Query 023989
Match_columns 274
No_of_seqs 327 out of 1316
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 08:07:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023989.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023989hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00601 rad23 UV excision re 100.0 1.1E-58 2.4E-63 439.3 27.4 252 1-269 1-265 (378)
2 KOG0011 Nucleotide excision re 100.0 5.8E-56 1.3E-60 405.1 21.2 233 1-269 1-233 (340)
3 cd01807 GDX_N ubiquitin-like d 99.8 1.6E-19 3.6E-24 134.1 9.2 73 1-76 1-73 (74)
4 cd01805 RAD23_N Ubiquitin-like 99.8 4.7E-19 1E-23 132.0 9.7 75 1-78 1-77 (77)
5 cd01797 NIRF_N amino-terminal 99.8 8.6E-19 1.9E-23 132.1 8.9 74 1-77 1-76 (78)
6 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 1.2E-18 2.6E-23 129.7 8.3 71 1-74 2-72 (73)
7 cd01793 Fubi Fubi ubiquitin-li 99.8 3.4E-18 7.5E-23 127.0 8.9 72 1-77 1-72 (74)
8 PTZ00044 ubiquitin; Provisiona 99.8 3.9E-18 8.5E-23 126.8 9.1 74 1-77 1-74 (76)
9 cd01804 midnolin_N Ubiquitin-l 99.8 3.1E-18 6.7E-23 128.9 8.4 72 1-76 2-73 (78)
10 cd01792 ISG15_repeat1 ISG15 ub 99.7 5.1E-18 1.1E-22 128.1 7.8 74 1-77 3-78 (80)
11 cd01802 AN1_N ubiquitin-like d 99.7 7.8E-18 1.7E-22 133.3 9.1 74 1-77 28-101 (103)
12 cd01806 Nedd8 Nebb8-like ubiq 99.7 1.4E-17 3.1E-22 123.2 9.6 74 1-77 1-74 (76)
13 cd01790 Herp_N Homocysteine-re 99.7 1.2E-17 2.6E-22 126.0 7.9 74 1-75 2-79 (79)
14 cd01809 Scythe_N Ubiquitin-lik 99.7 2.3E-17 4.9E-22 120.9 9.2 72 1-75 1-72 (72)
15 cd01794 DC_UbP_C dendritic cel 99.7 1.2E-17 2.6E-22 123.3 7.7 69 3-74 1-69 (70)
16 cd01810 ISG15_repeat2 ISG15 ub 99.7 1.5E-17 3.2E-22 123.6 8.2 72 3-77 1-72 (74)
17 cd01803 Ubiquitin Ubiquitin. U 99.7 2.4E-17 5.2E-22 122.0 9.0 74 1-77 1-74 (76)
18 cd01798 parkin_N amino-termina 99.7 1.6E-17 3.6E-22 121.9 8.0 70 3-75 1-70 (70)
19 cd01808 hPLIC_N Ubiquitin-like 99.7 3.4E-17 7.3E-22 120.7 8.6 71 1-75 1-71 (71)
20 PF00240 ubiquitin: Ubiquitin 99.7 5E-17 1.1E-21 118.5 8.0 69 6-77 1-69 (69)
21 cd01813 UBP_N UBP ubiquitin pr 99.7 7.4E-17 1.6E-21 120.3 8.0 70 1-74 1-73 (74)
22 cd01796 DDI1_N DNA damage indu 99.7 2.3E-16 4.9E-21 116.6 7.5 68 3-73 1-70 (71)
23 cd01812 BAG1_N Ubiquitin-like 99.6 6.9E-16 1.5E-20 112.9 8.0 70 1-74 1-70 (71)
24 KOG0005 Ubiquitin-like protein 99.6 4.5E-16 9.7E-21 109.7 4.7 70 1-73 1-70 (70)
25 cd01800 SF3a120_C Ubiquitin-li 99.6 1.8E-15 4E-20 113.0 8.1 68 8-78 5-72 (76)
26 KOG0010 Ubiquitin-like protein 99.6 8.5E-15 1.9E-19 141.1 9.7 78 1-82 16-93 (493)
27 smart00213 UBQ Ubiquitin homol 99.5 2.5E-14 5.4E-19 101.7 7.6 64 1-68 1-64 (64)
