=3.6e-16 Score=117.64 Aligned_cols=72 Identities=33% Similarity=0.498 Sum_probs=69.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
|+|+||+.+|+.+.+++++++||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG---IPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---cCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999864
No 15
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.66 E-value=3.2e-16 Score=119.32 Aligned_cols=72 Identities=21% Similarity=0.261 Sum_probs=69.3
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+||++.|+++.++|++++||.+||++|+...| +|+++|+|+|+||.|+|+++|++|||+++++|+++++..
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 999999999999999999999999999999999998754
No 16
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.66 E-value=2.6e-16 Score=118.80 Aligned_cols=69 Identities=29% Similarity=0.436 Sum_probs=66.7
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
++||..+|+.+.++|++++||.+||.+|++..| +|++.|||+|+|+.|+|+.+|++|+|+++++|||++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 468999999999999999999999999999999 999999999999999999999999999999999987
No 17
>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=3.2e-16 Score=117.97 Aligned_cols=70 Identities=26% Similarity=0.437 Sum_probs=67.6
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
|+||++.|+.+.++|++++||.+||++|+++.| +++++|+|+|+|+.|+|+.+|++|||++|++|||+.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---i~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQG---VPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHC---CCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999864
No 18
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.65 E-value=7.8e-16 Score=116.22 Aligned_cols=71 Identities=28% Similarity=0.363 Sum_probs=67.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
|+|+||+..|+ +.++|++++||.+||++|++..| ++.++|||+|+||+|.|+++|++|||++|++|||+++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~---i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK---ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC---CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 58999999999999999999999 9999999999999999999999999999999999874
No 19
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=99.64 E-value=5.5e-16 Score=119.19 Aligned_cols=73 Identities=22% Similarity=0.160 Sum_probs=64.6
Q ss_pred CEEEEEeCCCCE--EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcC--CCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSH--FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNK--VSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~--~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~g--I~~g~~I~vv~ 74 (335)
|.|+||+.++++ |.+++++++||.+||++|+...+ ...++++|||||+||+|+|+.+|++|+ ++++.+||||.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~-~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYP-SKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcC-CCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 579999999999 45556899999999999999874 225689999999999999999999996 99999999986
No 20
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.63 E-value=1.2e-15 Score=114.02 Aligned_cols=69 Identities=38% Similarity=0.595 Sum_probs=66.0
Q ss_pred EeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 6 kt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|+++|+.|.++|++++||.+||++|+...| +|++.|+|+|+|+.|+|+.+|++|||++|++|+|+++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~---~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETG---IPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHT---STGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccc---cccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 688999999999999999999999999999 999999999999999999999999999999999998753
No 21
>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=3.1e-15 Score=114.11 Aligned_cols=70 Identities=23% Similarity=0.367 Sum_probs=66.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~---~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+|| ++|+.|.|+|++++||.+||++|++.+| +|+++|||+| +|+.|+|+.+|++|+|++|++|+||.
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tg---vp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTG---VLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHC---CCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 689999 7899999999999999999999999999 9999999996 99999999999999999999999985
No 22
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.58 E-value=6e-15 Score=111.54 Aligned_cols=67 Identities=33% Similarity=0.415 Sum_probs=64.0
Q ss_pred EEEEeC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CchhhcCCCCCCEEEE
Q 019817 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDE-TTLADNKVSEDGFLVV 72 (335)
Q Consensus 3 I~Vkt~-~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~-~tL~d~gI~~g~~I~v 72 (335)
|+||+. +|+++.++|+++.||.+||.+|+...| +|++.|||+|+||.|+|+ .+|++|||++|++||+
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence 689999 999999999999999999999999999 999999999999999887 6899999999999987
No 23
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.57 E-value=1e-14 Score=109.54 Aligned_cols=70 Identities=24% Similarity=0.325 Sum_probs=66.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+||+. |+.+.++|++++||.+||++|+..+| +++++|||+|+|+.|.|+++|++|||++|++|+|+.
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 99999999999999999999999999 999999999999999999999999999999999974
No 24
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=5.6e-15 Score=105.33 Aligned_cols=70 Identities=36% Similarity=0.554 Sum_probs=68.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
|.|+||++.|+.+.|++++.++|..+|++|+++.| +|+.+|||||.||.+.|+++-.+|++.-|++||++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeG---IPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcC---CCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 88999999999999999999999999999999999 99999999999999999999999999999999974
No 25
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.54 E-value=2.3e-14 Score=109.68 Aligned_cols=68 Identities=28% Similarity=0.435 Sum_probs=64.8
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCC
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~ 78 (335)
++|+++.|+|++++||.+||.+|+..+| +|++.|+|+|+|+.|+|+++|++|+|++|++|||+++.+.
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 9999999999999999999999999999999999998654
No 26
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.50 E-value=7e-14 Score=137.79 Aligned_cols=77 Identities=27% Similarity=0.440 Sum_probs=71.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~~~ 80 (335)
++|+||+.++ ++.|.|..+.||.+||+.|...++ +++++++|||.||+|+|+.||..|||++|.+||||++....+
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 4799999988 899999999999999999999998 999999999999999999999999999999999998765544
Q ss_pred C
Q 019817 81 G 81 (335)
Q Consensus 81 ~ 81 (335)
.
T Consensus 92 ~ 92 (493)
T KOG0010|consen 92 T 92 (493)
T ss_pred C
Confidence 3
No 27
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=5.6e-14 Score=142.03 Aligned_cols=105 Identities=23% Similarity=0.378 Sum_probs=81.3
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhcC-CHHHHHHHHHhCCCCcccccCCCCCCCCcchhhcccCCCCCCCCCCCCC
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYN-NPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSS 231 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~-~~~~A~~~L~~giP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (335)
.+..|.+|++|| |+++.|+|||..+.| +.+.|+|||+.||.+..- ++
T Consensus 571 d~s~i~qL~~MG---Fp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~-----------------------------~~ 618 (763)
T KOG0944|consen 571 DRSVISQLVEMG---FPEEACRRALYYTGNSGAEAASNWLMEHMDDPDI-----------------------------DD 618 (763)
T ss_pred hHHHHHHHHHcC---CCHHHHHHHHhhhcCccHHHHHHHHHHhccCccc-----------------------------CC
Confidence 567899999999 999999999999955 789999999999876521 11
Q ss_pred CCCCcchhcccCCCCCCCCcHHHhhcchhhhcCCCCCCCCCCCCCCCCCCCccccCCcccHHHHHHHHHCCCChHHHHHH
Q 019817 232 PLNMFPQETLSGAPAGGLGSLDFLRNNQQLINEPVDGSEGDMFDQPEQDMPHAINVTPAEQEAIQRLEAMGFDRALVIEA 311 (335)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~l~~lr~np~~~~e~~~~~~~~~~~~~~~~~~~~~~lt~ee~~aI~rL~~lGF~~~~~i~A 311 (335)
|+.+-+ +... .+ . .+-+.+.+..|++|||++.+||+|
T Consensus 619 p~vvp~----~~~~------------------------a~-------~--------~~~~e~~v~si~smGf~~~qa~~a 655 (763)
T KOG0944|consen 619 PFVVPG----NSPK------------------------AD-------A--------REVDEESVASIVSMGFSRNQAIKA 655 (763)
T ss_pred ceecCC----CCCc------------------------cc-------c--------CCCChhHheeeeeecCcHHHHHHH
Confidence 111100 0000 00 0 124567788999999999999999
Q ss_pred HHHhCCCHHHHHHHHhccCCC
Q 019817 312 FLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 312 y~acdknee~Aan~Lf~~~~d 332 (335)
+++.++|.|+|.+|+|+|+++
T Consensus 656 L~~~n~nveravDWif~h~d~ 676 (763)
T KOG0944|consen 656 LKATNNNVERAVDWIFSHMDI 676 (763)
T ss_pred HHhcCccHHHHHHHHHhcccc
Confidence 999999999999999999983
No 28
>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=99.45 E-value=5.6e-13 Score=104.73 Aligned_cols=74 Identities=19% Similarity=0.312 Sum_probs=71.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
|.|+|++.+|+.+.+.|.+++||..||.+++++.| ++++.|||+|.|+.|.++.|+.+|+|++|++|+|+++..
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~ 85 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQG---LSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQT 85 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhC---CCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecc
Confidence 67999999999999999999999999999999999 999999999999999999999999999999999998765
No 29
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.44 E-value=4.1e-13 Score=98.04 Aligned_cols=64 Identities=45% Similarity=0.703 Sum_probs=61.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDG 68 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~ 68 (335)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| +++++|+|+|+|+.|.|+.+|++|||++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~---~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTG---IPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHC---CCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 899999998 7899999999999999999999999 999999999999999999999999999875
No 30
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.41 E-value=3e-14 Score=113.29 Aligned_cols=76 Identities=41% Similarity=0.575 Sum_probs=72.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKT 79 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~~ 79 (335)
|.++|+++.|++++++|++++||..||.+|....| +|++.|+|+|+||+|+|..||++|||+..++||++.+....
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 78899999999999999999999999999999999 99999999999999999999999999999999999887654
No 31
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.39 E-value=3.2e-13 Score=114.70 Aligned_cols=81 Identities=35% Similarity=0.483 Sum_probs=75.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCCCC
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~~~ 80 (335)
|+|+|+++.++++.++|..++||..+|.+|++..| ||+++|||||.|+.|+|.++|+||+|+..++||++++.....
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg---Ip~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA 77 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC---CCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999999977655
Q ss_pred CCCC
Q 019817 81 GSAG 84 (335)
Q Consensus 81 ~~~~ 84 (335)
....
T Consensus 78 kkrk 81 (156)
T KOG0004|consen 78 KKRK 81 (156)
T ss_pred cccc
Confidence 4433
No 32
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.38 E-value=6.1e-13 Score=101.09 Aligned_cols=55 Identities=22% Similarity=0.183 Sum_probs=49.0
Q ss_pred CCCcHHHHHHHHHHHhCCCCC-CCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 19 PSDTVMAVKKNIEDVQGKDNY-PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 19 ~~~TV~dLK~~I~~~~g~~~i-p~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||++|++|||+.
T Consensus 19 ~~~TV~~LK~kI~~~~~eg-i~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDS-LPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccC-CCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 4689999999999996311 5 58999999999999999999999999999999985
No 33
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=99.36 E-value=1.6e-12 Score=105.44 Aligned_cols=78 Identities=19% Similarity=0.258 Sum_probs=64.5
Q ss_pred EEEEEeCCCCEE-EEEeCCCCcHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCchhhcC------CCCCCEE
Q 019817 2 KLTVKTLKGSHF-EIRVQPSDTVMAVKKNIEDVQGK--DNYP--CGQQLLIHNGKVLKDETTLADNK------VSEDGFL 70 (335)
Q Consensus 2 ~I~Vkt~~g~~~-~i~V~~~~TV~dLK~~I~~~~g~--~~ip--~~~qrLi~~Gk~L~D~~tL~d~g------I~~g~~I 70 (335)
.|+||..+|..+ .+.+.+++||.+||++|+...+. ..+| +++|||||+||+|+|++||++|+ +....++
T Consensus 6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm 85 (113)
T cd01814 6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM 85 (113)
T ss_pred EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence 578888888654 56788999999999999977642 1144 99999999999999999999999 7777899
Q ss_pred EEEeecCCC
Q 019817 71 VVMLSKSKT 79 (335)
Q Consensus 71 ~vv~~~~~~ 79 (335)
||+++.+..
T Consensus 86 Hvvlr~~~~ 94 (113)
T cd01814 86 HVVVQPPLA 94 (113)
T ss_pred EEEecCCCC
Confidence 999986543
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=99.30 E-value=1.1e-11 Score=91.74 Aligned_cols=68 Identities=46% Similarity=0.665 Sum_probs=64.5
Q ss_pred EEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 4 ~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
+||..+|+.+.+.+.++.||.+||++|+..+| +++++|+|+|+|+.|+|+.+|.+|+|++++.|+++.
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=99.29 E-value=1e-11 Score=94.90 Aligned_cols=65 Identities=20% Similarity=0.220 Sum_probs=59.2
Q ss_pred EeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCchhhcCCC-CCCEEEEEe
Q 019817 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLK-DETTLADNKVS-EDGFLVVML 74 (335)
Q Consensus 6 kt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~-D~~tL~d~gI~-~g~~I~vv~ 74 (335)
|...|.++.++|++++||.+||.+|+.+.| +|++.||| |.|+.|. |+++|++|||+ +|++|||.+
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 9999985 67999999999 889999864
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=99.22 E-value=4.6e-11 Score=90.02 Aligned_cols=71 Identities=23% Similarity=0.402 Sum_probs=65.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~-~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+|++.+|+.+.+.|.++.+|..|++.+++..| ++. +.++|+|.|+.|.++.|+++|||++|++|+|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~---i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKG---IPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHT---TTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999 999 999999999999999999999999999999874
No 37
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=3.2e-10 Score=112.08 Aligned_cols=103 Identities=18% Similarity=0.348 Sum_probs=79.9
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcC-CHHHHHHHHHhCCCCcccccCCCCCCCCcchhhcccCCCCCCCCCCCCCC
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAAYN-NPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSP 232 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~~~-~~~~A~~~L~~giP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (335)
..+|.+|++|| |+.++|.|||-++.| +.|.||||||.||.+..-..+ ..
T Consensus 559 qs~I~qL~~mG---fp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP-~~-------------------------- 608 (749)
T COG5207 559 QSLIRQLVDMG---FPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDP-FV-------------------------- 608 (749)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCC-CC--------------------------
Confidence 56899999999 999999999999977 899999999999876521111 00
Q ss_pred CCCcchhcccCCCCCCCCcHHHhhcchhhhcCCCCCCCCCCCCCCCCCCCccccCCcccHHHHHHHHHCCCChHHHHHHH
Q 019817 233 LNMFPQETLSGAPAGGLGSLDFLRNNQQLINEPVDGSEGDMFDQPEQDMPHAINVTPAEQEAIQRLEAMGFDRALVIEAF 312 (335)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~l~~lr~np~~~~e~~~~~~~~~~~~~~~~~~~~~~lt~ee~~aI~rL~~lGF~~~~~i~Ay 312 (335)
.-+ + .|..- ...+...+..|+++||...+|++|+
T Consensus 609 --~~~----~--------------------------------------vPKkD--keVdE~~~~Slle~Gln~n~~Rkal 642 (749)
T COG5207 609 --PPP----N--------------------------------------VPKKD--KEVDESKARSLLENGLNPNLCRKAL 642 (749)
T ss_pred --CCC----C--------------------------------------CCccc--ccccHHHHHHHHHcCCCHHHHHHHH
Confidence 000 0 00000 2345678999999999999999999
Q ss_pred HHhCCCHHHHHHHHhccCCC
Q 019817 313 LACDRNEELAANYLLENAGD 332 (335)
Q Consensus 313 ~acdknee~Aan~Lf~~~~d 332 (335)
+--+.|.+++..|.|++.+.
T Consensus 643 ~~~n~d~~r~V~w~~N~~D~ 662 (749)
T COG5207 643 MDMNTDSKRRVVWCINDDDG 662 (749)
T ss_pred HHccCCchheEEEEEeCCCC
Confidence 99999999999999996443
No 38
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.07 E-value=4.2e-10 Score=89.03 Aligned_cols=62 Identities=21% Similarity=0.195 Sum_probs=57.0
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC-CCchhhcCCCCCCEEEEEeec
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKD-ETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D-~~tL~d~gI~~g~~I~vv~~~ 76 (335)
...+.|++++||++||.+|.+.++ +++.+|||+|.|+.|.| .+||++|||..+++|+|.+..
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~---V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFS---VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhc---CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 467889999999999999999999 99999999999999965 689999999999999998753
No 39
>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=99.01 E-value=6.4e-10 Score=73.57 Aligned_cols=37 Identities=38% Similarity=0.544 Sum_probs=35.2
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhc
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLE 328 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~ 328 (335)
.+.|++|++|||+++.|++|+.+|++|.+.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 4689999999999999999999999999999999985
No 40
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.00 E-value=5.1e-10 Score=73.85 Aligned_cols=36 Identities=42% Similarity=0.677 Sum_probs=33.5
Q ss_pred cHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHH
Q 019817 291 EQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 291 e~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~L 326 (335)
+.+.|++|++|||+++.|++||++|++|.+.|++||
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 467899999999999999999999999999999998
No 41
>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=98.99 E-value=7.9e-10 Score=72.94 Aligned_cols=36 Identities=47% Similarity=0.741 Sum_probs=33.7
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYL 191 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L 191 (335)
+++.|++|++|| |++++|++||+.++||+++|++||
T Consensus 2 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMG---FSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHT---S-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHcCCCHHHHHHhC
Confidence 578999999999 999999999999999999999998
No 42
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.99 E-value=4.4e-09 Score=86.27 Aligned_cols=76 Identities=24% Similarity=0.324 Sum_probs=57.4
Q ss_pred EEEEEeCCCC-EEEEEeCCCCcHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCchhhcCCCCCC------EE
Q 019817 2 KLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKD----NYPCGQQLLIHNGKVLKDETTLADNKVSEDG------FL 70 (335)
Q Consensus 2 ~I~Vkt~~g~-~~~i~V~~~~TV~dLK~~I~~~~g~~----~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~------~I 70 (335)
.|+++..+|+ +..+.+++++||.+||+.|......+ ...+..+||||.||+|+|+.+|++|++..|+ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 5778888999 77889999999999999999877522 1245678999999999999999999998877 56
Q ss_pred EEEeecC
Q 019817 71 VVMLSKS 77 (335)
Q Consensus 71 ~vv~~~~ 77 (335)
||+++..
T Consensus 84 Hlvvrp~ 90 (111)
T PF13881_consen 84 HLVVRPN 90 (111)
T ss_dssp EEEE-SS
T ss_pred EEEecCC
Confidence 7776643
No 43
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.97 E-value=1.1e-09 Score=72.00 Aligned_cols=36 Identities=44% Similarity=0.630 Sum_probs=34.7
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHh
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLL 327 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf 327 (335)
.+.|++|++|||+++.|++|+.+|++|.+.|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 578999999999999999999999999999999997
No 44
>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=98.96 E-value=4.1e-09 Score=82.25 Aligned_cols=71 Identities=23% Similarity=0.320 Sum_probs=59.6
Q ss_pred EEEEEeCC-CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCchhhcCCCCCCEEEEE
Q 019817 2 KLTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGK-----VL-KDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 2 ~I~Vkt~~-g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL-i~~Gk-----~L-~D~~tL~d~gI~~g~~I~vv 73 (335)
+|.|++.. ....+..+++++||.+||.+|+..+| +++..||| +|.|+ .| +|+++|++||+++|..|||+
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G---~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG---TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC---CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 56666543 34456679999999999999999999 99999999 58887 46 67789999999999999998
Q ss_pred ee
Q 019817 74 LS 75 (335)
Q Consensus 74 ~~ 75 (335)
-.
T Consensus 80 D~ 81 (84)
T cd01789 80 DV 81 (84)
T ss_pred eC
Confidence 54
No 45
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=3.1e-09 Score=112.42 Aligned_cols=71 Identities=23% Similarity=0.334 Sum_probs=68.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
.|+||+++.++.+|.|...+||++||..|..+.+ |+.+.|||||.|++|.|++++.+|+| +|.+|||+-|.
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n---i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverp 74 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERP 74 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeeccC
Confidence 4899999999999999999999999999999999 99999999999999999999999999 99999999873
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=98.82 E-value=7e-09 Score=68.55 Aligned_cols=37 Identities=41% Similarity=0.767 Sum_probs=35.1
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
++.|++|++|| |+++.|++||+.+++|.++|++||++
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=98.80 E-value=7.6e-09 Score=68.00 Aligned_cols=36 Identities=44% Similarity=0.769 Sum_probs=34.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~ 192 (335)
++.|++|++|| |++++|++||+.+++|.++|++||+
T Consensus 2 ~~~v~~L~~mG---f~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMG---FSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 57899999999 9999999999999999999999995
No 48
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.79 E-value=2.2e-08 Score=78.44 Aligned_cols=72 Identities=24% Similarity=0.292 Sum_probs=58.3
Q ss_pred EEEEEeCCC--CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----C---eec-CCCCchhhcCCCCCCEEE
Q 019817 2 KLTVKTLKG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----G---KVL-KDETTLADNKVSEDGFLV 71 (335)
Q Consensus 2 ~I~Vkt~~g--~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~----G---k~L-~D~~tL~d~gI~~g~~I~ 71 (335)
+|+|..... +.++..++.++||.+||.+|+..+| +++..|+|.+. + ..| +|.++|.+||+++|+.||
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~G---i~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~ 79 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTG---IPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIH 79 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHT---S-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhC---CCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEE
Confidence 577776655 4888999999999999999999999 99999999875 1 224 567899999999999999
Q ss_pred EEeec
Q 019817 72 VMLSK 76 (335)
Q Consensus 72 vv~~~ 76 (335)
|+-..