28 cd01763 Sumo Small ubiquitin-r 99.5 8.8E-14 1.9E-18 106.7 9.5 74 1-77 12-85 (87)
29 cd01815 BMSC_UbP_N Ubiquitin-l 99.5 4.1E-14 9E-19 105.5 5.3 56 19-75 19-75 (75)
30 KOG0003 Ubiquitin/60s ribosoma 99.5 5.8E-15 1.3E-19 115.7 0.2 75 1-78 1-75 (128)
31 KOG0004 Ubiquitin/40S ribosoma 99.4 6.5E-14 1.4E-18 116.7 4.6 76 1-79 1-76 (156)
32 cd01769 UBL Ubiquitin-like dom 99.4 9.1E-13 2E-17 94.8 7.8 68 4-74 1-68 (69)
33 cd01814 NTGP5 Ubiquitin-like N 99.4 4.6E-13 9.9E-18 106.6 6.7 77 2-78 6-93 (113)
34 cd01799 Hoil1_N Ubiquitin-like 99.4 1.9E-12 4E-17 96.9 7.3 65 6-74 8-74 (75)
35 PF11976 Rad60-SLD: Ubiquitin- 99.3 8.4E-12 1.8E-16 91.7 7.5 71 1-74 1-72 (72)
36 PF00627 UBA: UBA/TS-N domain; 99.2 4.9E-11 1.1E-15 77.2 5.2 36 153-191 2-37 (37)
37 cd01795 USP48_C USP ubiquitin- 99.1 1.2E-10 2.5E-15 90.8 6.9 63 12-77 16-79 (107)
38 cd01789 Alp11_N Ubiquitin-like 99.1 1E-09 2.2E-14 83.7 9.1 72 2-76 3-82 (84)
39 PF13881 Rad60-SLD_2: Ubiquiti 99.0 2.8E-09 6.1E-14 85.5 10.7 69 1-69 3-76 (111)
40 KOG4248 Ubiquitin-like protein 99.0 4.4E-10 9.5E-15 116.1 6.6 70 2-75 4-73 (1143)
41 KOG0001 Ubiquitin and ubiquiti 99.0 4.2E-09 9.1E-14 75.1 9.2 72 3-77 2-73 (75)
42 cd00194 UBA Ubiquitin Associat 99.0 1.1E-09 2.4E-14 70.9 5.1 38 153-193 1-38 (38)
43 PLN02560 enoyl-CoA reductase 99.0 2E-09 4.3E-14 100.6 8.4 71 1-73 1-81 (308)
44 smart00165 UBA Ubiquitin assoc 98.9 1.3E-09 2.9E-14 70.2 4.7 37 153-192 1-37 (37)
45 PF14560 Ubiquitin_2: Ubiquiti 98.9 7.8E-09 1.7E-13 79.0 7.6 73 2-77 3-85 (87)
46 cd01801 Tsc13_N Ubiquitin-like 98.8 8.2E-09 1.8E-13 77.2 6.8 69 2-72 2-74 (77)
47 cd01788 ElonginB Ubiquitin-lik 98.8 2.5E-08 5.4E-13 79.6 7.3 73 1-76 1-81 (119)
48 PF11543 UN_NPL4: Nuclear pore 98.6 8.7E-08 1.9E-12 72.5 5.9 69 1-73 5-78 (80)
49 cd00196 UBQ Ubiquitin-like pro 98.6 3.5E-07 7.5E-12 61.7 7.7 67 5-74 2-68 (69)
50 cd01811 OASL_repeat1 2'-5' oli 98.4 1.8E-06 3.8E-11 64.0 8.0 72 1-76 1-77 (80)
51 KOG0006 E3 ubiquitin-protein l 98.4 6.4E-07 1.4E-11 82.9 6.2 74 1-77 1-77 (446)
52 KOG1872 Ubiquitin-specific pro 98.4 1.1E-06 2.4E-11 85.0 7.9 72 2-77 5-77 (473)
53 KOG3493 Ubiquitin-like protein 98.0 3.6E-06 7.7E-11 60.7 1.9 69 2-73 3-71 (73)
54 KOG1769 Ubiquitin-like protein 98.0 4.8E-05 1E-09 59.4 8.3 72 2-76 22-93 (99)
55 PF10302 DUF2407: DUF2407 ubiq 97.9 5.4E-05 1.2E-09 59.4 7.0 59 3-62 3-64 (97)
56 KOG4495 RNA polymerase II tran 97.7 5.4E-05 1.2E-09 58.8 4.5 59 3-65 5-65 (110)
57 PF02845 CUE: CUE domain; Int 97.6 0.00012 2.6E-09 48.4 4.4 39 153-194 1-41 (42)
58 PF08817 YukD: WXG100 protein 97.6 0.00015 3.4E-09 54.3 5.5 71 2-72 4-78 (79)
59 KOG0944 Ubiquitin-specific pro 97.5 0.00011 2.3E-09 74.2 4.5 43 151-196 633-675 (763)
60 PF00789 UBX: UBX domain; Int 97.5 0.00092 2E-08 50.0 8.5 69 2-73 8-81 (82)
61 smart00166 UBX Domain present 97.4 0.0013 2.7E-08 49.4 8.2 68 2-72 6-78 (80)
62 cd01770 p47_UBX p47-like ubiqu 97.3 0.0021 4.5E-08 48.5 8.1 64 2-67 6-72 (79)
63 PF09280 XPC-binding: XPC-bind 97.2 0.00018 4E-09 51.3 2.0 18 252-269 1-18 (59)
64 KOG4583 Membrane-associated ER 97.2 3E-05 6.6E-10 72.4 -2.8 76 2-78 11-90 (391)
65 COG5417 Uncharacterized small 97.2 0.0019 4.2E-08 48.0 7.2 69 4-72 10-80 (81)
66 cd01767 UBX UBX (ubiquitin reg 97.2 0.0031 6.8E-08 46.8 8.5 67 2-73 4-75 (77)
67 cd01772 SAKS1_UBX SAKS1-like U 97.1 0.0034 7.4E-08 47.1 8.3 68 2-73 6-78 (79)
68 KOG0013 Uncharacterized conser 97.1 0.0012 2.6E-08 58.2 5.8 67 9-78 155-223 (231)
69 COG5227 SMT3 Ubiquitin-like pr 97.0 0.0027 6E-08 48.9 6.7 69 3-74 27-95 (103)
70 TIGR00601 rad23 UV excision re 97.0 0.00088 1.9E-08 64.5 4.8 39 152-193 336-374 (378)
71 KOG1639 Steroid reductase requ 96.9 0.0021 4.5E-08 58.2 5.9 71 1-73 1-77 (297)
72 KOG0418 Ubiquitin-protein liga 96.9 0.0014 3.1E-08 56.8 4.6 45 147-194 156-200 (200)
73 smart00546 CUE Domain that may 96.8 0.0037 8E-08 41.4 5.3 39 153-194 2-42 (43)
74 cd01773 Faf1_like1_UBX Faf1 ik 96.8 0.011 2.5E-07 44.9 8.5 69 2-74 7-80 (82)
75 PF11470 TUG-UBL1: GLUT4 regul 96.7 0.0066 1.4E-07 44.2 6.5 62 8-72 4-65 (65)
76 cd01774 Faf1_like2_UBX Faf1 ik 96.7 0.014 2.9E-07 44.6 8.3 69 1-73 5-83 (85)
77 KOG3206 Alpha-tubulin folding 96.2 0.012 2.6E-07 52.0 6.3 71 2-75 3-81 (234)
78 cd01771 Faf1_UBX Faf1 UBX doma 96.2 0.037 8.1E-07 41.7 8.3 68 2-73 6-78 (80)
79 PF13019 Telomere_Sde2: Telome 96.1 0.036 7.8E-07 47.3 8.6 64 1-67 1-72 (162)
80 KOG0011 Nucleotide excision re 95.7 0.013 2.7E-07 55.1 4.5 40 152-194 297-336 (340)
81 PF15044 CLU_N: Mitochondrial 95.3 0.029 6.3E-07 41.9 4.2 56 17-74 1-57 (76)
82 PF09288 UBA_3: Fungal ubiquit 95.1 0.024 5.2E-07 39.8 3.1 23 154-179 10-32 (55)
83 KOG0010 Ubiquitin-like protein 94.9 0.038 8.1E-07 54.5 5.0 41 151-194 452-493 (493)
84 PF11626 Rap1_C: TRF2-interact 94.8 0.054 1.2E-06 41.4 4.6 36 157-195 1-36 (87)
85 PF14453 ThiS-like: ThiS-like 94.6 0.12 2.6E-06 36.7 5.6 56 1-75 1-56 (57)
86 PF06972 DUF1296: Protein of u 94.5 0.11 2.4E-06 36.9 5.3 41 153-194 5-45 (60)
87 PLN02799 Molybdopterin synthas 94.2 0.2 4.4E-06 37.3 6.5 66 1-73 2-76 (82)
88 PF09379 FERM_N: FERM N-termin 94.2 0.3 6.6E-06 35.8 7.4 64 5-70 1-70 (80)
89 KOG0012 DNA damage inducible p 94.1 0.073 1.6E-06 50.7 4.7 70 1-73 1-74 (380)