T Consensus 80 V~D~~ 84 (87)
T PF14560_consen 80 VVDTN 84 (87)
T ss_dssp EEE-T
T ss_pred EEeCC
Confidence 98654
No 49
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.79 E-value=5.7e-08 Score=71.42 Aligned_cols=72 Identities=44% Similarity=0.612 Sum_probs=67.8
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
+++++..|+.+.+.+....+|..+|.+|+...| ++...|+|+|.|+.|.|+.+|.+|+|..+.+++++.+.+
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 577889999999999999999999999999999 999999999999999999999999999999999987754
No 50
>PLN02560 enoyl-CoA reductase
Probab=98.78 E-value=2e-08 Score=96.37 Aligned_cols=71 Identities=32% Similarity=0.420 Sum_probs=62.3
Q ss_pred CEEEEEeCCCCEE---EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCchhhcCCCCCCEE
Q 019817 1 MKLTVKTLKGSHF---EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G----KVLKDETTLADNKVSEDGFL 70 (335)
Q Consensus 1 M~I~Vkt~~g~~~---~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~---G----k~L~D~~tL~d~gI~~g~~I 70 (335)
|+|+|+..+|+.+ +|+|+++.||++||++|+++.+ .+++++|||++. | +.|+|+++|+++|+++|++|
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 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKK--KYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTV 78 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcC--CCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceE
Confidence 8999998889887 7999999999999999999977 138899999973 3 47899999999999999998
Q ss_pred EEE
Q 019817 71 VVM 73 (335)
Q Consensus 71 ~vv 73 (335)
++=
T Consensus 79 y~k 81 (308)
T PLN02560 79 VFK 81 (308)
T ss_pred EEE
Confidence 763
No 51
>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=5.8e-08 Score=78.75 Aligned_cols=73 Identities=19% Similarity=0.230 Sum_probs=62.4
Q ss_pred CEEEEEeCCCC-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCC-------CCCCEEEE
Q 019817 1 MKLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKV-------SEDGFLVV 72 (335)
Q Consensus 1 M~I~Vkt~~g~-~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI-------~~g~~I~v 72 (335)
|-++++....| ++.+++.++.||.+||++|+.... .|++.|||+..+.+|+|++||++||+ +...+|-|
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k---~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgL 77 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILK---RPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGL 77 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhc---CChhHheeecCceeecccccHHHcCccccccccCCCCeEEE
Confidence 55666555444 577899999999999999999988 99999999977789999999999999 66888888
Q ss_pred Eeec
Q 019817 73 MLSK 76 (335)
Q Consensus 73 v~~~ 76 (335)
..|+
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 8875
No 52
>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=98.66 E-value=7.9e-08 Score=73.63 Aligned_cols=69 Identities=26% Similarity=0.260 Sum_probs=54.8
Q ss_pred EEEEEeCC-CCEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLK-GSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~-g~~~~i~V~-~~~TV~dLK~~I~~~~g~~~ip~~~qrL--i~~Gk~L~D~~tL~d~gI~~g~~I~v 72 (335)
.|.++..+ .....++++ ++.||.+||+.|+...+ .+++++||| .+.|++|.|+.+|.+|||++|++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~--~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSP--QLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcC--CCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 56666555 333334444 78999999999999865 267899888 48999999999999999999999876
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=1.8e-06 Score=60.19 Aligned_cols=67 Identities=34% Similarity=0.447 Sum_probs=60.8
Q ss_pred EEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 5 Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+..++..+.+.+....||.+||++|..++| +++..++|+++|..+.+...+.++++.+++.|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG---LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC---cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 4444788889999999999999999999999 899999999999999998888999999999999874
No 54
>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=98.40 E-value=5.2e-07 Score=69.80 Aligned_cols=69 Identities=28% Similarity=0.364 Sum_probs=42.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eec--CCCCchhhcCCCCCCEEEEE
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVL--KDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G---k~L--~D~~tL~d~gI~~g~~I~vv 73 (335)
|.|.||+.+|- +.|++++++|+.+||++|.+..+ ++...+.|..+- ..| .+.++|+++||++||.|+|-
T Consensus 5 milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~---~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLS---IPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS------TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcC---CCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 67888876654 68899999999999999999999 888888885332 234 46789999999999999873
No 55
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=5.7e-06 Score=81.93 Aligned_cols=73 Identities=18% Similarity=0.325 Sum_probs=66.7
Q ss_pred EEEEEeCCCCEEEEE-eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecCC
Q 019817 2 KLTVKTLKGSHFEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~-V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~~ 78 (335)
.|.|| +.|+.+.++ ++.+.|+..||.+|...+| ++|++||+.++|+.|.|+-.+..++|++|.+|+||.....
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 35666 788999887 9999999999999999999 9999999999999999998999999999999999987553
No 56
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=98.13 E-value=1.7e-05 Score=59.64 Aligned_cols=71 Identities=23% Similarity=0.369 Sum_probs=62.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCchhhcCCCCCCEEEEEee
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G--KVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~---G--k~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
++|+|+-+.+..+.+.|+|..+|..||.+|....| ++ ..|||-|. | ..|.+.++|.+|||-.+-.|.|+..
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 58999999999999999999999999999999998 65 59999884 3 3478999999999998888887754
No 57
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=4.6e-06 Score=78.73 Aligned_cols=73 Identities=23% Similarity=0.374 Sum_probs=63.9
Q ss_pred CEEEEEeC---CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 1 MKLTVKTL---KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 1 M~I~Vkt~---~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
|.+.|+.. ....+.|.|+.+..|.+||+.++.+.| +|+++.|+||.||.|.|+.++..+.+...+.+|+|..+
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 67777754 234578899999999999999999999 99999999999999999999999988888999998543
No 58
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.03 E-value=2.2e-05 Score=77.38 Aligned_cols=59 Identities=22% Similarity=0.157 Sum_probs=51.9
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 14 ~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
.++.....|-.+|...|.++.| ++-...|.|.+||+|.-.+||.+-|++.+..+.|++.
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 4556667788999999999999 9888999999999999999999999998887777665
No 59
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=2.2e-06 Score=62.55 Aligned_cols=69 Identities=20% Similarity=0.263 Sum_probs=60.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
.+.+...-|+++.|.+.+++||+|+|+.|+.++| ..++.+.|---+.+++|.-+|++|.|++|..+.+.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtG---T~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhC---CChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 4666777899999999999999999999999999 77888888756677899999999999999887654
No 60
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=6.6e-05 Score=59.70 Aligned_cols=72 Identities=18% Similarity=0.282 Sum_probs=65.2
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
+|+|+.-++..+.+.|..+.++..|++.-+++.| +....+|++|.|+.|.+.+|-.++++++||.|.++...
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~G---l~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q 93 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQG---LSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQ 93 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcC---CccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeec
Confidence 4667766677788999999999999999999999 99999999999999999999999999999999988643
No 61
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.5e-05 Score=81.77 Aligned_cols=46 Identities=33% Similarity=0.559 Sum_probs=41.6
Q ss_pred CcHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhCCCCcc
Q 019817 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETA 199 (335)
Q Consensus 151 ~~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~giP~~~ 199 (335)
...++.|..|++|| |.+.+|++||++++||++||++|+|+|+.+.+
T Consensus 633 ~~~e~~v~si~smG---f~~~qa~~aL~~~n~nveravDWif~h~d~~~ 678 (763)
T KOG0944|consen 633 EVDEESVASIVSMG---FSRNQAIKALKATNNNVERAVDWIFSHMDIPV 678 (763)
T ss_pred CCChhHheeeeeec---CcHHHHHHHHHhcCccHHHHHHHHHhcccccc
Confidence 34589999999999 99999999999999999999999999977443
No 62
>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=97.82 E-value=2e-05 Score=77.69 Aligned_cols=40 Identities=30% Similarity=0.463 Sum_probs=37.3
Q ss_pred ccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 290 AEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 290 ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
+-...|++|++|||+|++|+.|++|+-+|-++|++||+.-
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tG 194 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTG 194 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence 4467899999999999999999999999999999999875
No 63
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.79 E-value=8.8e-05 Score=73.19 Aligned_cols=93 Identities=24% Similarity=0.413 Sum_probs=71.4
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhCCCCcccccCCCCCCCCcchhhcccCCCCCCCCCCCCCCC
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSPL 233 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~giP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (335)
...|..|++|| |.+..+..||+-+.||..+|++.|- |+.++...
T Consensus 376 ~rs~~rL~~mG---yer~la~eaL~r~~Ndi~~aldllq---~esdel~~------------------------------ 419 (568)
T KOG2561|consen 376 PRSLERLVSMG---YERELAAEALRRNENDIQKALDLLQ---DESDELES------------------------------ 419 (568)
T ss_pred HHHHHHHHhcc---hHhHHHHHHHHhccCcHHHHHHhcC---Ccchhhhc------------------------------
Confidence 46788999999 9999999999999999999999983 22210000
Q ss_pred CCcchhcccCCCCCCCCcHHHhhcchhhhcCCCCCCCCCCCCCCCCCCCccccCCcccHHHHHHHHHCCCChHHHHHHHH
Q 019817 234 NMFPQETLSGAPAGGLGSLDFLRNNQQLINEPVDGSEGDMFDQPEQDMPHAINVTPAEQEAIQRLEAMGFDRALVIEAFL 313 (335)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~l~~lr~np~~~~e~~~~~~~~~~~~~~~~~~~~~~lt~ee~~aI~rL~~lGF~~~~~i~Ay~ 313 (335)
+. ...| .+-+...|.+|+.|||++..+.-|+.
T Consensus 420 --------n~-----------------------------------~~~p-----~~vd~~~la~Lv~mGF~e~~A~~ALe 451 (568)
T KOG2561|consen 420 --------NK-----------------------------------PKRP-----EQVDGISLAELVSMGFEEGKARSALE 451 (568)
T ss_pred --------cC-----------------------------------CCCC-----cccchhhHHHHHHhccccchHHHHHH
Confidence 00 0000 11355779999999999999999999
Q ss_pred HhCCCHHHHHHHHhccC
Q 019817 314 ACDRNEELAANYLLENA 330 (335)
Q Consensus 314 acdknee~Aan~Lf~~~ 330 (335)
+.++|++.|+.+|.-+.
T Consensus 452 ~~gnn~~~a~~~L~~s~ 468 (568)
T KOG2561|consen 452 AGGNNEDTAQRLLSASV 468 (568)
T ss_pred hcCCcHHHHHHHHHHhC
Confidence 99999999999996543
No 64
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=3.8e-05 Score=76.80 Aligned_cols=44 Identities=27% Similarity=0.373 Sum_probs=40.9
Q ss_pred cHHHHHHHHHCCCChHHHHHHHHHhCC-CHHHHHHHHhccCCCCC
Q 019817 291 EQEAIQRLEAMGFDRALVIEAFLACDR-NEELAANYLLENAGDFE 334 (335)
Q Consensus 291 e~~aI~rL~~lGF~~~~~i~Ay~acdk-nee~Aan~Lf~~~~d~~ 334 (335)
.+-+|++|.+|||+...+..|++++++ +-|-|.||||+||+|-+
T Consensus 558 Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPd 602 (749)
T COG5207 558 NQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPD 602 (749)
T ss_pred hHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcc
Confidence 466899999999999999999999998 99999999999999864
No 65
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.56 E-value=0.00012 Score=57.65 Aligned_cols=62 Identities=23% Similarity=0.339 Sum_probs=49.9
Q ss_pred CEEEEEeC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecCCCCchhhcCCC
Q 019817 1 MKLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLKDETTLADNKVS 65 (335)
Q Consensus 1 M~I~Vkt~-~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G--k~L~D~~tL~d~gI~ 65 (335)
|.++++.. ...++.++.+++.||-+||.+++.... -|++.|||+.-. .+|+|.++|+++|+.
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhcccc
Confidence 34444433 344577899999999999999999988 899999998633 678999999999864
No 66
>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=97.39 E-value=0.00039 Score=53.36 Aligned_cols=71 Identities=23% Similarity=0.324 Sum_probs=50.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLLI-HNGKVLKDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~---~qrLi-~~Gk~L~D~~tL~d~gI~~g~~I~v 72 (335)
+|+|...+|+.+.+.+..+.+|.+|...|.+..+....... ..+|. -+|..|+++.+|.++||.+|+.|++
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 56777655688999999999999999999998872212222 36776 7899999999999999999999987
No 67
>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=97.35 E-value=0.00057 Score=54.79 Aligned_cols=60 Identities=22% Similarity=0.278 Sum_probs=46.4
Q ss_pred EEEEEeCCC-CEEEEEeC--CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhc
Q 019817 2 KLTVKTLKG-SHFEIRVQ--PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (335)
Q Consensus 2 ~I~Vkt~~g-~~~~i~V~--~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~ 62 (335)
.|+||..++ ..+.++|. ...||..||+.|....+. ...-.++||||+||+|.|...|...
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~-~~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPP-EPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCC-CCccccEEeeecCcccCccchhhhh
Confidence 367776653 33667777 789999999999999842 2566788999999999998877654
No 68
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.09 E-value=0.0042 Score=47.60 Aligned_cols=68 Identities=26% Similarity=0.302 Sum_probs=57.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLI--HNGKVLKDE--TTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~-qrLi--~~Gk~L~D~--~tL~d~gI~~g~~I~v 72 (335)
+|.||..+|+.+.-.+..++||.+|...|..... .+... .+|+ |-.+.|.++ .+|.++|+..+.+|+|
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~---~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF---SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH---CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC---CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 6889999999999999999999999999998876 44443 7776 677888543 6999999999999887
No 69
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=7.4e-05 Score=71.21 Aligned_cols=79 Identities=22% Similarity=0.167 Sum_probs=58.6
Q ss_pred EEEEEeCCCCE--EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCC--CCCEEEEEeecC
Q 019817 2 KLTVKTLKGSH--FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVS--EDGFLVVMLSKS 77 (335)
Q Consensus 2 ~I~Vkt~~g~~--~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~--~g~~I~vv~~~~ 77 (335)
.+.||+.+.+. +.|..+..+||++||..++..+..+ --..+|||||.||.|.|...|.+.-+| ...++||++..+
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPsk-pl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvcnsk 89 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSK-PLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVCNSK 89 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCC-CchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhcCCC
Confidence 46677776544 5677778999999999999987633 335689999999999998888887543 345677777655
Q ss_pred CCCC
Q 019817 78 KTLG 81 (335)
Q Consensus 78 ~~~~ 81 (335)
...+
T Consensus 90 ~v~~ 93 (391)
T KOG4583|consen 90 EVVT 93 (391)
T ss_pred CCCC
Confidence 4433
No 70
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.04 E-value=0.0052 Score=47.15 Aligned_cols=68 Identities=19% Similarity=0.187 Sum_probs=55.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D---~~tL~d~gI~~g~~I~v 72 (335)
+|.||..+|+.+...+..++||.+|...|....+ ......+|+ |..|.|.+ +.+|.++|+..+.+|+|
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 6889999999999999999999999999966555 445567775 66788854 47999999988888775
No 71
>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=96.87 E-value=0.005 Score=45.68 Aligned_cols=63 Identities=19% Similarity=0.189 Sum_probs=46.7
Q ss_pred eCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEE
Q 019817 7 TLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 7 t~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~v 72 (335)
..+++.+.|.|.++.++.++-+..+.++| +.++...|.|++|.|+-+.++.-.|+-+|..+.+
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 46789999999999999999999999999 8899999999999999899999999999998864
No 72
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.86 E-value=0.0052 Score=46.39 Aligned_cols=71 Identities=13% Similarity=0.236 Sum_probs=57.6
Q ss_pred EEE--EEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCC--CCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEE
Q 019817 2 KLT--VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDN--YPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~--Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~--ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~v 72 (335)
+|+ ++..+|+++.+.++...+|+.|-..+.+.....- ..-..+|..-++++|.++..|.+|+|.+||.+.+
T Consensus 6 kVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 6 KVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 444 4677899999999999999999988887655221 2234678899999999999999999999999875
No 73
>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=96.79 E-value=0.013 Score=44.54 Aligned_cols=66 Identities=21% Similarity=0.349 Sum_probs=52.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D---~~tL~d~gI~~g~~I~v 72 (335)
+|.||..+|+.+...+..++||.+|...|..... .....+|+ |-.|.|.+ +.+|.++|+. .+.+++
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~----~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~ 74 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP----PAEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQ 74 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC----CCCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEE
Confidence 6889999999999999999999999999987644 24567776 66788854 6899999999 455544
No 74
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.0052 Score=48.08 Aligned_cols=69 Identities=14% Similarity=0.228 Sum_probs=60.4
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|..-+|..+.+.|..+.+...|.+..+.+.| ...+..|++|.|+.++-++|-.++++.+++.|-++.
T Consensus 27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqG---K~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~ 95 (103)
T COG5227 27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQG---KNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVT 95 (103)
T ss_pred eEEecCCCCEEEEEEeccchHHHHHHHHHHHhC---cCcceeEEEEcceecCCCCChhhcCCccchHHHHHH
Confidence 455555778888999999999999999999999 668899999999999999999999999999876543
No 75
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.79 E-value=0.0024 Score=57.39 Aligned_cols=65 Identities=25% Similarity=0.340 Sum_probs=56.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCC--EEEEEeec
Q 019817 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDG--FLVVMLSK 76 (335)
Q Consensus 9 ~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~--~I~vv~~~ 76 (335)
.++.|.+.+...+||.++|.++....| +.+-.|+++|+|++|.|...|..|+|..|. +|.++|..
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 466788888889999999999999999 778899999999999999999999999994 55444443
No 76
>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=96.75 E-value=0.013 Score=44.95 Aligned_cols=67 Identities=21% Similarity=0.362 Sum_probs=55.6
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D---~~tL~d~gI~~g~~I~v 72 (335)
+|.||..+|+.+...+..++||.+|...|....+ . ....+|+ |-.|.+.+ +.||.++|+.+..+|+|
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~---~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG---N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC---C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 6889999999999999999999999999987644 2 2557776 67788853 47999999998888876
No 77
>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=96.68 E-value=0.015 Score=44.70 Aligned_cols=65 Identities=17% Similarity=0.245 Sum_probs=52.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCchhhcCCCCCC
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSEDG 68 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D-~~tL~d~gI~~g~ 68 (335)
+|.||..+|+.+...+..++||.+|...|....+. .......|+ |-.|.|.| +.||.+.|+.+..
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~ 73 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLNAV 73 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcCcE
Confidence 68899999999999999999999999999987541 223566776 77888855 7899999998543
No 78
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.53 E-value=0.006 Score=56.30 Aligned_cols=70 Identities=19% Similarity=0.170 Sum_probs=53.4
Q ss_pred CEEEEEeCCCC-EEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeE----EEeCCeecCCCCchhhcCCCCCCEEEE
Q 019817 1 MKLTVKTLKGS-HFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL----LIHNGKVLKDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 1 M~I~Vkt~~g~-~~~-i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qr----Li~~Gk~L~D~~tL~d~gI~~g~~I~v 72 (335)
|+|++.+.++. ..+ .+.+...||.|+++.|..+.-+ +.+.++| +--+||.|.|+.+|++|+..+|++|.|
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 88999887763 333 5677889999999888776541 4454443 345799999999999999999988765
No 79
>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=96.48 E-value=0.0051 Score=41.41 Aligned_cols=40 Identities=33% Similarity=0.401 Sum_probs=34.2
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
++.|++|.+|=-. |+++.++++|+...+|+++|++.|+++
T Consensus 2 ~~~v~~L~~mFP~-~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPD-LDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSS-S-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCC-CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 5789999999311 999999999999999999999999864
No 80
>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=96.46 E-value=0.03 Score=43.49 Aligned_cols=69 Identities=17% Similarity=0.327 Sum_probs=59.5
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCchhhcCCCCCCEEEEEe
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK---DETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~---D~~tL~d~gI~~g~~I~vv~ 74 (335)
+|.||..+|+.+.-.+..+.++.+|-..|.. .| .+++..+|+ |--|+|. .+.||.++|+....+|+|--
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 6899999999999999999999999999888 56 778899997 6778873 25799999999999998753
No 81
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=96.45 E-value=0.0036 Score=59.90 Aligned_cols=40 Identities=35% Similarity=0.494 Sum_probs=37.2
Q ss_pred ccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 290 AEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 290 ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
+-...|.+|++|||+|++|+.|++|.=+|-|+|++||+.-
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~G 173 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNG 173 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcC
Confidence 5567899999999999999999999999999999999874
No 82
>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=96.32 E-value=0.0092 Score=40.40 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=33.4
Q ss_pred HHHHHHHHC-CCChHHHHHHHHHhCCCHHHHHHHHhccCCC
Q 019817 293 EAIQRLEAM-GFDRALVIEAFLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 293 ~aI~rL~~l-GF~~~~~i~Ay~acdknee~Aan~Lf~~~~d 332 (335)
+.|.+++++ |.++..|++.+.+|+.|.+.|++..|++..+
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 568888887 9999999999999999999999999987653
No 83
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.14 E-value=0.015 Score=52.29 Aligned_cols=71 Identities=21% Similarity=0.243 Sum_probs=55.0
Q ss_pred EEEEEeCCCC-EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eecC-CCCchhhcCCCCCCEEEEE
Q 019817 2 KLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNG-----KVLK-DETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 2 ~I~Vkt~~g~-~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL-i~~G-----k~L~-D~~tL~d~gI~~g~~I~vv 73 (335)
+|.|.+...+ .+...+..+.||.+||.+|+..+| .+++.++| +|.| ..|. ++..|..|+..+|-.||++
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G---~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi 79 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTG---TEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI 79 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhC---CCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence 4555543322 245677899999999999999999 99999998 4666 2354 5679999999999999998
Q ss_pred ee
Q 019817 74 LS 75 (335)
Q Consensus 74 ~~ 75 (335)
-.
T Consensus 80 D~ 81 (234)
T KOG3206|consen 80 DS 81 (234)
T ss_pred ec
Confidence 43
No 84
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.05 E-value=0.0078 Score=53.23 Aligned_cols=42 Identities=26% Similarity=0.332 Sum_probs=38.7
Q ss_pred CcccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 288 TPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 288 t~ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
.+.+...|++|++|||++.+++.+|..-+-|.+.|.+.||+.