90 KOG2561 Adaptor protein NUB1, 93.8 0.069 1.5E-06 52.2 4.1 59 14-75 53-111 (568)
91 PF14555 UBA_4: UBA-like domai 93.5 0.23 5E-06 32.8 5.1 37 154-193 1-38 (43)
92 PRK06437 hypothetical protein; 93.4 0.66 1.4E-05 33.6 7.8 54 9-74 9-62 (67)
93 PF07499 RuvA_C: RuvA, C-termi 93.1 0.11 2.4E-06 35.1 3.0 37 153-192 3-39 (47)
94 cd00754 MoaD Ubiquitin domain 93.0 0.52 1.1E-05 34.5 6.9 57 12-73 17-74 (80)
95 PRK08364 sulfur carrier protei 92.7 0.79 1.7E-05 33.4 7.4 58 3-73 5-64 (70)
96 cd06406 PB1_P67 A PB1 domain i 92.6 0.55 1.2E-05 35.6 6.5 37 12-51 12-48 (80)
97 KOG2561 Adaptor protein NUB1, 92.2 0.19 4.1E-06 49.3 4.5 42 154-198 430-471 (568)
98 cd06409 PB1_MUG70 The MUG70 pr 91.8 0.72 1.6E-05 35.4 6.4 47 2-48 2-48 (86)
99 PRK06488 sulfur carrier protei 91.6 0.89 1.9E-05 32.4 6.4 60 1-74 1-60 (65)
100 PF12754 Blt1: Cell-cycle cont 91.2 0.062 1.4E-06 50.2 0.0 60 2-64 80-159 (309)
101 COG5207 UBP14 Isopeptidase T [ 91.0 0.32 6.9E-06 48.5 4.7 39 154-195 559-598 (749)
102 TIGR01682 moaD molybdopterin c 90.6 1.6 3.5E-05 32.2 7.3 57 10-73 14-74 (80)
103 KOG2086 Protein tyrosine phosp 90.2 0.47 1E-05 45.6 5.0 66 2-69 307-375 (380)
104 cd06407 PB1_NLP A PB1 domain i 89.6 1.9 4.1E-05 32.6 7.0 46 1-50 1-47 (82)
105 PF14836 Ubiquitin_3: Ubiquiti 89.4 2 4.4E-05 33.1 7.0 61 12-76 15-81 (88)
106 PF02597 ThiS: ThiS family; I 89.1 0.87 1.9E-05 32.9 4.7 59 12-73 13-71 (77)
107 COG5207 UBP14 Isopeptidase T [ 89.1 0.21 4.5E-06 49.8 1.7 40 152-194 620-659 (749)
108 TIGR01687 moaD_arch MoaD famil 89.1 2.2 4.8E-05 32.0 7.1 59 11-73 16-82 (88)
109 KOG0944 Ubiquitin-specific pro 88.4 0.69 1.5E-05 47.5 4.9 41 153-196 571-612 (763)
110 smart00295 B41 Band 4.1 homolo 88.0 4.4 9.5E-05 34.4 9.1 61 2-65 5-72 (207)
111 smart00666 PB1 PB1 domain. Pho 87.0 3.3 7.1E-05 30.4 6.7 45 2-50 3-47 (81)
112 PF10209 DUF2340: Uncharacteri 86.7 2.8 6.1E-05 34.2 6.6 60 16-75 21-108 (122)
113 PF10790 DUF2604: Protein of U 86.6 3 6.5E-05 30.4 6.0 67 9-75 4-71 (76)
114 PF08938 HBS1_N: HBS1 N-termin 86.3 0.35 7.7E-06 36.2 1.2 27 168-194 43-70 (79)
115 cd01760 RBD Ubiquitin-like dom 85.2 2.7 5.9E-05 31.1 5.4 64 3-72 2-69 (72)
116 PRK05659 sulfur carrier protei 84.9 5.1 0.00011 28.3 6.7 61 1-74 1-61 (66)
117 PF11620 GABP-alpha: GA-bindin 84.8 2.9 6.4E-05 32.0 5.5 60 13-75 5-64 (88)
118 PRK12332 tsf elongation factor 84.6 1.7 3.7E-05 38.4 4.8 36 155-193 6-42 (198)
119 COG5100 NPL4 Nuclear pore prot 84.4 7 0.00015 38.2 9.1 74 1-76 1-80 (571)
120 cd06408 PB1_NoxR The PB1 domai 83.9 5.1 0.00011 30.8 6.6 46 2-51 2-48 (86)
121 PRK06944 sulfur carrier protei 83.9 7.6 0.00017 27.3 7.2 59 1-73 1-59 (65)
122 PRK05863 sulfur carrier protei 83.9 4.9 0.00011 28.7 6.2 60 1-74 1-60 (65)
123 smart00455 RBD Raf-like Ras-bi 83.7 4.9 0.00011 29.4 6.2 52 3-57 2-55 (70)
124 TIGR00116 tsf translation elon 83.1 2 4.2E-05 40.2 4.8 36 155-193 6-42 (290)
125 cd00565 ThiS ThiaminS ubiquiti 82.7 5.7 0.00012 28.1 6.1 56 8-73 4-59 (65)
126 COG2104 ThiS Sulfur transfer p 82.1 9.4 0.0002 27.9 7.1 62 1-73 1-62 (68)
127 KOG2982 Uncharacterized conser 82.0 1.8 3.8E-05 41.1 4.0 56 16-74 353-416 (418)
128 cd05992 PB1 The PB1 domain is 81.4 6.5 0.00014 28.6 6.2 45 2-50 2-47 (81)
129 PRK06369 nac nascent polypepti 81.2 3.8 8.3E-05 33.1 5.2 38 154-194 77-115 (115)
130 PRK08053 sulfur carrier protei 81.0 10 0.00023 27.0 7.0 61 1-74 1-61 (66)
131 CHL00098 tsf elongation factor 80.6 2.9 6.4E-05 36.9 4.8 36 155-193 3-39 (200)
132 PF11069 DUF2870: Protein of u 80.3 2.5 5.4E-05 33.2 3.7 33 45-77 3-36 (98)
133 PF00564 PB1: PB1 domain; Int 80.1 6.6 0.00014 28.8 5.9 44 3-50 4-48 (84)
134 PF07223 DUF1421: Protein of u 79.6 2.3 4.9E-05 40.9 4.0 29 147-178 315-343 (358)
135 PF12616 DUF3775: Protein of u 79.5 3.1 6.7E-05 31.1 3.8 40 156-196 20-60 (75)
136 PF02954 HTH_8: Bacterial regu 79.5 1.9 4.1E-05 28.2 2.4 27 168-196 5-31 (42)
137 PF14732 UAE_UbL: Ubiquitin/SU 79.4 2.6 5.6E-05 32.2 3.5 56 15-73 2-67 (87)
138 PRK09377 tsf elongation factor 79.2 3.3 7.1E-05 38.7 4.8 36 155-193 7-43 (290)
139 KOG2689 Predicted ubiquitin re 78.5 3.3 7.3E-05 38.3 4.5 35 158-195 5-41 (290)
140 PRK07696 sulfur carrier protei 77.2 14 0.00031 26.5 6.8 61 1-74 1-62 (67)
141 PRK06083 sulfur carrier protei 77.2 12 0.00027 28.3 6.7 57 8-74 23-79 (84)
142 cd01787 GRB7_RA RA (RAS-associ 77.0 14 0.0003 28.3 6.8 58 3-62 5-68 (85)
143 PF02196 RBD: Raf-like Ras-bin 76.9 26 0.00056 25.5 8.5 57 3-62 3-61 (71)
144 TIGR01683 thiS thiamine biosyn 76.4 12 0.00025 26.5 6.1 56 8-73 3-58 (64)
145 PRK07440 hypothetical protein; 76.3 15 0.00034 26.6 6.8 61 3-74 5-65 (70)
146 KOG4250 TANK binding protein k 76.2 9.3 0.0002 39.8 7.4 65 9-78 323-389 (732)
147 cd06411 PB1_p51 The PB1 domain 75.6 12 0.00025 28.3 6.0 36 12-50 8-43 (78)
148 PF08825 E2_bind: E2 binding d 75.4 3.4 7.5E-05 31.4 3.2 55 15-73 1-69 (84)
149 PF14451 Ub-Mut7C: Mut7-C ubiq 75.1 13 0.00029 28.0 6.3 52 10-73 22-74 (81)
150 KOG2507 Ubiquitin regulatory p 74.4 4.6 0.0001 39.6 4.5 74 2-78 316-394 (506)
151 PTZ00380 microtubule-associate 73.2 8.4 0.00018 31.4 5.1 59 15-76 45-106 (121)
152 cd06396 PB1_NBR1 The PB1 domai 72.9 15 0.00032 27.9 6.0 35 2-40 2-38 (81)