T Consensus 159 ~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 159 DPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 457789999999999999999999999999999999999873
No 85
>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=96.04 E-value=0.014 Score=39.15 Aligned_cols=38 Identities=32% Similarity=0.454 Sum_probs=33.9
Q ss_pred HHHHHHHHHC--CCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 292 QEAIQRLEAM--GFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 292 ~~aI~rL~~l--GF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
.+.|++|.+| .+++..+..+|.+|++|.|.|.+.|++.
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 3579999999 8999999999999999999999999874
No 86
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.92 E-value=0.061 Score=46.92 Aligned_cols=75 Identities=17% Similarity=0.265 Sum_probs=54.3
Q ss_pred CEEEEEeCCC----CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCe-EEEe-CCeec--CCCCchhhcCCCCCC----
Q 019817 1 MKLTVKTLKG----SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIH-NGKVL--KDETTLADNKVSEDG---- 68 (335)
Q Consensus 1 M~I~Vkt~~g----~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~q-rLi~-~Gk~L--~D~~tL~d~gI~~g~---- 68 (335)
|.|.|++++| .++.+.+..+.||.+|+..|....+ ++...+ .|.+ .++.| .++..++.+.-.+.+
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~---~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~ 77 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP---IPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFI 77 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC---CCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCce
Confidence 7899999999 5888999999999999999999988 777663 3444 34444 456677777544443
Q ss_pred EEEEEeecCC
Q 019817 69 FLVVMLSKSK 78 (335)
Q Consensus 69 ~I~vv~~~~~ 78 (335)
+|+|+.+...
T Consensus 78 ~l~l~~rl~G 87 (162)
T PF13019_consen 78 TLRLSLRLRG 87 (162)
T ss_pred EEEEEEeccC
Confidence 4555555443
No 87
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.85 E-value=0.078 Score=41.37 Aligned_cols=68 Identities=19% Similarity=0.214 Sum_probs=55.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC--CeecC--------CCCchhhcCCCCCCEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN--GKVLK--------DETTLADNKVSEDGFLV 71 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~--Gk~L~--------D~~tL~d~gI~~g~~I~ 71 (335)
+|.||..+|+.+.-.+..++||.+|...|.. .+ ..+...+|+++ -|.|. .+.||.+.||.+..+|.
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~---~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~ 81 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK---ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF 81 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC---CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence 6889999999999999999999999999964 34 45678888853 47775 26799999999887777
Q ss_pred EE
Q 019817 72 VM 73 (335)
Q Consensus 72 vv 73 (335)
|-
T Consensus 82 V~ 83 (85)
T cd01774 82 VQ 83 (85)
T ss_pred Ee
Confidence 63
No 88
>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=95.71 E-value=0.1 Score=40.21 Aligned_cols=68 Identities=25% Similarity=0.338 Sum_probs=57.6
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC--C-CCchhhcCCCCCCEEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK--D-ETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~--D-~~tL~d~gI~~g~~I~vv 73 (335)
+|.||..+|+.+.-.+..++++.+|...|... | .+....+|+ |--|.+. | +.+|.+.|+....+|+|-
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~---~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-G---YPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-C---CCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 68899999999998999999999999999764 6 667788886 7778884 2 579999999998888773
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=95.30 E-value=0.054 Score=36.47 Aligned_cols=41 Identities=24% Similarity=0.404 Sum_probs=35.1
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
.++.|..|.+|=- .+++..+++.|+..+||++.|++.|+++
T Consensus 2 ~~~~v~~L~~mFP-~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFP-NLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCC-CCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 3578999999921 1899999999999999999999999875
No 90
>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=95.20 E-value=0.018 Score=41.16 Aligned_cols=39 Identities=26% Similarity=0.487 Sum_probs=26.3
Q ss_pred ccHHHHHHHHHCCCChHHHHHHHHHhC-----CCHHHHHHHHhc
Q 019817 290 AEQEAIQRLEAMGFDRALVIEAFLACD-----RNEELAANYLLE 328 (335)
Q Consensus 290 ee~~aI~rL~~lGF~~~~~i~Ay~acd-----knee~Aan~Lf~ 328 (335)
-+++.|+|+++|||+++.||+||+.-+ .+-....|..++
T Consensus 8 i~~~lVd~F~~mGF~~dkVvevlrrlgik~~n~~dn~t~~~ilE 51 (55)
T PF09288_consen 8 IDKDLVDQFENMGFERDKVVEVLRRLGIKSMNGVDNETENKILE 51 (55)
T ss_dssp -SHHHHHHHHHHT--HHHHHHHHHHS--SS--SS--HHHHHHHH
T ss_pred CCHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCccchhHHHHHH
Confidence 468899999999999999999988753 234455665554
No 91
>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=0.07 Score=35.89 Aligned_cols=38 Identities=32% Similarity=0.437 Sum_probs=34.3
Q ss_pred HHHHHHHHHC--CCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 292 QEAIQRLEAM--GFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 292 ~~aI~rL~~l--GF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
.+.|+.|.+| .+++..+...|.+|++|.|.|.|-|++.
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4679999999 7889999999999999999999999864
No 92
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.67 E-value=0.048 Score=48.31 Aligned_cols=45 Identities=20% Similarity=0.257 Sum_probs=41.9
Q ss_pred cCCCCcHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 147 LVAGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 147 ~~~~~~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
...+..+...|..|.+|| |+++.++.+|+..+-|.++|.++|++|
T Consensus 156 ~~~~~~~~~~v~~l~~mG---f~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 156 LPDDPWDKKKVDSLIEMG---FSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCchhHHHHHHHHHhc---ccHHHHHHHhhccccchhhhhHhhccC
Confidence 667788999999999999 999999999999999999999999875
No 93
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=94.14 E-value=0.1 Score=39.91 Aligned_cols=56 Identities=25% Similarity=0.325 Sum_probs=46.2
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhc-CCCCCCEEEEEe
Q 019817 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN-KVSEDGFLVVML 74 (335)
Q Consensus 17 V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~-gI~~g~~I~vv~ 74 (335)
|.+.++|.+|++.|..... .+.-....|.++|+.|+|...|+++ |+++|.+|.|+.
T Consensus 1 v~~~d~v~dvrq~L~~~~~--t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve 57 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPE--TCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVE 57 (76)
T ss_pred CChhhHHHHHHHHHHhCcc--ccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEe
Confidence 5678899999999887743 2456677999999999988888888 689999998874
No 94
>PRK06437 hypothetical protein; Provisional
Probab=93.19 E-value=0.63 Score=34.52 Aligned_cols=59 Identities=17% Similarity=0.232 Sum_probs=44.9
Q ss_pred EEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 4 ~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
.|+--.++...++++...||.+|-+. .| +++....+..+|+++. .++-|++||.|-++.
T Consensus 4 ~~~v~g~~~~~~~i~~~~tv~dLL~~----Lg---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 4 MIRVKGHINKTIEIDHELTVNDIIKD----LG---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred eEEecCCcceEEEcCCCCcHHHHHHH----cC---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 34433456677888888999988765 47 7788889999999997 455678899998873
No 95
>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=93.15 E-value=0.27 Score=33.15 Aligned_cols=38 Identities=26% Similarity=0.413 Sum_probs=31.8
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 154 ~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
++.|.++|+. | -+++.|+.-|+.+++|+++|++..|..
T Consensus 1 ~e~i~~F~~iTg---~~~~~A~~~L~~~~wdle~Av~~y~~~ 39 (43)
T PF14555_consen 1 DEKIAQFMSITG---ADEDVAIQYLEANNWDLEAAVNAYFDD 39 (43)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHHHS
T ss_pred CHHHHHHHHHHC---cCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence 4678888887 6 799999999999999999999988764
No 96
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=93.13 E-value=0.14 Score=49.78 Aligned_cols=70 Identities=20% Similarity=0.154 Sum_probs=60.5
Q ss_pred CEEEEEeC--CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC--CchhhcCCCCCCEEEEE
Q 019817 1 MKLTVKTL--KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDE--TTLADNKVSEDGFLVVM 73 (335)
Q Consensus 1 M~I~Vkt~--~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~--~tL~d~gI~~g~~I~vv 73 (335)
|.++|-+. ..+++.+.|..+..+..|+..++...| +..+..-|+|+++.|.++ ..|..||++.+++|.+-
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g---~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTG---IVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhC---cccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 67777655 667788999999999999999999999 999999999999999654 68999999999998763
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=92.93 E-value=0.12 Score=40.31 Aligned_cols=35 Identities=31% Similarity=0.577 Sum_probs=30.9
Q ss_pred HHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 295 IQRLEAMGFDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 295 I~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
|+.+.++||++..|++|+.+|-.+..+|..|++..
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 67789999999999999999999999999988775
No 98
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=92.41 E-value=0.19 Score=48.09 Aligned_cols=37 Identities=22% Similarity=0.292 Sum_probs=33.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 155 ~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
..|++|-++ | ...-+|++||..++||.+.|++||-..
T Consensus 6 ~~IK~LRe~Tg---agm~dCKkAL~e~~gDiekAi~~LRkk 43 (290)
T TIGR00116 6 QLVKELRERTG---AGMMDCKKALTEANGDFEKAIKNLRES 43 (290)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 568999998 7 899999999999999999999999763
No 99
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=92.35 E-value=0.18 Score=47.30 Aligned_cols=40 Identities=25% Similarity=0.366 Sum_probs=33.5
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhcC-CHHHHHHHH-HhCCCCcc
Q 019817 157 IQQIMDMGGGTWDKETVTRALQAAYN-NPERAVDYL-YSGIPETA 199 (335)
Q Consensus 157 v~~l~~mG~~~f~~~~~~~Al~~~~~-~~~~A~~~L-~~giP~~~ 199 (335)
++.|++|| |++..+.+||..+.| +.+.|++|| +.|.-++.
T Consensus 4 ~~~l~~mg---fps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~ 45 (290)
T KOG2689|consen 4 AQSLEEMG---FPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI 45 (290)
T ss_pred HHHHHHhc---CchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence 38899999 999999999998744 789999999 77754443
No 100
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=92.22 E-value=0.22 Score=45.00 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=33.6
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 155 ~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
..|++|-++ | .+.-+|++||..+++|.+.|++||-..
T Consensus 6 ~~ik~LR~~tg---a~~~~ck~AL~~~~gd~~~A~~~lr~~ 43 (198)
T PRK12332 6 KLVKELREKTG---AGMMDCKKALEEANGDMEKAIEWLREK 43 (198)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 578999888 7 899999999999999999999999763
No 101
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=91.82 E-value=0.72 Score=35.18 Aligned_cols=66 Identities=11% Similarity=0.148 Sum_probs=45.3
Q ss_pred CEEEEEeCC------C-CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCchhhcCCCCCCEEE
Q 019817 1 MKLTVKTLK------G-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC--GQQLLIHNGKVLKDETTLADNKVSEDGFLV 71 (335)
Q Consensus 1 M~I~Vkt~~------g-~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~--~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~ 71 (335)
|+|+|+... | ....+++....||.+|++.|..... .+.. ....+..+|+...+ ++-|++||.|.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p--~l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVa 74 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFP--SLEEVRSCCVLALNEEYTTE-----SAALKDGDELA 74 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHCh--hHHHHhhCcEEEECCEEcCC-----CcCcCCCCEEE
Confidence 678888553 3 4567788888999999999977642 0111 12346678887653 34577899998
Q ss_pred EE
Q 019817 72 VM 73 (335)
Q Consensus 72 vv 73 (335)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 87
No 102
>PRK09377 tsf elongation factor Ts; Provisional
Probab=91.81 E-value=0.24 Score=47.32 Aligned_cols=36 Identities=19% Similarity=0.338 Sum_probs=33.4
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 155 ~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
..|++|-++ | ...-+|++||..++||.+.|++||-.
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 678999998 7 89999999999999999999999976
No 103
>CHL00098 tsf elongation factor Ts
Probab=91.66 E-value=0.28 Score=44.44 Aligned_cols=36 Identities=25% Similarity=0.337 Sum_probs=33.0
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 155 ~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
+.|++|-++ | ...-+|++||..++||.+.|++||-.
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 568888887 7 88999999999999999999999986
No 104
>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=91.53 E-value=1.1 Score=33.56 Aligned_cols=63 Identities=19% Similarity=0.143 Sum_probs=48.0
Q ss_pred EEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCchhhcCCCCCCE
Q 019817 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH----NG--KVLKDETTLADNKVSEDGF 69 (335)
Q Consensus 5 Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~----~G--k~L~D~~tL~d~gI~~g~~ 69 (335)
|+.++|...++.|+.+.|+.+|=..|+...|. ...+-.-|.| +| ..|+.+++|.++....+..
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~ 69 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPP 69 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSS
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCC
Confidence 67789999999999999999999999999982 2344557777 23 4578889999987663333
No 105
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=91.09 E-value=1.3 Score=31.98 Aligned_cols=56 Identities=20% Similarity=0.355 Sum_probs=39.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
|+|+|. |+. +++....|+.+||+++.. +.=.+||+|-..+++.. +++||.|.++.|
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---EKE--IETEENTTLFELRKESKP---------DADIVILNGFPTKEDIE-----LKEGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CEE--EEcCCCcCHHHHHHhhCC---------CCCEEEEcCcccCCccc-----cCCCCEEEEEeC
Confidence 666664 554 556678899999986422 33367999998877644 567999998754
No 106
>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=90.84 E-value=0.85 Score=35.74 Aligned_cols=45 Identities=20% Similarity=0.211 Sum_probs=38.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC---CCeEEEeC
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLLIHN 49 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~---~~qrLi~~ 49 (335)
.+++|+.+|+.+.+.+.+++.+.+|+..|.++.| +.. ....|.|-
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~---~d~~~~~~~~L~Yl 49 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLG---DDDFETHLYALSYV 49 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhC---CccccCCcccEEEE
Confidence 4678899999999999999999999999999999 544 46777773
No 107
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=90.06 E-value=1.3 Score=32.23 Aligned_cols=60 Identities=18% Similarity=0.269 Sum_probs=42.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+.+ + ..||.+|...+ + +......+-++++++. .....+.-+++||.|-++-
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~---~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----D---YEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----C---CCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence 55555 5777766 3 35899888764 5 5566677889999985 3345566788999998873
No 108
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=89.95 E-value=1.6 Score=32.76 Aligned_cols=57 Identities=12% Similarity=0.131 Sum_probs=41.5
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGK-DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~-~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
...++++...||.+|.+.+...++. .........+..+|+.+. .+.-|++||.|.++
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ 74 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAII 74 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEe
Confidence 4667887789999999999987541 001234567778999887 34568899999987
No 109
>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=89.88 E-value=0.51 Score=36.83 Aligned_cols=35 Identities=31% Similarity=0.490 Sum_probs=30.9
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 157 IQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 157 v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
|+.+.+.| |++..|.+||.++-+++..|..|++++
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 45678899 999999999999999999999999887
No 110
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=89.75 E-value=2.4 Score=31.54 Aligned_cols=50 Identities=22% Similarity=0.380 Sum_probs=38.9
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
...++++...||.+|-+.+ + ++.....+..+|+++.. +.-+++||.|-++
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 5667788888999988765 5 66677788899999853 4557889999886
No 111
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=89.74 E-value=1.1 Score=34.53 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=34.3
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk 51 (335)
++-|.|.+..+..+|+.+|.++.+ ++.+..+|-|+..
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEeccC
Confidence 888999999999999999999999 9999999999753
No 112
>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=89.28 E-value=0.49 Score=33.84 Aligned_cols=24 Identities=21% Similarity=0.542 Sum_probs=20.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 019817 154 EQTIQQIMDMGGGTWDKETVTRALQAA 180 (335)
Q Consensus 154 ~~~v~~l~~mG~~~f~~~~~~~Al~~~ 180 (335)
.+.|.++.+|| |+++.++.||+.-
T Consensus 10 ~~lVd~F~~mG---F~~dkVvevlrrl 33 (55)
T PF09288_consen 10 KDLVDQFENMG---FERDKVVEVLRRL 33 (55)
T ss_dssp HHHHHHHHHHT-----HHHHHHHHHHS
T ss_pred HHHHHHHHHcC---CcHHHHHHHHHHh
Confidence 57899999999 9999999999986
No 113
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=89.21 E-value=0.64 Score=47.10 Aligned_cols=40 Identities=30% Similarity=0.478 Sum_probs=36.5
Q ss_pred CcHHHHHHHHHHcCCCCC-CHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 151 NDLEQTIQQIMDMGGGTW-DKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 151 ~~~~~~v~~l~~mG~~~f-~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
..|..-+.+|-+|| | +|++..+||+++++|+.+|||-|+.
T Consensus 452 ~r~q~QLeQL~~MG---F~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMG---FLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHHHHhcC---CccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 34788899999999 8 8999999999999999999999974
No 114
>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=89.01 E-value=1.5 Score=31.72 Aligned_cols=42 Identities=26% Similarity=0.331 Sum_probs=36.9
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhCC
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGI 195 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~gi 195 (335)
...+|+.|-|.-|+ ++++.+...|+.+++||+.|++-|++--
T Consensus 5 ~rk~VQ~iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~qD 46 (60)
T PF06972_consen 5 SRKTVQSIKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLSQD 46 (60)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHhcC
Confidence 45788888888766 8999999999999999999999998753
No 115
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=88.52 E-value=1.6 Score=36.28 Aligned_cols=60 Identities=17% Similarity=0.178 Sum_probs=43.3
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-------CCCCCCeEEEeCC-----------------eec---CCCCchhhcCCCCC
Q 019817 16 RVQP-SDTVMAVKKNIEDVQGKD-------NYPCGQQLLIHNG-----------------KVL---KDETTLADNKVSED 67 (335)
Q Consensus 16 ~V~~-~~TV~dLK~~I~~~~g~~-------~ip~~~qrLi~~G-----------------k~L---~D~~tL~d~gI~~g 67 (335)
.|+. +.||.+|++.+.+..... .+.-+.+||++.. .+| +++++|.++||.+.
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 5776 899999999988765311 1334566776542 456 67889999999999
Q ss_pred CEEEEEee
Q 019817 68 GFLVVMLS 75 (335)
Q Consensus 68 ~~I~vv~~ 75 (335)
..|-+..+
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 99887754
No 116
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=88.31 E-value=2.5 Score=33.23 Aligned_cols=62 Identities=16% Similarity=0.221 Sum_probs=42.3
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eC--C-eecCC-CCchhhcCCCCCCEEEEEeec
Q 019817 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HN--G-KVLKD-ETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 11 ~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~--G-k~L~D-~~tL~d~gI~~g~~I~vv~~~ 76 (335)
..++..+...+||..+++.+.+.+. + ....||- |. + ..|.+ +.||.+.||.+|-.|++=.+.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~---i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFN---I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT-----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhC---C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 4577788999999999999999998 8 6677884 22 2 34644 579999999999988776554
No 117
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=88.01 E-value=3 Score=32.25 Aligned_cols=70 Identities=14% Similarity=0.146 Sum_probs=46.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCCe----e-cCCCCchhh----cCCCCCCEE
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGK----V-LKDETTLAD----NKVSEDGFL 70 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~-~~qrLi~~Gk----~-L~D~~tL~d----~gI~~g~~I 70 (335)
|+|++. .+|..+.+.+.++.+..+|+.+|.++++ +.. ....|-|..- + |..+.-|.+ |.....++|
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v 76 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTI 76 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeE
Confidence 455555 4677889999999999999999999988 543 4667766432 1 233333443 334445566
Q ss_pred EEEe
Q 019817 71 VVML 74 (335)
Q Consensus 71 ~vv~ 74 (335)
.+.+
T Consensus 77 ~l~v 80 (82)
T cd06407 77 RLLV 80 (82)
T ss_pred EEEe
Confidence 6554
No 118
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=87.13 E-value=0.95 Score=43.17 Aligned_cols=36 Identities=19% Similarity=0.370 Sum_probs=32.0
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 155 ~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
..|++|-++ | =..-+|++||..+++|.|.|++||-.
T Consensus 7 ~~VKeLRe~Tg---AGMmdCKkAL~E~~Gd~EkAie~LR~ 43 (296)
T COG0264 7 ALVKELREKTG---AGMMDCKKALEEANGDIEKAIEWLRE 43 (296)
T ss_pred HHHHHHHHHhC---CcHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 578888887 5 56888999999999999999999976
No 119
>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=86.42 E-value=0.21 Score=47.78 Aligned_cols=59 Identities=22% Similarity=0.378 Sum_probs=0.0
Q ss_pred EEEEEeCCCCEEEEEeC---C--CCcHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCchhh
Q 019817 2 KLTVKTLKGSHFEIRVQ---P--SDTVMAVKKNIED----------VQGKDNYPCGQQL-----LIHNGKVLKDETTLAD 61 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~---~--~~TV~dLK~~I~~----------~~g~~~ip~~~qr-----Li~~Gk~L~D~~tL~d 61 (335)
.|++|++.+-.+.|.+. + +.+|.+||..++. ..+ +|.+.+| |+|+-|.+.|.++|.+
T Consensus 80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~---vp~dKik~~~~~lL~~kkPv~~~ktl~e 156 (309)
T PF12754_consen 80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETR---VPLDKIKNFRCRLLYKKKPVGDSKTLAE 156 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhccccccccccc---CCHHHhhhhhhhheecCccCCCcCcHHH
Confidence 45666666665554333 2 5789999999999 677 9999999 9999999988998888
Q ss_pred cC
Q 019817 62 NK 63 (335)
Q Consensus 62 ~g 63 (335)
+.