153 TIGR00264 alpha-NAC-related pr 72.8 8.2 0.00018 31.3 4.9 36 154-192 79-115 (116)
154 TIGR02958 sec_mycoba_snm4 secr 72.2 26 0.00057 34.7 9.3 73 2-75 4-80 (452)
155 PF08587 UBA_2: Ubiquitin asso 71.9 0.95 2.1E-05 30.7 -0.5 21 156-179 5-26 (46)
156 cd01611 GABARAP Ubiquitin doma 71.8 21 0.00045 28.6 7.0 59 15-76 45-107 (112)
157 PF08337 Plexin_cytopl: Plexin 71.0 8.4 0.00018 39.0 5.6 65 11-76 202-290 (539)
158 PF14533 USP7_C2: Ubiquitin-sp 70.5 13 0.00028 32.9 6.2 48 12-62 35-90 (213)
159 PF02017 CIDE-N: CIDE-N domain 69.6 13 0.00028 28.1 5.0 64 4-76 6-72 (78)
160 KOG2689 Predicted ubiquitin re 68.8 13 0.00027 34.6 5.8 68 2-72 212-284 (290)
161 PRK11130 moaD molybdopterin sy 68.8 33 0.00072 25.3 7.2 54 15-73 19-75 (81)
162 TIGR00084 ruvA Holliday juncti 68.6 9.2 0.0002 33.4 4.7 28 152-182 146-173 (191)
163 KOG1364 Predicted ubiquitin re 68.1 5.4 0.00012 38.1 3.3 66 2-69 279-349 (356)
164 PF00788 RA: Ras association ( 67.3 43 0.00093 24.5 7.7 55 3-58 5-69 (93)
165 cd01768 RA RA (Ras-associating 67.3 48 0.001 24.4 8.8 65 10-75 12-85 (87)
166 PRK13901 ruvA Holliday junctio 67.2 8.1 0.00018 34.1 4.1 29 152-183 143-171 (196)
167 cd06398 PB1_Joka2 The PB1 doma 66.9 30 0.00065 26.6 6.8 69 3-75 3-87 (91)
168 PF15652 Tox-SHH: HNH/Endo VII 66.5 7.6 0.00017 30.6 3.4 30 150-182 68-97 (100)
169 PRK11840 bifunctional sulfur c 65.5 22 0.00047 33.9 6.8 62 1-75 1-62 (326)
170 PF10407 Cytokin_check_N: Cdc1 64.4 27 0.00058 26.0 5.8 63 11-76 3-71 (73)
171 smart00144 PI3K_rbd PI3-kinase 61.1 57 0.0012 25.7 7.6 74 3-76 20-105 (108)
172 PF02991 Atg8: Autophagy prote 61.0 26 0.00057 27.7 5.6 56 17-75 39-98 (104)
173 PRK08769 DNA polymerase III su 61.0 18 0.0004 34.1 5.5 41 151-194 172-212 (319)
174 cd01612 APG12_C Ubiquitin-like 60.1 67 0.0015 24.4 7.6 60 14-76 19-82 (87)
175 COG0264 Tsf Translation elonga 59.9 16 0.00035 34.2 4.8 36 155-192 7-42 (296)
176 PF08783 DWNN: DWNN domain; I 59.6 25 0.00054 26.2 4.9 33 3-35 1-35 (74)
177 KOG3391 Transcriptional co-rep 59.0 10 0.00022 31.7 3.0 64 19-82 60-143 (151)
178 cd01764 Urm1 Urm1-like ubuitin 58.8 19 0.00041 27.8 4.4 54 15-73 23-88 (94)
179 PF09722 DUF2384: Protein of u 58.5 23 0.00051 24.0 4.4 20 175-194 2-21 (54)
180 smart00266 CAD Domains present 58.2 34 0.00073 25.6 5.4 50 20-75 18-69 (74)
181 PRK14602 ruvA Holliday junctio 56.7 12 0.00027 33.0 3.4 28 151-181 153-180 (203)
182 cd01817 RGS12_RBD Ubiquitin do 56.2 55 0.0012 24.4 6.2 50 5-57 4-55 (73)
183 PF00794 PI3K_rbd: PI3-kinase 55.1 38 0.00082 26.3 5.6 75 2-76 18-103 (106)
184 cd01615 CIDE_N CIDE_N domain, 55.1 34 0.00074 25.8 5.0 50 20-75 20-71 (78)