T Consensus 157 ~l 158 (309)
T PF12754_consen 157 VL 158 (309)
T ss_dssp --
T ss_pred HH
Confidence 74
No 120
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=85.89 E-value=4.7 Score=30.50 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=41.3
Q ss_pred CC-EEEEEeCCC-CcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 10 GS-HFEIRVQPS-DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 10 g~-~~~i~V~~~-~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
|+ ...+++... .||.+|+..|..+++.-.-....+.+..+|+.+.+ +.-|++||.|.++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 44 356788866 89999999998886410001134567788888774 4567889999987
No 121
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=85.77 E-value=4 Score=30.16 Aligned_cols=68 Identities=16% Similarity=0.221 Sum_probs=53.0
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi-~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
.+|+...++......+.-+..+.-+..|...-|++...|- -+|.+|+-++.++|||+.++-++++.++
T Consensus 3 VNGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLK 71 (76)
T PF10790_consen 3 VNGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLK 71 (76)
T ss_pred eCCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEee
Confidence 3688888888888887777777666666333667766664 5788898899999999999999988765
No 122
>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=84.63 E-value=2.9 Score=30.94 Aligned_cols=60 Identities=15% Similarity=0.153 Sum_probs=46.3
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
...+.+....||.+|.+.+...++.. .......+..+|+.+.+ ...+.-+++||.|.++-
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 56778889999999999998886411 12367888999999977 35566678999999873
No 123
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=84.11 E-value=2 Score=42.32 Aligned_cols=67 Identities=16% Similarity=0.281 Sum_probs=51.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCchhhcCCCCCCEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSEDGFL 70 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D-~~tL~d~gI~~g~~I 70 (335)
.|.||..+|+.+...++.+.||.+|+..|...... .+...+-|+ |--|.|.| +.||++.||.+.-.|
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~--~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlv 376 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPG--DSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLV 376 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCC--CcCCceeeeecCCCcccCCcchhHHhccchhhhhh
Confidence 47889999999999999999999999999988661 233345554 55688865 679999999865433
No 124
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=84.02 E-value=4.9 Score=30.21 Aligned_cols=45 Identities=9% Similarity=0.097 Sum_probs=36.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
+|+|+. ++..+.+.+....|..+|+.+|..+++ ......+|-|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~---~~~~~~~l~Y~D 47 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFG---LDNQSFTLKYQD 47 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhC---CCCCCeEEEEEC
Confidence 455654 667888999999999999999999998 666778888864
No 125
>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=83.48 E-value=2.3 Score=35.15 Aligned_cols=37 Identities=14% Similarity=0.112 Sum_probs=31.5
Q ss_pred cHHHHHHHHHC-CCChHHHHHHHHHhCCCHHHHHHHHh
Q 019817 291 EQEAIQRLEAM-GFDRALVIEAFLACDRNEELAANYLL 327 (335)
Q Consensus 291 e~~aI~rL~~l-GF~~~~~i~Ay~acdknee~Aan~Lf 327 (335)
..+.|+-+++- |-++..|++||.+|++|.-.|.-||-
T Consensus 78 ~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 78 TEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 34567777765 99999999999999999999998874
No 126
>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats). This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.
Probab=83.46 E-value=3.8 Score=31.97 Aligned_cols=61 Identities=15% Similarity=0.183 Sum_probs=43.3
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
+...++-..++..||..++.+.+ +.-+...+......|+.+++|-+-+|+-...|.+-+.-
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 44566677889999999999999 77888888888888999999999999988888887653
No 127
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=83.39 E-value=2.6 Score=34.76 Aligned_cols=37 Identities=27% Similarity=0.351 Sum_probs=32.5
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 154 ~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
++-|..+++- | -+++.|++||+.++||.-.|+-||.+
T Consensus 77 ~edI~lv~~q~g---vs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 77 EEDIELVAEQTG---VSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred HHHHHHHHHHHC---cCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 4678888886 6 89999999999999999999999964
No 128
>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=83.29 E-value=8.5 Score=29.51 Aligned_cols=59 Identities=12% Similarity=0.209 Sum_probs=40.5
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCC--CC-C-----CCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 11 SHFEIRVQPSDTVMAVKKNIEDVQGKD--NY-P-----CGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 11 ~~~~i~V~~~~TV~dLK~~I~~~~g~~--~i-p-----~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
....+++. ..||.+|.+.|..+++.. .+ . -....+..+|+....+.. .-|++||.|.++
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 35677776 889999999998885410 00 0 123566778887754432 568899999987
No 129
>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=83.06 E-value=12 Score=32.74 Aligned_cols=61 Identities=25% Similarity=0.211 Sum_probs=45.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEEEeC---C---eecCCCCchhhcCCC
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHN---G---KVLKDETTLADNKVS 65 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~-~~qrLi~~---G---k~L~D~~tL~d~gI~ 65 (335)
.|.|...+|....+.++.+.||.+|...|+.+.| +.. ...-|.+. + ..|+...+|.+...+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 5788899999999999999999999999999999 632 22244331 1 346667777777654
No 130
>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=82.98 E-value=0.97 Score=31.06 Aligned_cols=25 Identities=20% Similarity=0.325 Sum_probs=21.4
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACD 316 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acd 316 (335)
.++++-|..|||.+.++.+|+....
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 4789999999999999999988774
No 131
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=82.10 E-value=7 Score=28.30 Aligned_cols=61 Identities=15% Similarity=0.276 Sum_probs=42.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+ ++....||.+|-.. .+ ++.....+.++|+++.-. ...+.-+++||.|-++.
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~lL~~----l~---~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQL---NGEPR--ELPDGESVAALLAR----EG---LAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVH 61 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cC---CCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEE
Confidence 55554 47765 44567888887754 46 778888889999888532 23344478999998764
No 132
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=82.03 E-value=3 Score=34.43 Aligned_cols=38 Identities=16% Similarity=0.099 Sum_probs=32.3
Q ss_pred cHHHHHHHHHC-CCChHHHHHHHHHhCCCHHHHHHHHhc
Q 019817 291 EQEAIQRLEAM-GFDRALVIEAFLACDRNEELAANYLLE 328 (335)
Q Consensus 291 e~~aI~rL~~l-GF~~~~~i~Ay~acdknee~Aan~Lf~ 328 (335)
+.+.|+-+++- |-++..|++||..|++|.-.|.-+|-+
T Consensus 76 ~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 76 PEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 34567777766 999999999999999999999988854
No 133
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=81.97 E-value=7.2 Score=28.46 Aligned_cols=60 Identities=22% Similarity=0.271 Sum_probs=42.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+.+ ....||.+|-.. .+ ++....-+.+++.++..+. ...+ +++||.|-++.
T Consensus 1 m~i~v---NG~~~~~--~~~~tl~~ll~~----l~---~~~~~vav~~N~~iv~r~~-~~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVV---NEEQVEV--DEQTTVAALLDS----LG---FPEKGIAVAVDWSVLPRSD-WATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhH-hhhh-cCCCCEEEEEe
Confidence 55555 4776555 467788877654 46 7888999999999885332 2345 89999998874
No 134
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=81.65 E-value=0.59 Score=35.82 Aligned_cols=27 Identities=37% Similarity=0.482 Sum_probs=23.6
Q ss_pred C-CHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 168 W-DKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 168 f-~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
. ++.+++.||...++++++||+||++.
T Consensus 43 ~~~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 43 VPPEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp C--CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 5 89999999999999999999999987
No 135
>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=80.04 E-value=2 Score=29.46 Aligned_cols=26 Identities=19% Similarity=0.538 Sum_probs=22.6
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
.++++..|+.+| |.+.++.+|++...
T Consensus 3 ~~d~~~AL~~LG---y~~~e~~~av~~~~ 28 (47)
T PF07499_consen 3 LEDALEALISLG---YSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhh
Confidence 468999999999 99999999999874
No 136
>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=79.79 E-value=8 Score=30.29 Aligned_cols=45 Identities=16% Similarity=0.223 Sum_probs=35.0
Q ss_pred EEEEeC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 019817 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (335)
Q Consensus 3 I~Vkt~-~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk 51 (335)
|+||.. .|..+.+.|.++.+..+|..+|.++++ +. ..++|-|...
T Consensus 3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~---~~-~~~~iKykDE 48 (86)
T cd06408 3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFG---FK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhC---CC-CceEEEEEcC
Confidence 455544 688899999999999999999999998 53 4556666544
No 137
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.28 E-value=2.1 Score=41.48 Aligned_cols=56 Identities=16% Similarity=0.144 Sum_probs=44.8
Q ss_pred EeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeec-----CCCCchhhcCCCCCCEEEEEe
Q 019817 16 RVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVL-----KDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 16 ~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~---~Gk~L-----~D~~tL~d~gI~~g~~I~vv~ 74 (335)
-|+-.-||.|||+++..+.| +.+.++||+| .||.- ..+..|-.|+|++||.+.|-.
T Consensus 353 ~I~~~~TV~D~~~~Ld~~VG---vk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvqe 416 (418)
T KOG2982|consen 353 LICMTRTVLDFMKILDPKVG---VKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQE 416 (418)
T ss_pred EEEeehHHHHHHHHhccccc---cccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeeec
Confidence 34456799999999999999 8999999987 34432 346789999999999988753
No 138
>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=78.86 E-value=13 Score=28.07 Aligned_cols=45 Identities=18% Similarity=0.082 Sum_probs=38.8
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
+.|...+|+.-.+.|.+..||.++-.++.++.| +.+....|.+.|
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 467778999999999999999999999999999 888877776554
No 139
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=78.01 E-value=15 Score=26.82 Aligned_cols=61 Identities=11% Similarity=0.158 Sum_probs=42.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+.+ ....||.+|.+. .+ +......+-.+++++. .....++-+++||.|.++.
T Consensus 1 m~i~v---Ng~~~~~--~~~~tl~~ll~~----l~---~~~~~vaVavN~~iv~-r~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILF---NDQPMQC--AAGQTVHELLEQ----LN---QLQPGAALAINQQIIP-REQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEE---CCeEEEc--CCCCCHHHHHHH----cC---CCCCcEEEEECCEEeC-hHHcCccccCCCCEEEEEE
Confidence 56665 4776655 567789988865 34 4456688889999984 2234444588999998874
No 140
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=77.57 E-value=16 Score=26.16 Aligned_cols=60 Identities=13% Similarity=0.142 Sum_probs=38.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+ ++....||.+|.+.+ + +. ....+.++|+++.... ..+.-+++||.|.++-
T Consensus 1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQL---NQQTL--SLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEE---CCEEE--ECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 55555 46664 445678899888764 4 33 3467788999874321 2333478899998873
No 141
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=76.98 E-value=10 Score=27.52 Aligned_cols=57 Identities=12% Similarity=0.249 Sum_probs=40.4
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
++|+.+.+ +...||.+|.+.+ + ++.....+.++|+++..+ ...++-|++||.|.++-
T Consensus 4 iNg~~~~~--~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 4 VNGEPREV--EEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT 60 (65)
T ss_pred ECCeEEEc--CCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 45666544 5678999988764 4 667788889999988532 23334588999998873
No 142
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=76.95 E-value=1.9 Score=33.03 Aligned_cols=45 Identities=24% Similarity=0.360 Sum_probs=33.7
Q ss_pred cCCcccHHHHHHH-----HHCC--C-ChHHHHHHHHHhCCCHHHHHHHHhccC
Q 019817 286 NVTPAEQEAIQRL-----EAMG--F-DRALVIEAFLACDRNEELAANYLLENA 330 (335)
Q Consensus 286 ~lt~ee~~aI~rL-----~~lG--F-~~~~~i~Ay~acdknee~Aan~Lf~~~ 330 (335)
.|+++|++.+... ..|| . ++.+.++|++.|.-|.+.|.+||++..
T Consensus 19 ~Ls~ed~~~L~~~l~~vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~~ 71 (79)
T PF08938_consen 19 ELSPEDQAQLYSCLPQVREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLSKF 71 (79)
T ss_dssp H-TCHHHHHHCHHCCCHHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred cCCHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHhc
Confidence 5788887765442 2455 5 899999999999999999999999863
No 143
>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=76.73 E-value=18 Score=36.83 Aligned_cols=72 Identities=17% Similarity=0.256 Sum_probs=54.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC---CCCCCCeEEE-eCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKD---NYPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~---~ip~~~qrLi-~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
+|+|...+ +..++-+..+..|.+|-..|-+..+.+ ........|. .+|..|+.+.+|.+.+|.||+.+++.-
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 57777543 447888888999999999999888721 1223344554 467889999999999999999999874
No 144
>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=76.51 E-value=5.6 Score=32.87 Aligned_cols=36 Identities=28% Similarity=0.299 Sum_probs=31.3
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 019817 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (335)
Q Consensus 154 ~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~ 192 (335)
++-|.-+++- | -+++.|++||+.++||.-.|+-||.
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 4667778875 6 8999999999999999999999984
No 145
>smart00455 RBD Raf-like Ras-binding domain.
Probab=76.29 E-value=8.7 Score=28.69 Aligned_cols=45 Identities=16% Similarity=0.135 Sum_probs=39.8
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
+.|-..+|+...+.+.+..||.++-.++.++.| +.++...|.+.|
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~---l~~~~~~v~~~g 46 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRG---LNPECCVVRLRG 46 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEcC
Confidence 356677899999999999999999999999999 888888888755
No 146
>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=75.48 E-value=11 Score=39.32 Aligned_cols=65 Identities=29% Similarity=0.432 Sum_probs=42.0
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCCC------CCCeEEE--eC--Ce-ecCCC-------------CchhhcCCCC
Q 019817 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYP------CGQQLLI--HN--GK-VLKDE-------------TTLADNKVSE 66 (335)
Q Consensus 11 ~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip------~~~qrLi--~~--Gk-~L~D~-------------~tL~d~gI~~ 66 (335)
..+.|.|-..+||.++|+||-+..-++ .| ++.+-|- .+ |+ +|.|. .||..|+|.+
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 458889999999999999998765322 22 3344443 22 23 45432 3789999999
Q ss_pred CCEEEEEeec
Q 019817 67 DGFLVVMLSK 76 (335)
Q Consensus 67 g~~I~vv~~~ 76 (335)
|++|.++.+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9999988654
No 147
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=75.47 E-value=16 Score=27.19 Aligned_cols=63 Identities=22% Similarity=0.315 Sum_probs=43.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|.++|. .+|+.+. +....|+.+|-+. .+ ++....-+.++|.++..+ -..+.-+++||.|-++.
T Consensus 1 ~~m~i~-~ng~~~e--~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~ 63 (68)
T COG2104 1 MPMTIQ-LNGKEVE--IAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVR 63 (68)
T ss_pred CcEEEE-ECCEEEE--cCCCCcHHHHHHH----hC---CCCceEEEEECCEEccch-hhhhccccCCCEEEEEE
Confidence 445555 3466544 4555899988765 56 777888889999998532 34455678889888763
No 148
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=75.40 E-value=3.8 Score=32.01 Aligned_cols=52 Identities=10% Similarity=0.027 Sum_probs=28.2
Q ss_pred CCCcHHHHHHHHHH-HhCCCCCCCC----CeEEEeCCee----cCCCCchhhcCCCCCCEEEEE
Q 019817 19 PSDTVMAVKKNIED-VQGKDNYPCG----QQLLIHNGKV----LKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 19 ~~~TV~dLK~~I~~-~~g~~~ip~~----~qrLi~~Gk~----L~D~~tL~d~gI~~g~~I~vv 73 (335)
..+|+.+|-++|.+ +.| +..- .-++||.... -..+++|+++||++|++|.|.
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 46799999998654 444 2211 2244444332 122579999999999988775
No 149
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=74.44 E-value=14 Score=27.17 Aligned_cols=61 Identities=18% Similarity=0.282 Sum_probs=41.5
Q ss_pred CEEEEEeCCCCEEEEEeCCC-CcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPS-DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~-~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|+|+| +|+.+.+ ... .||.+|-+. .+ +++...-+-++|+++.- ....++-+++||.|-++.
T Consensus 1 m~I~v---NG~~~~~--~~~~~tv~~lL~~----l~---~~~~~vav~vN~~iv~r-~~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKI---NGNQIEV--PESVKTVAELLTH----LE---LDNKIVVVERNKDILQK-DDHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEE---CCEEEEc--CCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 55555 4776655 444 578777653 56 76777788899999842 334555689999998874
No 150
>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=73.44 E-value=13 Score=27.60 Aligned_cols=45 Identities=18% Similarity=0.099 Sum_probs=34.4
Q ss_pred EEEEEeCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 2 KLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~-~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
+|+++. +|..+.+.+. ...|..+|+.+|...++ ......+|-|..
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 455553 4677788888 89999999999999998 554567777754
No 151
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=73.20 E-value=15 Score=36.77 Aligned_cols=73 Identities=19% Similarity=0.236 Sum_probs=55.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----Cee--cCCCCchhhcCCCCCCEEEEEe
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GKV--LKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~----Gk~--L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
|.+.||+..|. ..+++.++++++-|-.+|-.-...+ +.++.+.+.-+ |.+ +..++|+.++|+++|++|+|-.
T Consensus 1 Mi~rfRsk~G~-~Rve~qe~d~lg~l~~kll~~~~~n-~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVN-YSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCCc-eeeeccccchhhhhhHHHHhhhccC-CCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 78889976665 6789999999999988887665433 66777777642 332 3457899999999999999876
Q ss_pred e
Q 019817 75 S 75 (335)
Q Consensus 75 ~ 75 (335)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 3
No 152
>PRK07440 hypothetical protein; Provisional
Probab=72.41 E-value=18 Score=26.87 Aligned_cols=57 Identities=12% Similarity=0.190 Sum_probs=40.5
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
++|+.+ ++....||.+|-+. .+ +.+...-+-++|+++. .....++-+++||.|-++.
T Consensus 9 vNG~~~--~~~~~~tl~~lL~~----l~---~~~~~vav~~N~~iv~-r~~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 9 VNGETR--TCSSGTSLPDLLQQ----LG---FNPRLVAVEYNGEILH-RQFWEQTQVQPGDRLEIVT 65 (70)
T ss_pred ECCEEE--EcCCCCCHHHHHHH----cC---CCCCeEEEEECCEEeC-HHHcCceecCCCCEEEEEE
Confidence 457764 44567888887753 45 7777888889999984 2334555688999998874
No 153
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=72.08 E-value=19 Score=27.90 Aligned_cols=57 Identities=9% Similarity=0.159 Sum_probs=40.9
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
++|+.+.+ +...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|-++.
T Consensus 23 VNG~~~~~--~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 23 INDQSIQV--DISSSLAQIIAQ----LS---LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred ECCeEEEc--CCCCcHHHHHHH----cC---CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 35665444 567788877664 46 7777778889999983 4456666789999998874
No 154
>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=71.17 E-value=16 Score=27.46 Aligned_cols=44 Identities=14% Similarity=0.113 Sum_probs=34.4
Q ss_pred EEEEeCCCCEEE-EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 3 LTVKTLKGSHFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 3 I~Vkt~~g~~~~-i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
|+++. ++..+. +.+....+..+|+.+|...++ .+....+|.|..
T Consensus 4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~D 48 (84)
T PF00564_consen 4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEEE
T ss_pred EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEeeC
Confidence 44442 445555 899999999999999999999 666788998864
No 155
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=70.08 E-value=18 Score=26.15 Aligned_cols=57 Identities=16% Similarity=0.260 Sum_probs=40.2
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 8 ~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
++|+.+.+ ....||.+|.+. .+ +++....+.++|+++.. ....++-|++||.|-++.
T Consensus 3 iNg~~~~~--~~~~tv~~ll~~----l~---~~~~~v~v~vN~~iv~~-~~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPVEV--EDGLTLAALLES----LG---LDPRRVAVAVNGEIVPR-SEWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEEEc--CCCCcHHHHHHH----cC---CCCCeEEEEECCEEcCH-HHcCceecCCCCEEEEEE
Confidence 46776555 567789998875 35 66677788899998842 223445688999998873
No 156
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=68.66 E-value=8.6 Score=37.16 Aligned_cols=39 Identities=18% Similarity=0.303 Sum_probs=35.6
Q ss_pred ccHHHHHHHHHC-CCChHHHHHHHHHhCCCHHHHHHHHhc
Q 019817 290 AEQEAIQRLEAM-GFDRALVIEAFLACDRNEELAANYLLE 328 (335)
Q Consensus 290 ee~~aI~rL~~l-GF~~~~~i~Ay~acdknee~Aan~Lf~ 328 (335)
..+++|..|.+- |++-..|.+|+..|++|..+|-.||-+
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k 84 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHK 84 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHH
Confidence 468899999876 999999999999999999999999965
No 157
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=68.65 E-value=10 Score=30.42 Aligned_cols=31 Identities=19% Similarity=0.277 Sum_probs=23.1
Q ss_pred EEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 45 LLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 45 rLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
.|-|.||.|..+++|++| |..+..-.|+++.
T Consensus 3 ~LW~aGK~l~~~k~l~dy-~GkNEKtKiivKl 33 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDY-IGKNEKTKIIVKL 33 (98)
T ss_pred eEEeccccccCCCcHHHh-cCCCcceeEEEEe
Confidence 578999999999999999 5555555555543
No 158
>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=65.29 E-value=44 Score=26.12 Aligned_cols=67 Identities=13% Similarity=0.148 Sum_probs=44.8
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCchhhc----CCCCCCEEE
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI------HNGKVLKDETTLADN----KVSEDGFLV 71 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi------~~Gk~L~D~~tL~d~----gI~~g~~I~ 71 (335)
|+|...+|....|.|+...|+.++-+.+..+.++. +...--|+ +-.+.|+|...|-++ ++..+..|+
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~--~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l~ 81 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ--DDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLF 81 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC--CCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEE
Confidence 56667789999999999999999999999998832 22233332 224667777655443 553444443
No 159
>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=65.19 E-value=5.6 Score=26.43 Aligned_cols=24 Identities=33% Similarity=0.546 Sum_probs=20.0
Q ss_pred CChHHHHHHHHHhCCCHHHHHHHH
Q 019817 303 FDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 303 F~~~~~i~Ay~acdknee~Aan~L 326 (335)
|.+....+|+..|++|...||..|
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 456778899999999999999987
No 160
>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=63.48 E-value=59 Score=24.18 Aligned_cols=57 Identities=16% Similarity=0.067 Sum_probs=40.7
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecCCCCchhhc
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLKDETTLADN 62 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G--k~L~D~~tL~d~ 62 (335)
+.|...+|+...+.|.+..||.++-.++.++.| +.+....+...| +.|.-+.....+
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceeee
Confidence 567778999999999999999999999999999 777766665433 556555544443
No 161
>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=63.18 E-value=28 Score=26.94 Aligned_cols=34 Identities=21% Similarity=0.208 Sum_probs=28.0
Q ss_pred EEEEeCCCCEEEEEeCC--CCcHHHHHHHHHHHhCCCCCC
Q 019817 3 LTVKTLKGSHFEIRVQP--SDTVMAVKKNIEDVQGKDNYP 40 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~--~~TV~dLK~~I~~~~g~~~ip 40 (335)
|++. .+|.++.+.+++ +.+..+|+..|...++ ++
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 4443 468888889988 7799999999999998 66
No 162
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=62.70 E-value=51 Score=24.82 Aligned_cols=57 Identities=28% Similarity=0.236 Sum_probs=39.2
Q ss_pred EEEEeCCCC----EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE----eCC--eecCC-CCchh
Q 019817 3 LTVKTLKGS----HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI----HNG--KVLKD-ETTLA 60 (335)
Q Consensus 3 I~Vkt~~g~----~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi----~~G--k~L~D-~~tL~ 60 (335)
|+|-..++. ...|.|...+|+.+|-+.+.++++. .-.+....|+ ..| +.|.+ +..|.
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l-~~~~~~y~L~~~~~~~~~er~L~~~E~pl~ 72 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGL-AEDPSDYCLVEVEESGGEERPLDDDECPLQ 72 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTT-SSSGGGEEEEEEECTTTEEEEETTTSBHHH
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCC-CCCCCCEEEEEEEcCCCEEEEcCCCCchHH
Confidence 556666666 7889999999999999999999992 1234556673 223 56765 44443
No 163
>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=62.66 E-value=41 Score=27.16 Aligned_cols=75 Identities=16% Similarity=0.084 Sum_probs=46.9
Q ss_pred EEEEeCC-CCEEEEEeCCCCcHHHHHHHHHHHhC--C-CCCCCC-CeEEEeCCe--ecCCCCchhhc-----CCCCCCEE
Q 019817 3 LTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQG--K-DNYPCG-QQLLIHNGK--VLKDETTLADN-----KVSEDGFL 70 (335)
Q Consensus 3 I~Vkt~~-g~~~~i~V~~~~TV~dLK~~I~~~~g--~-~~ip~~-~qrLi~~Gk--~L~D~~tL~d~-----gI~~g~~I 70 (335)
|.|...+ ...+++.++.++|+.+|.+.+-.+.- . ..-+.+ +..|--.|+ .|..+..|.+| .++.|..+
T Consensus 20 v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~ 99 (108)
T smart00144 20 IVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREP 99 (108)
T ss_pred EEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCc
Confidence 4444433 35688999999999999998776521 0 111222 455555664 35556666665 36788888
Q ss_pred EEEeecC
Q 019817 71 VVMLSKS 77 (335)
Q Consensus 71 ~vv~~~~ 77 (335)
+|++...
T Consensus 100 ~L~L~~~ 106 (108)
T smart00144 100 HLVLMTL 106 (108)
T ss_pred eEEEEec
Confidence 8887643
No 164
>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=61.71 E-value=17 Score=25.30 Aligned_cols=40 Identities=23% Similarity=0.378 Sum_probs=30.2
Q ss_pred HHHHHHHH--CCCChHHHHHHHHHhCCCHHHHHHHHhccCCC
Q 019817 293 EAIQRLEA--MGFDRALVIEAFLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 293 ~aI~rL~~--lGF~~~~~i~Ay~acdknee~Aan~Lf~~~~d 332 (335)
+-|++... -|=+|+..|.-+..++-|.++|.|-|++..++
T Consensus 11 dlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDde 52 (53)
T PF11547_consen 11 DLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDDE 52 (53)
T ss_dssp HHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhccccC
Confidence 44665443 49999999999999999999999999987443
No 165
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=61.66 E-value=28 Score=37.28 Aligned_cols=48 Identities=21% Similarity=0.399 Sum_probs=40.1
Q ss_pred EEEEeC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec
Q 019817 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL 53 (335)
Q Consensus 3 I~Vkt~-~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L 53 (335)
|+|=.. +...+.+-++++.|+..|+.+|+..+| +|.+.|-|+|.|...
T Consensus 316 vhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~ 364 (732)
T KOG4250|consen 316 VHIFSMVQATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLS 364 (732)
T ss_pred eEEEeeccceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCcc
Confidence 444333 456688899999999999999999999 999999999998654
No 166
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=61.59 E-value=28 Score=33.06 Aligned_cols=68 Identities=13% Similarity=0.178 Sum_probs=51.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecC--C-CCchhhcCCCCCCEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLK--D-ETTLADNKVSEDGFLVV 72 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL--i~~Gk~L~--D-~~tL~d~gI~~g~~I~v 72 (335)
.|.||..+|+++...+....|+..++..|.-..+ ...+-..| -|--+.+. | .++|..+++-...+|++
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~---~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRG---DGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhcc---CCCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 4789988999999999999999999999999988 33333333 23445553 2 47899999988887765
No 167
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=61.46 E-value=35 Score=26.26 Aligned_cols=53 Identities=25% Similarity=0.299 Sum_probs=40.6
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCchhhcCCCCCCEEEEEe
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~-~Gk~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
+..+.+.++...||+++-+. .| +|.....+|+ +|+...= +|-+++|+.|.|.-
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG---VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG---VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC---CChHHeEEEEECCEECCC-----cccCCCCCEEEEEe
Confidence 45677888899999887654 78 9999998765 8876543 36688999998873
No 168
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=61.19 E-value=3 Score=29.74 Aligned_cols=46 Identities=13% Similarity=-0.062 Sum_probs=38.9
Q ss_pred cCCcccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhccCCC
Q 019817 286 NVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 286 ~lt~ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~~~d 332 (335)
.++........+++..|+.+.. .+++..|.+..++++.+.+.+...
T Consensus 7 ~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 52 (57)
T COG5272 7 KATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMDCERNLEA 52 (57)
T ss_pred ccccccccccchHHHHhhccch-hhhhhhccChhhhhcccccccccc
Confidence 3455667778899999999999 999999999999999998877543
No 169
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=60.96 E-value=28 Score=33.96 Aligned_cols=63 Identities=14% Similarity=0.167 Sum_probs=45.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
|+|+| +|+.+. +....||.+|-+. .+ ++.+...+.++|+++. .....++-|++||.|-++.--
T Consensus 1 M~I~V---NGk~~e--l~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVp-r~~w~~t~LkeGD~IEII~~V 63 (326)
T PRK11840 1 MRIRL---NGEPRQ--VPAGLTIAALLAE----LG---LAPKKVAVERNLEIVP-RSEYGQVALEEGDELEIVHFV 63 (326)
T ss_pred CEEEE---CCEEEe--cCCCCcHHHHHHH----cC---CCCCeEEEEECCEECC-HHHcCccccCCCCEEEEEEEe
Confidence 55555 477644 4567788887754 46 7888999999999984 334456668999999887543
No 170
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=60.94 E-value=14 Score=35.66 Aligned_cols=39 Identities=13% Similarity=0.158 Sum_probs=34.6
Q ss_pred HHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 153 ~~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
....|++|-+- | |+...|++||..++||...|.+||-.-
T Consensus 46 ~~allk~LR~kTg---as~~ncKkALee~~gDl~~A~~~L~k~ 85 (340)
T KOG1071|consen 46 SKALLKKLREKTG---ASMVNCKKALEECGGDLVLAEEWLHKK 85 (340)
T ss_pred cHHHHHHHHHHcC---CcHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence 35789999886 8 999999999999999999999999753
No 171
>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=59.88 E-value=36 Score=26.19 Aligned_cols=65 Identities=15% Similarity=0.221 Sum_probs=42.4
Q ss_pred EEEEeCCC-CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 3 LTVKTLKG-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 3 I~Vkt~~g-~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~--~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
++|++.+. ..+-|-. .++.+|+.+.++.++ ++....+|+. .|.+++|+.-+..+ . .+++.|++.+
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~tL--p-~nT~lm~L~~ 72 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQTL--P-DNTVLMLLEK 72 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCCS--S-SSEEEEEEES
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhhC--C-CCCEEEEECC
Confidence 35665543 3344543 479999999999999 8877777765 78888877555543 3 4455555543
No 172
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=59.73 E-value=41 Score=30.51 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=31.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCchhhc
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLL--IHNGKV---LKDETTLADN 62 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~---~qrL--i~~Gk~---L~D~~tL~d~ 62 (335)
.+.+-|+.+.||.||...+..+.+ ++.+ .+|| ++++|+ +..+..|.++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~---~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVG---FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT-------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcC---CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 477889999999999999999988 5543 5565 478865 5777888876
No 173
>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=59.69 E-value=14 Score=28.15 Aligned_cols=40 Identities=25% Similarity=0.434 Sum_probs=31.8
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCC-HHHHHHHHHhC
Q 019817 155 QTIQQIMDMGGGTWDKETVTRALQAAYNN-PERAVDYLYSG 194 (335)
Q Consensus 155 ~~v~~l~~mG~~~f~~~~~~~Al~~~~~~-~~~A~~~L~~g 194 (335)
.-+-.||=+|+|+|+-++-..|++.+..+ -.+.++||+..
T Consensus 19 aeLvALmwiGRGd~~~eew~~a~~~A~~~~~~~ta~YLl~~ 59 (75)
T PF12616_consen 19 AELVALMWIGRGDFEAEEWEEAVAEARERASARTADYLLGT 59 (75)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHhccchHHHHHHcC
Confidence 34567888999999999999999988554 47788999743
No 174
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=59.49 E-value=19 Score=29.94 Aligned_cols=34 Identities=24% Similarity=0.187 Sum_probs=28.3
Q ss_pred HHHHHHHHC-CCChHHHHHHHHHhCCCHHHHHHHH
Q 019817 293 EAIQRLEAM-GFDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 293 ~aI~rL~~l-GF~~~~~i~Ay~acdknee~Aan~L 326 (335)
+.|+-.++- |-+|+.||+||.+|+.|.--|+--|
T Consensus 86 eDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 86 EDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 456665554 9999999999999999999988665
No 175
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=59.31 E-value=20 Score=36.12 Aligned_cols=73 Identities=21% Similarity=0.269 Sum_probs=58.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCchhhcCCCCCCEEEEEeec
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKD---ETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL--i~~Gk~L~D---~~tL~d~gI~~g~~I~vv~~~ 76 (335)
+|.||..+|..|+-++..+.-+..+|..|....+ +.....-| -|-.|+..| +++|.++.+.+...|+|+-++
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~---i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~ 392 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQT---IGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKK 392 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhccc---ccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecC
Confidence 5789999999999888888888999999887776 66677666 488888743 579999999998888877544
Q ss_pred C
Q 019817 77 S 77 (335)
Q Consensus 77 ~ 77 (335)
+
T Consensus 393 r 393 (506)
T KOG2507|consen 393 R 393 (506)
T ss_pred C
Confidence 3
No 176
>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=58.82 E-value=35 Score=23.80 Aligned_cols=38 Identities=29% Similarity=0.309 Sum_probs=30.4
Q ss_pred HHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 154 EQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 154 ~~~v~~l~~m--G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
|+.|++-... | -+|+-++|-|+.++-|++.|+|-|++.
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 5667666554 7 999999999999999999999999875
No 177
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=57.22 E-value=13 Score=31.63 Aligned_cols=31 Identities=23% Similarity=0.296 Sum_probs=25.6
Q ss_pred eecCCCCchhhcCCCCCCEEEEEeecCCCCC
Q 019817 51 KVLKDETTLADNKVSEDGFLVVMLSKSKTLG 81 (335)
Q Consensus 51 k~L~D~~tL~d~gI~~g~~I~vv~~~~~~~~ 81 (335)
|-.+|+++|..++++-||.|.|.+..++..+
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~~~ 142 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNRRP 142 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCcccCC
Confidence 3457899999999999999999988765443
No 178
>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=57.15 E-value=25 Score=27.05 Aligned_cols=36 Identities=8% Similarity=0.083 Sum_probs=32.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
++.|.+.+..+..+|..+|+++.. .+++..+|-|.-
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~---l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALP---QQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhc---CChhhcEEEecC
Confidence 456788999999999999999999 999999999864
No 179
>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=55.54 E-value=63 Score=25.41 Aligned_cols=69 Identities=17% Similarity=0.181 Sum_probs=44.5
Q ss_pred EEEEeCCCCEEEEEeCC-----CCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCC---ee--cCCCCchhh-----cCCCC
Q 019817 3 LTVKTLKGSHFEIRVQP-----SDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNG---KV--LKDETTLAD-----NKVSE 66 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~-----~~TV~dLK~~I~~~~g~~~ip~-~~qrLi~~G---k~--L~D~~tL~d-----~gI~~ 66 (335)
|+|+ .+|....|.++. +.+..+|+.+|.+.++ ++. ....|.|.. .. |.++.-|.+ +....
T Consensus 3 vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~ 78 (91)
T cd06398 3 VKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSR 78 (91)
T ss_pred EEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCC
Confidence 3443 356666677764 7899999999999998 776 577777754 22 333333332 23345
Q ss_pred CCEEEEEee
Q 019817 67 DGFLVVMLS 75 (335)
Q Consensus 67 g~~I~vv~~ 75 (335)
..+|.+.++
T Consensus 79 ~~~lrl~v~ 87 (91)
T cd06398 79 LNPLRIDVT 87 (91)
T ss_pred CceEEEEEE
Confidence 677777765
No 180
>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=55.46 E-value=36 Score=24.75 Aligned_cols=38 Identities=16% Similarity=0.385 Sum_probs=32.4
Q ss_pred HHHHHHHHHC-C-CChHHHHHHHHHhCCCHHHHHHHHhcc
Q 019817 292 QEAIQRLEAM-G-FDRALVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 292 ~~aI~rL~~l-G-F~~~~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
+.-|+.|.+. | +++.+.--.|.-|+-|-+.|++-|+++
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 4567777776 3 699999999999999999999999875
No 181
>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=55.38 E-value=47 Score=26.19 Aligned_cols=54 Identities=17% Similarity=0.137 Sum_probs=33.2
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CC------eecCCC---Cch--hhcCCCCCCEEEEE
Q 019817 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NG------KVLKDE---TTL--ADNKVSEDGFLVVM 73 (335)
Q Consensus 15 i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~-~G------k~L~D~---~tL--~d~gI~~g~~I~vv 73 (335)
+.++...||.+|-..|...+. ..+.+|+. .| .+|-++ ..+ .++-+++||.|.++
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 344356799999999988753 33444433 22 223222 233 35679999999987
No 182
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=54.83 E-value=14 Score=26.87 Aligned_cols=20 Identities=15% Similarity=0.306 Sum_probs=16.9
Q ss_pred HHHHHCCCChHHHHHHHHHh
Q 019817 296 QRLEAMGFDRALVIEAFLAC 315 (335)
Q Consensus 296 ~rL~~lGF~~~~~i~Ay~ac 315 (335)
+-|++|||+.++|....+.|
T Consensus 7 ~dLi~lGf~~~tA~~IIrqA 26 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQA 26 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 45899999999999987754
No 183
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=54.73 E-value=79 Score=23.84 Aligned_cols=49 Identities=14% Similarity=0.176 Sum_probs=30.7
Q ss_pred CCcHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 20 SDTVMAVKKNIEDVQGK--DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 20 ~~TV~dLK~~I~~~~g~--~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
..||.+|++.|..++.. .....+..++..+++...+ +.-|++||.|.++
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~ 75 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFF 75 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEe
Confidence 47999999999888531 0011233344456654332 3348899999887
No 184
>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=54.30 E-value=16 Score=28.36 Aligned_cols=58 Identities=17% Similarity=0.177 Sum_probs=38.0
Q ss_pred EEeCCCCcHHHHHHHHHHHhC--CC--CCCCCCeEEEeCCe-ec------CCCCchhhcCCCCCCEEEEE
Q 019817 15 IRVQPSDTVMAVKKNIEDVQG--KD--NYPCGQQLLIHNGK-VL------KDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 15 i~V~~~~TV~dLK~~I~~~~g--~~--~ip~~~qrLi~~Gk-~L------~D~~tL~d~gI~~g~~I~vv 73 (335)
|+|++++|+.+|-+.|++... .. .+.-+.-.|++.+- .| +=+++|.++ +.+|+.|+|.
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 578999999999999998733 00 01122334444432 12 125889999 9999999884
No 185
>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=53.87 E-value=13 Score=36.59 Aligned_cols=25 Identities=16% Similarity=0.527 Sum_probs=21.0
Q ss_pred CcHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 019817 151 NDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (335)
Q Consensus 151 ~~~~~~v~~l~~mG~~~f~~~~~~~Al~ 178 (335)
--+++.|+.+..|| |.||+|+.-.+
T Consensus 319 ~p~ddvidKv~~MG---f~rDqV~a~v~ 343 (358)
T PF07223_consen 319 HPYDDVIDKVASMG---FRRDQVRATVR 343 (358)
T ss_pred CcHHHHHHHHHHcC---CcHHHHHHHHH
Confidence 34799999999999 99999975444
No 186
>PF13556 HTH_30: PucR C-terminal helix-turn-helix domain; PDB: 3ONQ_B.
Probab=53.70 E-value=15 Score=26.11 Aligned_cols=23 Identities=22% Similarity=0.179 Sum_probs=18.4
Q ss_pred HHHHHHHHhCCCHHHHHHHHhcc
Q 019817 307 LVIEAFLACDRNEELAANYLLEN 329 (335)
Q Consensus 307 ~~i~Ay~acdknee~Aan~Lf~~ 329 (335)
..+.+|+.|+.|...||.-||=|
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 46889999999999999999755
No 187
>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=53.63 E-value=43 Score=25.40 Aligned_cols=63 Identities=21% Similarity=0.246 Sum_probs=40.0
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH------NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 11 ~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~------~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
++|-+=.+++.||.+|+..|.+++.+ +.|....|.- .|=-|+.+-.+++. +..++.|.|+++.
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 44555578999999999999998762 3333333321 23334445556665 4578888888763
No 188
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=53.46 E-value=16 Score=32.96 Aligned_cols=28 Identities=36% Similarity=0.367 Sum_probs=23.9
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCCCH
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDRNE 319 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdkne 319 (335)
.++++-|.+|||++.++.+|+..+-.++
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~~~ 172 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIMLLD 172 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhcch
Confidence 5799999999999999999988775443
No 189
>PF09145 Ubiq-assoc: Ubiquitin-associated; InterPro: IPR015228 Ubiquitin-associated domains contain approximately 40 residues and bind ubiquitin noncovalently. They adopt a secondary structure consisting of three alpha-helices, and have been identified in various modular proteins involved in protein trafficking, clathrin assembly/disassembly, DNA repair, proteasomal degradation, and cell cycle regulation []. ; PDB: 1PGY_A.
Probab=52.73 E-value=10 Score=25.89 Aligned_cols=21 Identities=14% Similarity=0.259 Sum_probs=15.8
Q ss_pred HHHHHHHCCCChHHHHHHHHH
Q 019817 294 AIQRLEAMGFDRALVIEAFLA 314 (335)
Q Consensus 294 aI~rL~~lGF~~~~~i~Ay~a 314 (335)
.|.||++||.+.+.|..-|..