185 PRK07993 DNA polymerase III su 54.3 27 0.00059 33.0 5.5 39 153-194 169-208 (334)
186 PF12053 DUF3534: Domain of un 53.9 44 0.00095 28.2 6.0 74 1-76 1-81 (145)
187 PRK14606 ruvA Holliday junctio 52.9 18 0.0004 31.5 3.8 28 152-182 142-169 (188)
188 cd06539 CIDE_N_A CIDE_N domain 52.4 37 0.0008 25.6 4.8 50 20-75 20-71 (78)
189 cd01775 CYR1_RA Ubiquitin doma 50.7 1.2E+02 0.0026 23.8 8.4 45 3-50 5-51 (97)
190 COG0632 RuvA Holliday junction 50.3 17 0.00036 32.2 3.2 29 152-183 155-183 (201)
191 PRK14600 ruvA Holliday junctio 50.1 20 0.00044 31.2 3.6 27 152-181 144-170 (186)
192 PF11547 E3_UbLigase_EDD: E3 u 49.3 63 0.0014 22.2 5.0 37 154-193 10-48 (53)
193 PRK14601 ruvA Holliday junctio 48.8 22 0.00047 31.0 3.6 26 152-180 141-166 (183)
194 PRK14604 ruvA Holliday junctio 48.7 19 0.0004 31.7 3.2 27 153-182 149-175 (195)
195 COG0089 RplW Ribosomal protein 48.2 81 0.0018 24.6 6.3 60 10-72 21-90 (94)
196 PF00276 Ribosomal_L23: Riboso 46.3 45 0.00099 25.5 4.7 41 11-54 21-62 (91)
197 PF03474 DMA: DMRTA motif; In 45.6 31 0.00068 22.6 3.1 25 168-192 15-39 (39)
198 cd06410 PB1_UP2 Uncharacterize 45.0 80 0.0017 24.6 5.9 40 5-48 17-56 (97)
199 PF02505 MCR_D: Methyl-coenzym 44.9 42 0.00091 28.5 4.6 44 12-62 76-120 (153)
200 PRK14603 ruvA Holliday junctio 44.4 27 0.00059 30.6 3.6 27 152-181 151-177 (197)
201 TIGR03260 met_CoM_red_D methyl 44.2 44 0.00094 28.3 4.5 44 12-62 75-118 (150)
202 KOG3439 Protein conjugation fa 44.0 70 0.0015 25.8 5.4 47 13-62 47-95 (116)
203 PF07462 MSP1_C: Merozoite sur 43.8 59 0.0013 33.0 6.1 8 39-46 205-212 (574)
204 PF12436 USP7_ICP0_bdg: ICP0-b 43.6 23 0.0005 32.0 3.1 72 2-76 70-153 (249)
205 COG2080 CoxS Aerobic-type carb 42.5 53 0.0012 28.0 4.9 70 1-73 2-75 (156)
206 COG3760 Uncharacterized conser 41.1 42 0.00092 28.5 4.0 60 2-74 47-106 (164)
207 KOG4248 Ubiquitin-like protein 40.4 19 0.00041 39.2 2.2 68 6-76 330-397 (1143)
208 PF14848 HU-DNA_bdg: DNA-bindi 40.4 66 0.0014 25.9 5.0 37 153-195 31-69 (124)
209 PRK01777 hypothetical protein; 40.3 1.7E+02 0.0038 22.6 7.7 62 1-74 4-75 (95)
210 PF04126 Cyclophil_like: Cyclo 40.3 17 0.00036 29.3 1.5 29 1-30 1-29 (120)
211 PRK05738 rplW 50S ribosomal pr 40.3 79 0.0017 24.3 5.2 41 10-53 20-61 (92)
212 PF06234 TmoB: Toluene-4-monoo 39.8 95 0.0021 23.8 5.4 61 14-74 18-83 (85)
213 PF07462 MSP1_C: Merozoite sur 39.4 65 0.0014 32.7 5.7 7 25-31 225-231 (574)
214 PRK06090 DNA polymerase III su 39.0 59 0.0013 30.7 5.2 40 150-194 166-205 (319)
215 KOG2500 Uncharacterized conser 38.2 1.7E+02 0.0036 26.6 7.5 19 57-75 145-163 (253)