T Consensus 9 EiAkLMSLGLsid~A~~yYe~ 29 (46)
T PF09145_consen 9 EIAKLMSLGLSIDKANDYYER 29 (46)
T ss_dssp HHHHHHHH---SHHHHHHHHH
T ss_pred HHHHHHHccCCHHHHHHHHHc
Confidence 589999999999999998864
No 190
>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=52.29 E-value=27 Score=27.50 Aligned_cols=37 Identities=38% Similarity=0.602 Sum_probs=27.9
Q ss_pred HHHHHHHHHCCCChHHHH-HHHHHhCCCHHHHHHHHhc
Q 019817 292 QEAIQRLEAMGFDRALVI-EAFLACDRNEELAANYLLE 328 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i-~Ay~acdknee~Aan~Lf~ 328 (335)
...=.||.+.||++.-++ -=|+...||+++=.+||-+
T Consensus 29 ~~lg~~L~~~GfdKAy~vLGqfLll~kde~~F~~WLk~ 66 (89)
T PF02961_consen 29 PVLGKRLEEKGFDKAYVVLGQFLLLKKDEELFQDWLKD 66 (89)
T ss_dssp HHHHHHHHHTT--BHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHCCCcHHHHHhhhhhhccCcHHHHHHHHHH
Confidence 345679999999997655 4499999999999999965
No 191
>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=51.79 E-value=14 Score=24.46 Aligned_cols=27 Identities=30% Similarity=0.505 Sum_probs=22.2
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 019817 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (335)
Q Consensus 168 f~~~~~~~Al~~~~~~~~~A~~~L~~giP 196 (335)
|+++-+..||+.+.+|..+|.+.| ||+
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 667888999999999999999998 665
No 192
>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=51.18 E-value=1e+02 Score=26.55 Aligned_cols=74 Identities=19% Similarity=0.149 Sum_probs=38.3
Q ss_pred CEEEEEeCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCC-CCCCCCe----EEE-eCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 1 MKLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKD-NYPCGQQ----LLI-HNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~-~~~TV~dLK~~I~~~~g~~-~ip~~~q----rLi-~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
|||+|+. ....+.|-+. ...||.+|-++...++.+. ...++.. +|- -.|-+|+.+..|.+. +.+.+.|+.+
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 3334556555 5589999977655444210 0223322 333 256688778888876 5577777766
Q ss_pred eec
Q 019817 74 LSK 76 (335)
Q Consensus 74 ~~~ 76 (335)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 554
No 193
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=50.58 E-value=29 Score=31.06 Aligned_cols=27 Identities=11% Similarity=0.399 Sum_probs=24.2
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..++.+..|..+| |.+.++.+|+....
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~ 172 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIK 172 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3578999999999 99999999999874
No 194
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=50.58 E-value=68 Score=25.70 Aligned_cols=70 Identities=17% Similarity=0.170 Sum_probs=45.6
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC-CCeEE-EeCC---eecCC-C-------CchhhcCCCCCCE
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLL-IHNG---KVLKD-E-------TTLADNKVSEDGF 69 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~-~~qrL-i~~G---k~L~D-~-------~tL~d~gI~~g~~ 69 (335)
|.|--.++...++.+..+.||.+|-..+..+.. ++. ...+| +..| |+|.. + +.|...|.++.|-
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~---l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~ 81 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFY---LPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDR 81 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhc---CCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCc
Confidence 444445666678999999999999999999987 544 34444 3444 55632 2 2355666666666
Q ss_pred EEEEee
Q 019817 70 LVVMLS 75 (335)
Q Consensus 70 I~vv~~ 75 (335)
|+.+.+
T Consensus 82 l~~lGr 87 (97)
T cd01775 82 IEDIGR 87 (97)
T ss_pred HHHhCc
Confidence 665543
No 195
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=49.64 E-value=20 Score=35.14 Aligned_cols=66 Identities=12% Similarity=0.081 Sum_probs=51.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecC--CCCchhhcCCCCCCE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVLK--DETTLADNKVSEDGF 69 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G---k~L~--D~~tL~d~gI~~g~~ 69 (335)
.|.||..+|+.+...+-++++|..|=..++.... ..+-...+|+..= |.|. -+.||.++||++..+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~d--g~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMD--GSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhc--ccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 4789999998887777888899888876666543 2667788998765 6664 467999999998765
No 196
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=48.79 E-value=1.3e+02 Score=25.67 Aligned_cols=33 Identities=21% Similarity=0.335 Sum_probs=25.8
Q ss_pred CCCcHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHH
Q 019817 149 AGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPE 185 (335)
Q Consensus 149 ~~~~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~ 185 (335)
..+.|....+. +.|| .++..|+.-|+..+-|++
T Consensus 112 ~dP~y~kYfKM-l~~G---vP~~aVk~KM~~eGlDp~ 144 (148)
T PF10152_consen 112 DDPRYAKYFKM-LKMG---VPREAVKQKMQAEGLDPS 144 (148)
T ss_pred CCccHHHHHHH-HHcC---CCHHHHHHHHHHcCCCHH
Confidence 46778666655 5999 999999999998766664
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=47.41 E-value=71 Score=25.47 Aligned_cols=39 Identities=13% Similarity=0.116 Sum_probs=31.3
Q ss_pred EEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE
Q 019817 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI 47 (335)
Q Consensus 5 Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi 47 (335)
++-..|.+..+.|+.+.+..+|+.++.+..+ +... +.|-
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~---~~~~-~~lk 55 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFG---AGVV-VTLK 55 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhC---CCCc-eEEE
Confidence 4556788888999999999999999999998 5554 4443
No 198
>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=47.07 E-value=1.1e+02 Score=24.97 Aligned_cols=59 Identities=22% Similarity=0.172 Sum_probs=39.7
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCe-EEEeCCeecCCCCchhhc--CCC-CCCEEEEEeec
Q 019817 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIHNGKVLKDETTLADN--KVS-EDGFLVVMLSK 76 (335)
Q Consensus 15 i~V~~~~TV~dLK~~I~~~~g~~~ip~~~q-rLi~~Gk~L~D~~tL~d~--gI~-~g~~I~vv~~~ 76 (335)
+-|+.+.||.+|...|..+.. +.++.- =|+.++....-+.+++++ ..+ ++.+|+|....
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 347899999999999999987 666653 344455444566777665 223 36688776553
No 199
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=46.41 E-value=20 Score=32.08 Aligned_cols=26 Identities=23% Similarity=0.360 Sum_probs=23.5
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
.++++-|++|||++.++..|.....+
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~~~ 169 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHVYR 169 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhh
Confidence 57899999999999999999988854
No 200
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=46.35 E-value=35 Score=30.52 Aligned_cols=26 Identities=15% Similarity=0.312 Sum_probs=23.2
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
.++++-|..|||++.+|.+|..+..+
T Consensus 148 ~e~~~aL~~LGy~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 148 DELFEALVSLGYKPQEIQQALKKIKN 173 (191)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhh
Confidence 57899999999999999999988754
No 201
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=46.18 E-value=71 Score=24.29 Aligned_cols=50 Identities=14% Similarity=0.266 Sum_probs=34.9
Q ss_pred CCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 20 SDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 20 ~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
-.++.+|+.+.++.++ ++....+|+ -.|..++|+.-+..+ .+ +++.|++.
T Consensus 18 A~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~tL--p~-nt~l~~L~ 69 (74)
T smart00266 18 ASSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQTL--PD-NTELMALE 69 (74)
T ss_pred cCCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhcC--CC-CcEEEEEc
Confidence 3479999999999999 876566664 378888887665543 33 44444443
No 202
>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=45.97 E-value=76 Score=25.21 Aligned_cols=75 Identities=15% Similarity=0.114 Sum_probs=44.8
Q ss_pred EEEEEeC-CCCEEEEEeCCCCcHHHHHHHHHHHh--CCCCCCCC-CeEEEeCCe--ecCCCCchhhcC-----CCCCCEE
Q 019817 2 KLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQ--GKDNYPCG-QQLLIHNGK--VLKDETTLADNK-----VSEDGFL 70 (335)
Q Consensus 2 ~I~Vkt~-~g~~~~i~V~~~~TV~dLK~~I~~~~--g~~~ip~~-~qrLi~~Gk--~L~D~~tL~d~g-----I~~g~~I 70 (335)
.|.|... .+..++|.++.+.|+.+|...+..+. +....... +..|--.|+ .|..+..|.+|. ++.+-.+
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~~~~ 97 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRGKDP 97 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT--E
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcCCCc
Confidence 4666666 45678999999999999998877662 11101111 455655663 366777787773 5667777
Q ss_pred EEEeec
Q 019817 71 VVMLSK 76 (335)
Q Consensus 71 ~vv~~~ 76 (335)
+|++..
T Consensus 98 ~L~Lv~ 103 (106)
T PF00794_consen 98 HLVLVH 103 (106)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 777653
No 203
>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=43.67 E-value=1.4e+02 Score=22.44 Aligned_cols=50 Identities=22% Similarity=0.253 Sum_probs=35.2
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCC-CCchh
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNG----KVLKD-ETTLA 60 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~G----k~L~D-~~tL~ 60 (335)
+....|.|..++|..++-+.+.++++.+. .+....|+ +.+ +.|.| ++.|.
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl~ 68 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPLQ 68 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChHH
Confidence 56678999999999999999999999321 35566664 222 45655 45554
No 204
>KOG1796 consensus Vacuolar protein sorting-associated protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.41 E-value=8.8 Score=39.30 Aligned_cols=34 Identities=38% Similarity=0.591 Sum_probs=32.3
Q ss_pred HHHHCCCChHHHHHHHHHhCCCHHHHHHHHhccC
Q 019817 297 RLEAMGFDRALVIEAFLACDRNEELAANYLLENA 330 (335)
Q Consensus 297 rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~~ 330 (335)
|+...||..+.+++++.+|.....-++.|||.+.
T Consensus 382 ~~Q~w~f~~d~c~~~l~~~~~q~k~~~s~lfd~a 415 (609)
T KOG1796|consen 382 RLQEWGFSMDDCRKALLACQGQLKKAASWLFDNA 415 (609)
T ss_pred ccccccccccchhHHHHhhhhhhccchhhhhcch
Confidence 8899999999999999999999999999999874
No 205
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=43.02 E-value=76 Score=22.62 Aligned_cols=59 Identities=17% Similarity=0.200 Sum_probs=39.3
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
|+|.+.+|+... +....|+.|+=..|....+ -.-.--..+|+...-+. -|++|++|.++
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--LPEGSTVLDVAYSIHSSLA-----KRAVAAKVNGQLVDLDH-----PLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHH-----HCEEEEEETTEEEETTS-----BB-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHH-----hheeEEEEcCEECCCCC-----CcCCCCEEEEE
Confidence 566778898866 5678899999999998876 11222346776654333 35567887765
No 206
>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=42.56 E-value=59 Score=33.77 Aligned_cols=6 Identities=33% Similarity=0.412 Sum_probs=2.3
Q ss_pred HHHHHH
Q 019817 25 AVKKNI 30 (335)
Q Consensus 25 dLK~~I 30 (335)
+||+.|
T Consensus 225 ElKeii 230 (574)
T PF07462_consen 225 ELKEII 230 (574)
T ss_pred HHHHHH
Confidence 344333
No 207
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=41.95 E-value=27 Score=31.19 Aligned_cols=26 Identities=15% Similarity=0.395 Sum_probs=23.5
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
.+++.-|+.|||++.++..|+.+.+.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~~ 171 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIKP 171 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 57999999999999999999988854
No 208
>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=41.88 E-value=24 Score=34.85 Aligned_cols=21 Identities=29% Similarity=0.528 Sum_probs=18.1
Q ss_pred HHHHHHHHCCCChHHHHHHHH
Q 019817 293 EAIQRLEAMGFDRALVIEAFL 313 (335)
Q Consensus 293 ~aI~rL~~lGF~~~~~i~Ay~ 313 (335)
|.|+.+..|||.|+.|+-..+
T Consensus 323 dvidKv~~MGf~rDqV~a~v~ 343 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVRATVR 343 (358)
T ss_pred HHHHHHHHcCCcHHHHHHHHH
Confidence 789999999999999976543
No 209
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=41.60 E-value=32 Score=25.02 Aligned_cols=22 Identities=14% Similarity=0.439 Sum_probs=19.3
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 157 IQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 157 v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
-+.|++|| |++.++++=+|.|.
T Consensus 6 k~dLi~lG---f~~~tA~~IIrqAK 27 (59)
T PF11372_consen 6 KKDLIELG---FSESTARDIIRQAK 27 (59)
T ss_pred HHHHHHcC---CCHHHHHHHHHHHH
Confidence 46799999 99999999999864
No 210
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=41.17 E-value=33 Score=30.82 Aligned_cols=27 Identities=15% Similarity=0.322 Sum_probs=24.3
Q ss_pred cHHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 291 EQEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 291 e~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
..+++.-|..|||++.+|.+|+..+.+
T Consensus 148 ~~e~~~aL~~LGy~~~~a~~ai~~~~~ 174 (194)
T PRK14605 148 NSDILATLTALGYSSSEAAKAISSLGD 174 (194)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 367999999999999999999999864
No 211
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.81 E-value=32 Score=30.99 Aligned_cols=26 Identities=23% Similarity=0.249 Sum_probs=23.6
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
.+++.-|.+|||++.++.+|...+..
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i~~ 175 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAALPS 175 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhh
Confidence 57999999999999999999988854
No 212
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=40.57 E-value=61 Score=27.03 Aligned_cols=35 Identities=29% Similarity=0.409 Sum_probs=28.6
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 019817 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYL 191 (335)
Q Consensus 154 ~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L 191 (335)
++-|+-.++- | -+|+.+++||.++++++-.|+--|
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 4557666765 7 999999999999999998887655
No 213
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.37 E-value=55 Score=29.47 Aligned_cols=25 Identities=12% Similarity=0.274 Sum_probs=23.3
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAA 180 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~ 180 (335)
.++++..|+.+| |.+.++.+|+...
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i 173 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHH
Confidence 578999999999 9999999999887
No 214
>PRK01777 hypothetical protein; Validated
Probab=40.26 E-value=1.8e+02 Score=22.98 Aligned_cols=62 Identities=10% Similarity=0.001 Sum_probs=39.0
Q ss_pred CEEEEEeC-CC--CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCC-------CeEEEeCCeecCCCCchhhcCCCCCCEE
Q 019817 1 MKLTVKTL-KG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG-------QQLLIHNGKVLKDETTLADNKVSEDGFL 70 (335)
Q Consensus 1 M~I~Vkt~-~g--~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~-------~qrLi~~Gk~L~D~~tL~d~gI~~g~~I 70 (335)
|+|.|.-. .. ..+.+++....||.++-+.+ | ++.. ..++.-.|+...- +.-+++||.|
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----g---i~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRV 71 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----G---LLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRV 71 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----C---CCccCcccccccceEEEeCeECCC-----CCcCCCCCEE
Confidence 46666532 22 33668899999999987653 4 3333 2355556666543 3357789999
Q ss_pred EEEe
Q 019817 71 VVML 74 (335)
Q Consensus 71 ~vv~ 74 (335)
-+.-
T Consensus 72 eIyr 75 (95)
T PRK01777 72 EIYR 75 (95)
T ss_pred EEec
Confidence 9874
No 215
>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=39.79 E-value=34 Score=31.82 Aligned_cols=58 Identities=16% Similarity=0.273 Sum_probs=39.8
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC----Ce--ecCCCCchhhcCCCCCCEEEEEee
Q 019817 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GK--VLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 15 i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~----Gk--~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
+-|+.+.+|.+|-..|.+..| +|.+.--++|. ++ .|+.+.++....|.+||.|++-..
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ~~ 152 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQRA 152 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEEE-
T ss_pred EEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEEec
Confidence 467889999999999999999 88876666554 33 367789999999999999988653
No 216
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=39.64 E-value=81 Score=31.32 Aligned_cols=59 Identities=15% Similarity=0.156 Sum_probs=30.6
Q ss_pred EEEEEeC---CCCcHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee---c--CCCCchhhcCCCCCCEEEE
Q 019817 12 HFEIRVQ---PSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKV---L--KDETTLADNKVSEDGFLVV 72 (335)
Q Consensus 12 ~~~i~V~---~~~TV~dLK~~I~~~~g~~~ip~~~qr-Li~~Gk~---L--~D~~tL~d~gI~~g~~I~v 72 (335)
.+++++. .+.|=++||+.+.+. | +.+..+... -|--.|+ + -..-+|.++.+++||+|..
T Consensus 72 ~vtv~vP~faESiteG~l~~~lK~~-G-d~v~~DE~va~IETDK~tv~V~sP~sGvi~e~lvk~gdtV~~ 139 (457)
T KOG0559|consen 72 VVTVEVPPFAESITEGDLAQWLKKV-G-DRVNEDEAVAEIETDKTTVEVPSPASGVITELLVKDGDTVTP 139 (457)
T ss_pred eeEEecCCcccccccchHHHHhhCc-c-cccccchhheeeeccceeeeccCCCcceeeEEecCCCCcccC
Confidence 3445554 466777888655443 2 223222221 1112222 1 2355778888888888753
No 217
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=39.53 E-value=34 Score=30.94 Aligned_cols=25 Identities=12% Similarity=0.232 Sum_probs=23.0
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACD 316 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acd 316 (335)
.++++-|++|||++.++.+|...+.
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~~ 180 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEVL 180 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 5799999999999999999999884
No 218
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=38.95 E-value=35 Score=30.41 Aligned_cols=25 Identities=28% Similarity=0.654 Sum_probs=22.8
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACD 316 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acd 316 (335)
.++++-|.+|||++.+|.+|.....
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~~ 167 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASCQ 167 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhcc
Confidence 5799999999999999999998873
No 219
>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=38.78 E-value=98 Score=23.78 Aligned_cols=50 Identities=12% Similarity=0.259 Sum_probs=34.3
Q ss_pred CCcHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 20 SDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 20 ~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
-.++.+|+.+.++.++ ++....+|+ -.|..++|+.-+..+ .+ +++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~tL--p~-nT~l~~l~ 71 (78)
T cd01615 20 ASSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQTL--PD-NTVLMLLE 71 (78)
T ss_pred cCCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhcC--CC-CcEEEEEC
Confidence 3479999999999998 765555554 478888887655543 33 44444443
No 220
>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=38.51 E-value=44 Score=24.77 Aligned_cols=22 Identities=18% Similarity=0.409 Sum_probs=18.8
Q ss_pred cHHHHHHHHHCCCChHHHHHHH
Q 019817 291 EQEAIQRLEAMGFDRALVIEAF 312 (335)
Q Consensus 291 e~~aI~rL~~lGF~~~~~i~Ay 312 (335)
-..|++.+..|||++.+|..++
T Consensus 11 ~daA~dam~~lG~~~~~v~~vl 32 (65)
T PF10440_consen 11 IDAALDAMRQLGFSKKQVRPVL 32 (65)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH
Confidence 4579999999999999988763
No 221
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=38.28 E-value=81 Score=26.53 Aligned_cols=37 Identities=19% Similarity=0.123 Sum_probs=33.2
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
..+.|.-+.+-+ .+.+.+++||..++ ++-+|++.|..
T Consensus 114 ~~e~v~v~a~a~---v~~eeAr~aleeag-Dl~~A~k~l~~ 150 (153)
T COG4008 114 PVEEVEVLADAF---VTPEEAREALEEAG-DLRTAMKILRM 150 (153)
T ss_pred cHHHHHHHHHhc---CCHHHHHHHHHHcC-CHHHHHHHHHH
Confidence 478899999999 99999999999977 99999999864
No 222
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=37.83 E-value=33 Score=31.16 Aligned_cols=30 Identities=27% Similarity=0.419 Sum_probs=24.3
Q ss_pred cccHHHHHHHHHCCCChHHHHHHHHHhCCC
Q 019817 289 PAEQEAIQRLEAMGFDRALVIEAFLACDRN 318 (335)
Q Consensus 289 ~ee~~aI~rL~~lGF~~~~~i~Ay~acdkn 318 (335)
+...++|+-|++|||.+.++.+|...-.++
T Consensus 154 ~~~~~~v~AL~~LGy~~~e~~~av~~v~~~ 183 (201)
T COG0632 154 PALEEAVEALVALGYKEKEIKKAVKKVLKE 183 (201)
T ss_pred hhhhHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 345556999999999999999998776654
No 223
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=37.29 E-value=90 Score=28.09 Aligned_cols=26 Identities=12% Similarity=0.355 Sum_probs=23.9
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAA 180 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~ 180 (335)
..++++..|..+| |.+.++.+|++..
T Consensus 151 ~~~ea~~AL~~LG---y~~~ea~~al~~i 176 (197)
T PRK14603 151 AAEDAVLALLALG---FREAQVRSVVAEL 176 (197)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHH
Confidence 4678999999999 9999999999986
No 224
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=37.24 E-value=50 Score=29.85 Aligned_cols=27 Identities=26% Similarity=0.535 Sum_probs=24.1
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..++++..|+.+| |.+.++.+|++...
T Consensus 143 ~~~ea~~AL~~LG---y~~~ea~~al~~v~ 169 (196)
T PRK13901 143 KFKELEQSIVNMG---FDRKLVNSAIKEIM 169 (196)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 4689999999999 99999999998753
No 225
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.97 E-value=87 Score=28.32 Aligned_cols=26 Identities=12% Similarity=0.385 Sum_probs=24.0
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAA 180 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~ 180 (335)
..++++..|+.+| |.+.++.+|+...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~ 179 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEV 179 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHH
Confidence 3678999999999 9999999999987
No 226
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.04 E-value=83 Score=28.14 Aligned_cols=27 Identities=11% Similarity=0.461 Sum_probs=24.5
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..++++..|+.+| |.+.++.+|+....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~ 168 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVY 168 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 4678999999999 99999999999883
No 227
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=35.81 E-value=1.2e+02 Score=24.62 Aligned_cols=45 Identities=16% Similarity=0.209 Sum_probs=31.4
Q ss_pred EEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC---CCeEEEeCC
Q 019817 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLLIHNG 50 (335)
Q Consensus 3 I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~---~~qrLi~~G 50 (335)
|+|-..+|.+..|.|....+-.++|.++-+++| +.. .....+..|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg---~~~~~~~~~~~v~d~ 50 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFG---LPEHPRNYCFYVLDG 50 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHT---SS--CCCEEEEEE-S
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcC---CccccccceEEEecc
Confidence 667778999999999999999999999999999 444 333445555
No 228
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=35.61 E-value=82 Score=26.29 Aligned_cols=58 Identities=21% Similarity=0.311 Sum_probs=41.4
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhc--CC-CCCCEEEEEee
Q 019817 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN--KV-SEDGFLVVMLS 75 (335)
Q Consensus 15 i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~--gI-~~g~~I~vv~~ 75 (335)
+=|..+.||.++...|..+.+ +.++..-|+.++.++.-+.+++++ .. .++.+|+|.-.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 358899999999999999988 888875444566555666777665 12 34557777654
No 229
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=35.38 E-value=1.2e+02 Score=28.86 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=16.3
Q ss_pred cCCCCchhhcCCCCCCEEEEEeecCCCCC
Q 019817 53 LKDETTLADNKVSEDGFLVVMLSKSKTLG 81 (335)
Q Consensus 53 L~D~~tL~d~gI~~g~~I~vv~~~~~~~~ 81 (335)
|-|++.+-++.++.-+. -|++||+..-+
T Consensus 115 lv~~~di~e~~lk~~~~-e~~irkkeal~ 142 (274)
T PLN02983 115 LVDSRDIVELQLKQLDC-ELVIRKKEALP 142 (274)
T ss_pred hhccccceeeeccccce-EEEEecccccC
Confidence 45666777777766544 34456555443
No 230
>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=34.78 E-value=77 Score=27.46 Aligned_cols=47 Identities=17% Similarity=0.327 Sum_probs=30.6
Q ss_pred EEEEeCC-CCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCC
Q 019817 13 FEIRVQP-SDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSED 67 (335)
Q Consensus 13 ~~i~V~~-~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g 67 (335)
+.++++. ...+..+++...+.+. + ... ++.|+.++...|++|| +|-|
T Consensus 77 i~lele~~~~~ie~I~~iCee~lp---f---~y~-i~~G~f~r~~~TvtDY-~KyG 124 (153)
T PF02505_consen 77 IILELEDEEDVIEKIREICEEVLP---F---GYD-IKEGKFIRTKPTVTDY-AKYG 124 (153)
T ss_pred EEEEecCcHHHHHHHHHHHHHhCC---C---ceE-eeeeEEeccCCchhhh-hhcC
Confidence 4456666 6667777765555433 2 222 3579999999999998 3444
No 231
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=34.52 E-value=83 Score=30.52 Aligned_cols=41 Identities=20% Similarity=0.309 Sum_probs=35.3
Q ss_pred CcHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHhC
Q 019817 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (335)
Q Consensus 151 ~~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~~~~~~A~~~L~~g 194 (335)
...++.++-|.+-| .+...+..+++.+.++|.+|++|+-.+
T Consensus 172 ~~~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~~ 212 (319)
T PRK08769 172 PPAHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRED 212 (319)
T ss_pred cCHHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 45578888888888 999999999999999999999999543
No 232
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=34.39 E-value=84 Score=24.56 Aligned_cols=40 Identities=23% Similarity=0.305 Sum_probs=34.3
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeec
Q 019817 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGKVL 53 (335)
Q Consensus 11 ~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL-i~~Gk~L 53 (335)
..+.+.|+...|=.++|+.|+..+| +.+...+. ++.||.-
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~---V~V~~Vnt~~~~gk~k 61 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYG---VKVKKVNTMNYPGKKK 61 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHT---SEEEEEEEEEETSEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcC---CCeeEEEEeEeCCCce
Confidence 6789999999999999999999999 88877754 5788754
No 233
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.86 E-value=1e+02 Score=27.56 Aligned_cols=27 Identities=15% Similarity=0.345 Sum_probs=24.2
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..++++..|+.+| |.+.++.+|++...
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 234
>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=33.20 E-value=1.5e+02 Score=22.47 Aligned_cols=43 Identities=16% Similarity=0.226 Sum_probs=36.8
Q ss_pred EEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 019817 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (335)
Q Consensus 5 Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G 50 (335)
|-..+|+.-.+.+.+..||.++-.++.++.| +..+...++.-|
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 888888776656
No 235
>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=33.17 E-value=84 Score=27.14 Aligned_cols=43 Identities=16% Similarity=0.320 Sum_probs=29.1
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhc
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~ 62 (335)
+.|++.....+..+++...+.+. + ... +..|+.+....|+.||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~p---F---~y~-i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLP---F---GYE-VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCC---C---ceE-eeeeeEeecCCchhhh
Confidence 44566667778888765555532 2 222 4678999999999998
No 236
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=32.80 E-value=27 Score=38.91 Aligned_cols=68 Identities=7% Similarity=-0.099 Sum_probs=53.4
Q ss_pred eCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEEeecC
Q 019817 7 TLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (335)
Q Consensus 7 t~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~~~ 77 (335)
++.-..+...+....++...|.+|...+| |++..++|++-|..++++..+..|+...+-..+..++.+
T Consensus 331 ~l~~p~~~~~~~~~~~~~~~~p~~~~qtg---ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~~~asp 398 (1143)
T KOG4248|consen 331 NLACPPPRHLHVVRPMSHYTTPMVLQQTG---IPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPGQAASP 398 (1143)
T ss_pred cccCCCCceeeecchhhhccCceeeeccc---ccccccceeeecccccCCCCCCccccccCCCCCccccCc
Confidence 34444455455556677788999999999 999999999999999999999999888877777655543
No 237
>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=32.31 E-value=2.4e+02 Score=21.88 Aligned_cols=59 Identities=10% Similarity=0.162 Sum_probs=39.1
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCee-c-CCCCchhhc--CCCCCCEEEEEee
Q 019817 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKV-L-KDETTLADN--KVSEDGFLVVMLS 75 (335)
Q Consensus 14 ~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~-L-~D~~tL~d~--gI~~g~~I~vv~~ 75 (335)
.+-|+.+.||.++...|.++.+ +.++.--.+|-+.. + ..+.+++++ ..+++.+|+|.-.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~---l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys 81 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLK---LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYC 81 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhC---CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEe
Confidence 3457899999999999999988 65555333444443 3 344566554 2266778887654
No 238
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=32.10 E-value=51 Score=29.70 Aligned_cols=25 Identities=28% Similarity=0.312 Sum_probs=22.9
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHhC
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLACD 316 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~acd 316 (335)
.++++-|.+|||++.++.+|+..+.
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i~ 177 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAELL 177 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 5799999999999999999999884
No 239
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=31.93 E-value=1.2e+02 Score=23.92 Aligned_cols=40 Identities=23% Similarity=0.302 Sum_probs=33.7
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKV 52 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qr-Li~~Gk~ 52 (335)
...+.+.|+...|=.++|+.|+..++ +.+...+ +++.||.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~---VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG---VKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC---CceeEEEEEEeCCce
Confidence 46899999999999999999999999 8887775 4566654
No 240
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=31.69 E-value=1.4e+02 Score=24.63 Aligned_cols=39 Identities=10% Similarity=0.210 Sum_probs=32.1
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL 53 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L 53 (335)
.-.+.|++++|+..+-..|.+..+ ++...+-++|=..-.
T Consensus 46 ~~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sF 84 (116)
T KOG3439|consen 46 KSKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSF 84 (116)
T ss_pred cceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCcc
Confidence 345678899999999999999998 888888888766544
No 241
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=31.29 E-value=2.7e+02 Score=22.20 Aligned_cols=54 Identities=24% Similarity=0.241 Sum_probs=34.8
Q ss_pred CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCee------c-CC--CCch--hhcCCCCCCEEEEEeec
Q 019817 19 PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKV------L-KD--ETTL--ADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 19 ~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~------L-~D--~~tL--~d~gI~~g~~I~vv~~~ 76 (335)
...||++|-..|...+- -.+ .+-+|+.|.+ | .| -..| .+|.+++||.|+++...
T Consensus 34 ~~~tvgdll~yi~~~~i---e~r-~~lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTl 98 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYI---ETR-DSLFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTL 98 (101)
T ss_pred CcccHHHHHHHHHHHHh---cCC-cceEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEec
Confidence 45789999998888643 112 2255666632 2 33 2233 57899999999987653
No 242
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.31 E-value=63 Score=28.83 Aligned_cols=26 Identities=15% Similarity=0.546 Sum_probs=23.7
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAA 180 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~ 180 (335)
..++++..|+.+| |.+.++.+|++..
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 9999999999886
No 243
>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=29.92 E-value=1e+02 Score=28.64 Aligned_cols=43 Identities=7% Similarity=0.088 Sum_probs=31.2
Q ss_pred EEEEEeCC---CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE
Q 019817 2 KLTVKTLK---GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI 47 (335)
Q Consensus 2 ~I~Vkt~~---g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi 47 (335)
.|+|+-.. +..|.+.++..+|-.+|-++|++..+ +.+..+||.
T Consensus 178 ~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~---~dP~~lr~~ 223 (249)
T PF12436_consen 178 EVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLN---VDPEHLRFF 223 (249)
T ss_dssp EEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHT---S-GGGEEEE
T ss_pred EEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHC---CChHHEEEE
Confidence 45555432 34799999999999999999999999 889999985
No 244
>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=29.43 E-value=1.5e+02 Score=22.53 Aligned_cols=32 Identities=19% Similarity=0.114 Sum_probs=21.5
Q ss_pred EEEeCCCC-EEEEEeC-CCCcHHHHHHHHHHHhC
Q 019817 4 TVKTLKGS-HFEIRVQ-PSDTVMAVKKNIEDVQG 35 (335)
Q Consensus 4 ~Vkt~~g~-~~~i~V~-~~~TV~dLK~~I~~~~g 35 (335)
+.|..+.+ .-.|.++ ...+|.+||+.|..+.+
T Consensus 2 ~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 2 HYKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred eEEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 34444443 3456666 46899999999988766
No 245
>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=28.74 E-value=2.1e+02 Score=22.21 Aligned_cols=44 Identities=14% Similarity=0.070 Sum_probs=34.0
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN 49 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~ 49 (335)
+.+|+ ..|.+..+.++..-|...|+.+|...+. +|....-|.|-
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~---lp~~~~~vtYi 45 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYN---LPEIKVGVTYI 45 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhC---CChhHeEEEEE
Confidence 34554 4566667777778899999999999999 98877777663
No 246
>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=28.66 E-value=77 Score=23.15 Aligned_cols=32 Identities=22% Similarity=0.255 Sum_probs=26.8
Q ss_pred cCCcccHHHHHHHH-HCCCChHHHHHHHHHhCC
Q 019817 286 NVTPAEQEAIQRLE-AMGFDRALVIEAFLACDR 317 (335)
Q Consensus 286 ~lt~ee~~aI~rL~-~lGF~~~~~i~Ay~acdk 317 (335)
.+|+-|.+.|..++ .+||+.+.++.|+.-|-+
T Consensus 12 ~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a~~ 44 (73)
T TIGR01446 12 MLSPFEMEDLKYWLDEFGNSPELIKEALKEAVS 44 (73)
T ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 36888999999877 559999999999998853
No 247
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=28.60 E-value=36 Score=28.08 Aligned_cols=29 Identities=24% Similarity=0.416 Sum_probs=23.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHH
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNI 30 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I 30 (335)
|+|+|+ .+++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~-i~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKIT-IGGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEE-ETTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEE-ECCEEEEEEECCCHHHHHHHHhC
Confidence 788888 46888999999998888887764
No 248
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=28.55 E-value=39 Score=22.56 Aligned_cols=25 Identities=24% Similarity=0.409 Sum_probs=11.0
Q ss_pred cCCcccHHHHHHHHHCCCChHHHHH
Q 019817 286 NVTPAEQEAIQRLEAMGFDRALVIE 310 (335)
Q Consensus 286 ~lt~ee~~aI~rL~~lGF~~~~~i~ 310 (335)
.||.+|+..|++|-+.|++......
T Consensus 4 ~Lt~~eR~~I~~l~~~G~s~~~IA~ 28 (44)
T PF13936_consen 4 HLTPEERNQIEALLEQGMSIREIAK 28 (44)
T ss_dssp --------HHHHHHCS---HHHHHH
T ss_pred chhhhHHHHHHHHHHcCCCHHHHHH
Confidence 5899999999999999988766443
No 249
>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=28.32 E-value=1.7e+02 Score=22.52 Aligned_cols=48 Identities=15% Similarity=0.257 Sum_probs=33.2
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 21 DTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 21 ~TV~dLK~~I~~~~g~~~ip~~~qrL--i~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
.++.+|+.+.++..+ ++....+| .-.|..++|+.-+.. +.++..++++
T Consensus 21 ~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~--LpdnT~lm~L 70 (78)
T cd06539 21 SSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQT--LGDNTHFMVL 70 (78)
T ss_pred cCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhh--CCCCCEEEEE
Confidence 479999999999998 76554554 557888888766554 3444444443
No 250
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=28.23 E-value=42 Score=24.08 Aligned_cols=32 Identities=22% Similarity=0.424 Sum_probs=22.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCcHHHHHHHHHH
Q 019817 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIED 32 (335)
Q Consensus 1 M~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~ 32 (335)
|.|++++.+|+.|.++...-.--.-||..|..
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~ 32 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLED 32 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHC
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhh
Confidence 78999999999999985543344455555654
No 251
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=28.17 E-value=99 Score=33.40 Aligned_cols=59 Identities=22% Similarity=0.317 Sum_probs=45.4
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEE--e--CCeec--CCCCchhhcCCCCCCEEEEEee
Q 019817 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--H--NGKVL--KDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 12 ~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi--~--~Gk~L--~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
.+.+.|+...++..+|+.|+...+ ++.+..||+ | +|..+ .++.+|+.+ -++.+|.+-+.
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~---V~~~HFKi~R~~~~N~~~~S~~~NetLs~~--~~~~~iTI~LG 942 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLE---VDKDHFKIVRHASDNGSEASFMDNETLSGA--FQSCFITIKLG 942 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhC---cChhHeEEEEEecCCcchhhhccchhhhhh--cccceEEEEec
Confidence 467899999999999999999999 999999986 2 33344 466778764 46777766554
No 252
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=28.01 E-value=42 Score=26.84 Aligned_cols=61 Identities=15% Similarity=0.195 Sum_probs=34.1
Q ss_pred CEEEEEeC---CCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCC-e------ec-CCC--Cch--hhcCCCCCCEEEEEee
Q 019817 11 SHFEIRVQ---PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG-K------VL-KDE--TTL--ADNKVSEDGFLVVMLS 75 (335)
Q Consensus 11 ~~~~i~V~---~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~G-k------~L-~D~--~tL--~d~gI~~g~~I~vv~~ 75 (335)
+.+.++++ ...||.+|-..|.+..- .++-.|+..+ + +| +|. ..+ .+|-|++||.|.++..
T Consensus 18 k~h~v~l~~~~~~~ti~~Li~~l~~nll-----~~r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiST 92 (96)
T PF09138_consen 18 KKHKVSLPSDGEPATIKDLIDYLRDNLL-----KERPELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFIST 92 (96)
T ss_dssp SEEEEEE-SSCSC-BHHHHHHHHCCCT------SSGHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEET
T ss_pred eeEEEEcCCCCCCcCHHHHHHHHHHhcc-----CCCHhHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEcc
Confidence 56777777 67889999888776432 2333343322 1 12 332 233 3588999999998864
Q ss_pred c
Q 019817 76 K 76 (335)
Q Consensus 76 ~ 76 (335)
.
T Consensus 93 L 93 (96)
T PF09138_consen 93 L 93 (96)
T ss_dssp T
T ss_pred C
Confidence 3
No 253
>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=27.62 E-value=2.4e+02 Score=22.08 Aligned_cols=61 Identities=16% Similarity=0.223 Sum_probs=42.0
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh-CCCCCC--CC-CeEEEeCC--eecCCCCchhhcCCCCCCEEEEEe
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQ-GKDNYP--CG-QQLLIHNG--KVLKDETTLADNKVSEDGFLVVML 74 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~-g~~~ip--~~-~qrLi~~G--k~L~D~~tL~d~gI~~g~~I~vv~ 74 (335)
.-+-|+..+|+.++-.+++... |.. ++ ++ ..++.+.| ..+..+.++.+-||+.-+.|-+.-
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrR-V~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRR-VAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTS-S---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhccee-cCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 3468899999999999988643 322 22 23 45677888 889999999999999999888764
No 254
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=27.16 E-value=86 Score=25.24 Aligned_cols=29 Identities=28% Similarity=0.550 Sum_probs=25.5
Q ss_pred CCcHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 150 GNDLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 150 ~~~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..+|...+.+|.+-| |+++..+++|+.++
T Consensus 68 ~~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Y 96 (100)
T PF15652_consen 68 QEEFNNSYREMFDAG---VSKECRKKALKAQY 96 (100)
T ss_pred HHHHHHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 467888899999999 99999999999864
No 255
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=27.02 E-value=1.1e+02 Score=26.47 Aligned_cols=59 Identities=22% Similarity=0.238 Sum_probs=41.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
.+++|..+++.|-|.|+.. ++-|||. |.+..| .. ||-|.. .++.++-+|+..|++-.+-
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk~-ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fg 105 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLKS-IHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFG 105 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHHH-HHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEee
Confidence 3788888898888888755 5668885 777767 23 777764 2455666788888765443
No 256
>PLN03196 MOC1-like protein; Provisional
Probab=26.62 E-value=3.1e+02 Score=28.23 Aligned_cols=24 Identities=8% Similarity=0.177 Sum_probs=16.7
Q ss_pred HHHHHHHHHCCCChHHHHHHHHHh
Q 019817 292 QEAIQRLEAMGFDRALVIEAFLAC 315 (335)
Q Consensus 292 ~~aI~rL~~lGF~~~~~i~Ay~ac 315 (335)
+..|+.|.++|++..........+
T Consensus 269 kp~v~~L~elGv~~~~i~~lI~~~ 292 (487)
T PLN03196 269 KPNVECLLEFGVRKEALPSVIAQY 292 (487)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhC
Confidence 456777888888887776655544
No 257
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=26.50 E-value=1.4e+02 Score=29.15 Aligned_cols=39 Identities=13% Similarity=0.155 Sum_probs=31.3
Q ss_pred cHHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh
Q 019817 152 DLEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (335)
Q Consensus 152 ~~~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~ 193 (335)
..++..+-|.+- | .+.+.+..+++.+.+++.+|++|+-.
T Consensus 168 ~~~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~ 207 (334)
T PRK07993 168 PEQYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQP 207 (334)
T ss_pred CHHHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence 345556667665 7 89999999999999999999999854
No 258
>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=25.73 E-value=20 Score=26.36 Aligned_cols=41 Identities=27% Similarity=0.384 Sum_probs=28.8
Q ss_pred cCCcccHHHHHHHHH-CCCChHHHHHHHHHhCCCHHHHHHHH
Q 019817 286 NVTPAEQEAIQRLEA-MGFDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 286 ~lt~ee~~aI~rL~~-lGF~~~~~i~Ay~acdknee~Aan~L 326 (335)
.+|+-+.+.|..+.. .||+.+.++.|+.-|-.+-....+|+
T Consensus 12 ~~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~~~~~~~Yi 53 (77)
T PF07261_consen 12 PPSPSEIEKLEKWIDDYGFSPEVVNEAIEYALENNKRSFNYI 53 (77)
T ss_dssp S--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCT--SHHHH
T ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 468899999999987 59999999999887764322224443
No 259
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=24.18 E-value=88 Score=23.96 Aligned_cols=23 Identities=17% Similarity=0.294 Sum_probs=18.9
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhC
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g 35 (335)
+.++++.+.|+.+||+.+.+.-.
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A~ 24 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEAK 24 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHGG
T ss_pred eEEEccCcCcHHHHHHHHHHHHH
Confidence 56788999999999999988754
No 260
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=24.15 E-value=1.9e+02 Score=22.31 Aligned_cols=50 Identities=14% Similarity=0.264 Sum_probs=33.3
Q ss_pred CCcHHHHHHHHHHHhCCCCCCCC--CeEE--EeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 20 SDTVMAVKKNIEDVQGKDNYPCG--QQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 20 ~~TV~dLK~~I~~~~g~~~ip~~--~qrL--i~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
-.++.+|+.+..+.++ ++.. ..+| .-.|..++|+.-+..+ .++ ++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~n-T~l~~L~ 73 (80)
T cd06536 20 ASSLEELRIKACESLG---FDSSSAPITLVLAEDGTIVEDEDYFLCL--PPN-TKFVLLA 73 (80)
T ss_pred cCCHHHHHHHHHHHhC---CCCCCCceEEEEecCCcEEccHHHHhhC--CCC-cEEEEEC
Confidence 3479999999999998 7632 2454 4578888887666553 334 4444443
No 261
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=23.90 E-value=1.1e+02 Score=25.42 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=27.5
Q ss_pred ccCCcccHHHHHHHHHCCCChHHHHHHHHHhCCCH
Q 019817 285 INVTPAEQEAIQRLEAMGFDRALVIEAFLACDRNE 319 (335)
Q Consensus 285 ~~lt~ee~~aI~rL~~lGF~~~~~i~Ay~acdkne 319 (335)
+.||+.|..-|+-|..+|.+|..|.-.-+--+++|
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 34888899999999999999999876544445444
No 262
>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=23.74 E-value=1.8e+02 Score=23.48 Aligned_cols=56 Identities=25% Similarity=0.201 Sum_probs=38.6
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCchhhc---CCCCCCEEEEEee
Q 019817 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLIHNGKVLKDETTLADN---KVSEDGFLVVMLS 75 (335)
Q Consensus 17 V~~~~TV~dLK~~I~~~~g~~~ip~~~-qrLi~~Gk~L~D~~tL~d~---gI~~g~~I~vv~~ 75 (335)
|..+.||.+|...|..+.. +.++. +-|+.++..+..+.+++++ .-.++.+|+|.-.
T Consensus 39 vp~~~tv~qf~~~ir~rl~---l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys 98 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQ---LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYS 98 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT-----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEE
T ss_pred EcCCCchhhHHHHhhhhhc---CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEec
Confidence 5788999999999999987 65543 4556677666778888765 1135667777654
No 263
>KOG0514 consensus Ankyrin repeat protein [General function prediction only]
Probab=23.73 E-value=71 Score=31.79 Aligned_cols=33 Identities=33% Similarity=0.647 Sum_probs=28.4
Q ss_pred CcccHHHHHHHHHCC-------------------CChHHHHHHHHHhCCCHH
Q 019817 288 TPAEQEAIQRLEAMG-------------------FDRALVIEAFLACDRNEE 320 (335)
Q Consensus 288 t~ee~~aI~rL~~lG-------------------F~~~~~i~Ay~acdknee 320 (335)
++.|++.|+||-.|| --|-+++++++||+-|.+
T Consensus 316 ~~~d~~vV~~LF~mgnVNaKAsQ~gQTALMLAVSHGr~d~vk~LLacgAdVN 367 (452)
T KOG0514|consen 316 QPADRTVVERLFKMGDVNAKASQHGQTALMLAVSHGRVDMVKALLACGADVN 367 (452)
T ss_pred chhhHHHHHHHHhccCcchhhhhhcchhhhhhhhcCcHHHHHHHHHccCCCc
Confidence 678899999999998 357788999999998875
No 264
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=23.56 E-value=82 Score=28.08 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=23.7
Q ss_pred cHHHHHHHHHCCCChHHHHHHHHHhCC
Q 019817 291 EQEAIQRLEAMGFDRALVIEAFLACDR 317 (335)
Q Consensus 291 e~~aI~rL~~lGF~~~~~i~Ay~acdk 317 (335)
-.+++.-|..|||++.++..+|..-.+
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 368999999999999999999887754
No 265
>PRK01905 DNA-binding protein Fis; Provisional
Probab=23.38 E-value=1.1e+02 Score=22.93 Aligned_cols=24 Identities=29% Similarity=0.452 Sum_probs=20.8
Q ss_pred CChHHHHHHHHHhCCCHHHHHHHH
Q 019817 303 FDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 303 F~~~~~i~Ay~acdknee~Aan~L 326 (335)
|.+..+++++..|+.|.-.||..|
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L 60 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL 60 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH
Confidence 457788999999999999999877
No 266
>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=23.04 E-value=79 Score=24.31 Aligned_cols=42 Identities=17% Similarity=0.172 Sum_probs=23.7
Q ss_pred HHHHHhCCCCCCCCCeEEEe---CCeecCCCCchhhcCCCCCCEEEEEeec
Q 019817 29 NIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (335)
Q Consensus 29 ~I~~~~g~~~ip~~~qrLi~---~Gk~L~D~~tL~d~gI~~g~~I~vv~~~ 76 (335)
.|+++.. +.+....|+- ++..|+=+++|.+|||+ .|+.+-.+
T Consensus 2 ~IC~KCE---fdp~htvLLrD~~s~e~LdLsKSLndlGir---ELYA~D~~ 46 (79)
T PF09469_consen 2 AICEKCE---FDPEHTVLLRDYQSGEELDLSKSLNDLGIR---ELYAWDTS 46 (79)
T ss_dssp HHHHHTT-----TTSEEEES-SS---B--TTS-HHHHT-S---EEEEEE--
T ss_pred ccccccc---cCcceEEEeecCCCCCcccccccHHHhhHH---HHHhhccc
Confidence 4777755 7888888874 45678889999999997 56666544
No 267
>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=22.71 E-value=3.1e+02 Score=20.83 Aligned_cols=58 Identities=19% Similarity=0.140 Sum_probs=43.0
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEEEeC-CeecCCCCchhhcCCCCCCEEEEE
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN-GKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~~-Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
..+.|..+.....+-+..++++. ++...--+|-+ |--+....+..+.-++.|+.|.++
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 34688888878888888888988 88887777754 555778889988889999998774
No 268
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=22.70 E-value=1.9e+02 Score=23.09 Aligned_cols=39 Identities=21% Similarity=0.296 Sum_probs=32.3
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGK 51 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL-i~~Gk 51 (335)
...+.+.|++..|=.++|..|++.+| +.+..... +..|+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k 60 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGK 60 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCc
Confidence 46789999999999999999999999 77777754 45553
No 269
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=22.66 E-value=1.6e+02 Score=22.92 Aligned_cols=40 Identities=20% Similarity=0.215 Sum_probs=28.5
Q ss_pred ccHHHHHHHHHCCCChHHHHHHHHHhCCCHHHHHHHHhccCCC
Q 019817 290 AEQEAIQRLEAMGFDRALVIEAFLACDRNEELAANYLLENAGD 332 (335)
Q Consensus 290 ee~~aI~rL~~lGF~~~~~i~Ay~acdknee~Aan~Lf~~~~d 332 (335)
+.++.+..|..+||+...+.+.|...+. .|.+-|-+|+..
T Consensus 7 ~~~~~~~~L~~~gl~~~~a~kl~~~yg~---~ai~~l~~nPY~ 46 (94)
T PF14490_consen 7 GLRELMAFLQEYGLSPKLAMKLYKKYGD---DAIEILKENPYR 46 (94)
T ss_dssp --HHHHHHHHHTT--HHHHHHHHHHH-T---THHHHHHH-STC
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHhH---HHHHHHHHChHH
Confidence 4577899999999999999999999885 566777777653
No 270
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=22.60 E-value=2.3e+02 Score=21.87 Aligned_cols=50 Identities=16% Similarity=0.272 Sum_probs=33.2
Q ss_pred CCcHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCchhhcCCCCCCEEEEEee
Q 019817 20 SDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (335)
Q Consensus 20 ~~TV~dLK~~I~~~~g~~~ip~-~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv~~ 75 (335)
-.++.+|+.+.++.++ ++. -.+.|.-.|..++|+.-+..+ . .+++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~lvL~eDGT~Vd~EeyF~tL--p-~nt~l~vL~ 70 (79)
T cd06538 20 ADSLEDLLNKVLDALL---LDCISSLVLDEDGTGVDTEEFFQAL--A-DNTVFMVLG 70 (79)
T ss_pred cCCHHHHHHHHHHHcC---CCCccEEEEecCCcEEccHHHHhhC--C-CCcEEEEEC
Confidence 3479999999999998 642 234445678888877665543 3 345555544
No 271
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=22.57 E-value=76 Score=24.45 Aligned_cols=24 Identities=46% Similarity=0.613 Sum_probs=20.8
Q ss_pred HHHHHHHhcCCH-HHHHHHHHhCCC
Q 019817 173 VTRALQAAYNNP-ERAVDYLYSGIP 196 (335)
Q Consensus 173 ~~~Al~~~~~~~-~~A~~~L~~giP 196 (335)
|-+||..-.+|| +.-|-||++|-|
T Consensus 24 Vy~AL~EKGYnPinQivGYllSGDP 48 (79)
T PF06135_consen 24 VYAALEEKGYNPINQIVGYLLSGDP 48 (79)
T ss_pred HHHHHHHcCCChHHHHHhheecCCC
Confidence 668999988887 999999999955
No 272
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=22.39 E-value=2.5e+02 Score=24.41 Aligned_cols=29 Identities=17% Similarity=0.185 Sum_probs=20.7
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCe
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ 44 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~q 44 (335)
..|.|..+.|+.+|-..|...+| ..-.++
T Consensus 20 Rri~Vp~~~tl~~Lh~~Iq~afg---w~~~HL 48 (179)
T PF07929_consen 20 RRIEVPADITLADLHEVIQAAFG---WDDDHL 48 (179)
T ss_dssp EEEEEETT-BHHHHHHHHHHHTT-------S-
T ss_pred EEEEECCCCCHHHHHHHHHHHhC---cCCCEe
Confidence 35899999999999999999998 554444
No 273
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=22.33 E-value=3.5e+02 Score=20.38 Aligned_cols=47 Identities=26% Similarity=0.351 Sum_probs=34.3
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCC--CCCeEEE--e-CC--eecCC-CCch
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYP--CGQQLLI--H-NG--KVLKD-ETTL 59 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip--~~~qrLi--~-~G--k~L~D-~~tL 59 (335)
+....|.|..++|+.++-+.+.++++ +. +....|+ + .| +.|.+ +..|
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~---l~~~~~~y~L~e~~~~~~er~L~~~e~Pl 69 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFH---LTDDPEEYVLVEVLPDGKERVLPDDENPL 69 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhC---CCCCcccEEEEEEeCCcEEEEeCCCCcce
Confidence 56778999999999999999999999 54 3455554 3 44 56655 4444
No 274
>PF14788 EF-hand_10: EF hand; PDB: 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B 1DJZ_B 1DJY_B 1DJX_B 1QAT_A 1DJH_A ....
Probab=22.21 E-value=73 Score=22.47 Aligned_cols=30 Identities=17% Similarity=0.442 Sum_probs=19.4
Q ss_pred ccHHHHHHHHHCCCChHHHHHHHHHhCCCH
Q 019817 290 AEQEAIQRLEAMGFDRALVIEAFLACDRNE 319 (335)
Q Consensus 290 ee~~aI~rL~~lGF~~~~~i~Ay~acdkne 319 (335)
.|...+-|++..--+..-|...|..||++.
T Consensus 5 ~Evk~lLk~~NI~~~~~yA~~LFq~~D~s~ 34 (51)
T PF14788_consen 5 KEVKKLLKMMNIEMDDEYARQLFQECDKSQ 34 (51)
T ss_dssp HHHHHHHHHTT----HHHHHHHHHHH-SSS
T ss_pred HHHHHHHHHHccCcCHHHHHHHHHHhcccC
Confidence 455556666677899999999999999963
No 275
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.17 E-value=5e+02 Score=24.16 Aligned_cols=16 Identities=13% Similarity=0.111 Sum_probs=14.0
Q ss_pred hhcCCCCCCEEEEEee
Q 019817 60 ADNKVSEDGFLVVMLS 75 (335)
Q Consensus 60 ~d~gI~~g~~I~vv~~ 75 (335)
-+||+|+|-||.+-++
T Consensus 148 lDlgFKEGeTIkinik 163 (253)
T KOG2500|consen 148 LDLGFKEGETIKINIK 163 (253)
T ss_pred ccccccCCcEEEEEee
Confidence 3499999999999887
No 276
>PRK05473 hypothetical protein; Provisional
Probab=22.10 E-value=95 Score=24.29 Aligned_cols=25 Identities=48% Similarity=0.626 Sum_probs=20.9
Q ss_pred HHHHHHHHhcCCH-HHHHHHHHhCCC
Q 019817 172 TVTRALQAAYNNP-ERAVDYLYSGIP 196 (335)
Q Consensus 172 ~~~~Al~~~~~~~-~~A~~~L~~giP 196 (335)
.|-.||..-.+|| +.-|-||++|-|
T Consensus 26 ~Vy~AL~EKGYNPinQiVGYllSGDP 51 (86)
T PRK05473 26 TVYDALEEKGYNPINQIVGYLLSGDP 51 (86)
T ss_pred HHHHHHHHcCCChHHHHHhhhccCCC
Confidence 3678998877787 999999999955
No 277
>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=22.06 E-value=30 Score=23.86 Aligned_cols=22 Identities=27% Similarity=0.666 Sum_probs=14.3
Q ss_pred HHHHHHHH-cCCCCCCHHHHHHHHHH
Q 019817 155 QTIQQIMD-MGGGTWDKETVTRALQA 179 (335)
Q Consensus 155 ~~v~~l~~-mG~~~f~~~~~~~Al~~ 179 (335)
..|..|.. || |+|+.+..||+.
T Consensus 4 ~vv~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 4 DVVSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp CCHHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHHHhC---CCHHHHHHHHHc
Confidence 34555554 99 999999999986
No 278
>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=21.97 E-value=1.2e+02 Score=22.66 Aligned_cols=44 Identities=16% Similarity=0.344 Sum_probs=28.0
Q ss_pred CcHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCchhhcCCCCCCEEEEE
Q 019817 21 DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (335)
Q Consensus 21 ~TV~dLK~~I~~~~g~~~ip~~~qrLi~~Gk~L~D~~tL~d~gI~~g~~I~vv 73 (335)
.|+.+|.+..++++| +. ....+.-.|-.++|=.. |.+||.|+++
T Consensus 26 ~SleeLl~ia~~kfg---~~-~~~v~~~dgaeIdDI~~-----IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFG---FS-ATKVLNEDGAEIDDIDV-----IRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhC---CC-ceEEEcCCCCEEeEEEE-----EEcCCEEEEC
Confidence 699999999999999 64 22223334444433222 4678888763
No 279
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=21.96 E-value=75 Score=28.79 Aligned_cols=51 Identities=24% Similarity=0.376 Sum_probs=28.2
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCC---CCeEE--EeCC-----eecCCCC--chhhcC
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLL--IHNG-----KVLKDET--TLADNK 63 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~---~~qrL--i~~G-----k~L~D~~--tL~d~g 63 (335)
|-.|.+.|.+..|..++|++|.+++| ++. +..|+ +..+ +.|+|+. .|.+..
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlg---v~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~ 194 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLG---VSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEI 194 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH------HHHHTT-EEEEEETTEE---EE--TT-T----GGG
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhC---CChhhheeEEEEEEecCCcccceeccccchhhhhhhh
Confidence 55688899999999999999999999 543 34454 4444 3566654 555543
No 280
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=21.89 E-value=3e+02 Score=21.12 Aligned_cols=40 Identities=10% Similarity=-0.046 Sum_probs=33.1
Q ss_pred EEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE
Q 019817 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (335)
Q Consensus 4 ~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL 46 (335)
.|...+|+...+.|.++.|+.++-..++++.+ +.+..--|
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~---ldp~eh~L 42 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQ---LDPMEHYL 42 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcC---CChhHhee
Confidence 35667899999999999999999999999988 66665433
No 281
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=21.84 E-value=2e+02 Score=21.98 Aligned_cols=34 Identities=12% Similarity=0.098 Sum_probs=29.6
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeEE
Q 019817 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (335)
Q Consensus 10 g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qrL 46 (335)
.+.+.+.|+...|=.++|+.|+..++ +.+...+.
T Consensus 14 ~n~y~F~V~~~anK~eIK~avE~lf~---VkV~~Vnt 47 (77)
T TIGR03636 14 ENKLTFIVDRKATKGDIKRAVEKLFD---VKVEKVNT 47 (77)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 36789999999999999999999999 77777754
No 282
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=20.94 E-value=1.4e+02 Score=32.83 Aligned_cols=62 Identities=13% Similarity=0.307 Sum_probs=44.9
Q ss_pred CCCEEEEEeC-CCCcHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCchhhcCC--CCCCEEEEE
Q 019817 9 KGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKV--SEDGFLVVM 73 (335)
Q Consensus 9 ~g~~~~i~V~-~~~TV~dLK~~I~~~~g~~~ip~~~qrLi~-~Gk~L~D~~tL~d~gI--~~g~~I~vv 73 (335)
.|..++++.+ ...|+.+||..|..++| +....+.|+- +|..+.-++.|..|.- .+-+-|++.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~---~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffF 68 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVG---HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFF 68 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhc---hhhceeeeeecCCcCcccccchhhhccccCCCCceEEe
Confidence 4777777776 45789999999999999 7777887765 4566777777777752 334455555
No 283
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=20.92 E-value=84 Score=24.86 Aligned_cols=24 Identities=21% Similarity=0.105 Sum_probs=21.6
Q ss_pred CChHHHHHHHHHhCCCHHHHHHHH
Q 019817 303 FDRALVIEAFLACDRNEELAANYL 326 (335)
Q Consensus 303 F~~~~~i~Ay~acdknee~Aan~L 326 (335)
|.+...+++|..|+.|...||.+|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 567889999999999999999887
No 284
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.83 E-value=2.4e+02 Score=23.13 Aligned_cols=59 Identities=14% Similarity=0.124 Sum_probs=36.0
Q ss_pred EeCC-CCcHHHHHHHHHHHhCCC-CC------CCCCeEEEeC----------------C-eecC-CCCchhhcCCCCCCE
Q 019817 16 RVQP-SDTVMAVKKNIEDVQGKD-NY------PCGQQLLIHN----------------G-KVLK-DETTLADNKVSEDGF 69 (335)
Q Consensus 16 ~V~~-~~TV~dLK~~I~~~~g~~-~i------p~~~qrLi~~----------------G-k~L~-D~~tL~d~gI~~g~~ 69 (335)
+++. +.||.+++..|-+....+ .+ .-+..|+++. . ..|+ ++++|..|||.+...
T Consensus 28 d~dLad~Tvk~f~~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sKT~nLvinldhDd~w~L~d~~ktL~~~GIenETE 107 (127)
T KOG4147|consen 28 DVDLADQTVKEFIVFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSKTNNLVINLDHDDRWLLKDEDKTLKAAGIENETE 107 (127)
T ss_pred ccchhHhhHHHHHHHHHHhcccCCCCCccccccccceeeehhhhhcccceEEEeccCCcceeecCccchHHHhccCcchh
Confidence 5665 778999888776654311 01 2233344432 1 3455 467999999998887
Q ss_pred EEEEe
Q 019817 70 LVVML 74 (335)
Q Consensus 70 I~vv~ 74 (335)
|-+..
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 76554
No 285
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=20.75 E-value=1.2e+02 Score=23.38 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=19.5
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhC
Q 019817 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (335)
Q Consensus 13 ~~i~V~~~~TV~dLK~~I~~~~g 35 (335)
+.+.|..+.|+.++|..+.+.-.
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~ 24 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQAR 24 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHH
Confidence 46788999999999999987754
No 286
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=20.69 E-value=1.2e+02 Score=21.37 Aligned_cols=21 Identities=29% Similarity=0.449 Sum_probs=15.9
Q ss_pred HHHHHHHHCCCChHHHHHHHH
Q 019817 293 EAIQRLEAMGFDRALVIEAFL 313 (335)
Q Consensus 293 ~aI~rL~~lGF~~~~~i~Ay~ 313 (335)
.-|.++.++||+-.+..+.+-
T Consensus 5 ~~I~~~r~lGfsL~eI~~~l~ 25 (65)
T PF09278_consen 5 QFIRRLRELGFSLEEIRELLE 25 (65)
T ss_dssp HHHHHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHh
Confidence 568999999999999887763
No 287
>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=20.37 E-value=2.1e+02 Score=22.48 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=35.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCCCCCCeE
Q 019817 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL 45 (335)
Q Consensus 2 ~I~Vkt~~g~~~~i~V~~~~TV~dLK~~I~~~~g~~~ip~~~qr 45 (335)
.|.|-..+|..+.|++..+++..++=+.+..+.| +|.+..+
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~---L~~e~~~ 43 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAG---MDSYTQN 43 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhC---CCHHHHh
Confidence 4667778999999999999999999999999999 7766553
No 288
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=20.31 E-value=1.3e+02 Score=27.39 Aligned_cols=26 Identities=15% Similarity=0.593 Sum_probs=22.6
Q ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 153 ~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
.++.|..|+.+| |.+.++++|+....
T Consensus 156 ~~~~v~AL~~LG---y~~~e~~~av~~v~ 181 (201)
T COG0632 156 LEEAVEALVALG---YKEKEIKKAVKKVL 181 (201)
T ss_pred hhHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 455699999999 99999999998864
No 289
>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=20.28 E-value=2e+02 Score=19.11 Aligned_cols=33 Identities=18% Similarity=0.235 Sum_probs=22.1
Q ss_pred HHHHHHC--CCChHHHHHHHHHhCCCHHHHHHHHh
Q 019817 295 IQRLEAM--GFDRALVIEAFLACDRNEELAANYLL 327 (335)
Q Consensus 295 I~rL~~l--GF~~~~~i~Ay~acdknee~Aan~Lf 327 (335)
|+.|+-+ .-.++..-.++..|++|.-.|.+.++
T Consensus 5 idiL~rvFP~~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 5 IDILTRVFPHQKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred HHHHHHHCCCCChHHHHHHHHHcCCcHHHHHHHhC
Confidence 4555444 33344555568899999999998763
No 290
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.22 E-value=2.4e+02 Score=25.18 Aligned_cols=27 Identities=7% Similarity=0.256 Sum_probs=24.0
Q ss_pred cHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 019817 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (335)
Q Consensus 152 ~~~~~v~~l~~mG~~~f~~~~~~~Al~~~~ 181 (335)
..++++..|+.+| |++.++.+|+....
T Consensus 147 ~~~e~~~aL~~LG---y~~~~a~~ai~~~~ 173 (194)
T PRK14605 147 ANSDILATLTALG---YSSSEAAKAISSLG 173 (194)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHhh
Confidence 3578999999999 99999999998873
No 291
>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=20.11 E-value=3.4e+02 Score=19.80 Aligned_cols=43 Identities=21% Similarity=0.269 Sum_probs=32.6
Q ss_pred HHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHh-----CCCCc
Q 019817 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS-----GIPET 198 (335)
Q Consensus 153 ~~~~v~~l~~m-G~~~f~~~~~~~Al~~~~~~~~~A~~~L~~-----giP~~ 198 (335)
-++.|..+... | -..+-++++|..++.|.++|+.-..+ .||.+
T Consensus 12 q~~~v~~~~~~Tg---mn~~~s~~cLe~~~Wd~~~Al~~F~~lk~~~~IP~e 60 (63)
T smart00804 12 QQEMVQAFSAQTG---MNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPE 60 (63)
T ss_pred HHHHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCChh
Confidence 35667777665 7 88999999999998899999854433 37754
Done!