216 PF12436 USP7_ICP0_bdg: ICP0-b 37.8 66 0.0014 29.1 5.1 43 2-47 178-223 (249)
217 PF11816 DUF3337: Domain of un 37.8 81 0.0018 29.8 5.9 63 15-77 252-329 (331)
218 PF01988 VIT1: VIT family; In 37.7 53 0.0012 28.8 4.4 40 151-194 80-119 (213)
219 PF11372 DUF3173: Domain of un 37.7 40 0.00087 24.1 2.9 21 157-180 6-26 (59)
220 KOG4147 Uncharacterized conser 37.2 70 0.0015 25.8 4.5 59 16-74 28-112 (127)
221 PF02824 TGS: TGS domain; Int 37.0 1E+02 0.0023 21.4 5.0 59 3-73 1-59 (60)
222 smart00804 TAP_C C-terminal do 34.8 1.3E+02 0.0028 21.5 5.3 44 152-198 11-60 (63)
223 PLN02983 biotin carboxyl carri 34.7 2.2E+02 0.0047 26.5 7.9 29 53-82 115-143 (274)
224 KOG4572 Predicted DNA-binding 33.0 98 0.0021 33.3 5.9 62 9-73 3-68 (1424)
225 COG1308 EGD2 Transcription fac 31.5 1.1E+02 0.0023 25.1 4.7 35 154-191 85-120 (122)
226 PF03931 Skp1_POZ: Skp1 family 31.1 36 0.00077 23.9 1.8 32 1-32 1-32 (62)
227 PRK11608 pspF phage shock prot 30.8 44 0.00095 31.3 2.9 27 168-196 286-312 (326)
228 cd06536 CIDE_N_ICAD CIDE_N dom 30.6 1E+02 0.0022 23.3 4.3 50 20-75 20-73 (80)
229 PF14533 USP7_C2: Ubiquitin-sp 30.5 44 0.00096 29.5 2.7 51 10-63 132-194 (213)
230 COG3609 Predicted transcriptio 30.5 63 0.0014 24.6 3.2 31 147-179 7-39 (89)
231 PF09469 Cobl: Cordon-bleu ubi 30.3 39 0.00085 25.5 1.9 43 29-77 2-47 (79)
232 PF06006 DUF905: Bacterial pro 30.1 35 0.00075 25.2 1.6 18 166-184 6-23 (70)
233 PF10440 WIYLD: Ubiquitin-bind 29.9 81 0.0018 22.9 3.5 25 151-178 9-33 (65)
234 cd06538 CIDE_N_FSP27 CIDE_N do 29.6 1.2E+02 0.0025 23.0 4.4 51 20-76 20-71 (79)
235 PF08169 RBB1NT: RBB1NT (NUC16 29.2 35 0.00076 26.7 1.6 21 175-198 75-96 (96)
236 cd06397 PB1_UP1 Uncharacterize 28.7 2.2E+02 0.0048 21.6 5.7 43 2-48 2-44 (82)
237 PRK09814 beta-1,6-galactofuran 28.6 68 0.0015 29.7 3.8 31 168-198 215-264 (333)
238 PF02192 PI3K_p85B: PI3-kinase 28.5 66 0.0014 24.1 2.9 23 13-35 2-24 (78)
239 PRK14605 ruvA Holliday junctio 28.4 63 0.0014 28.2 3.3 27 152-181 147-173 (194)
240 TIGR01817 nifA Nif-specific re 28.1 50 0.0011 33.1 2.9 27 168-196 490-516 (534)
241 TIGR02974 phageshock_pspF psp 27.5 53 0.0012 30.9 2.8 27 168-196 292-318 (329)
242 COG4008 Predicted metal-bindin 27.4 1.4E+02 0.0031 24.7 4.9 37 153-193 114-150 (153)
243 COG4055 McrD Methyl coenzyme M 27.3 1.3E+02 0.0029 25.5 4.7 49 12-68 84-133 (165)
244 PRK05441 murQ N-acetylmuramic 27.3 1.3E+02 0.0029 27.9 5.4 41 153-196 235-276 (299)
245 KOG4361 BCL2-associated athano 27.2 26 0.00056 33.6 0.6 61 13-76 73-139 (344)
246 PRK10923 glnG nitrogen regulat 27.2 53 0.0011 31.9 2.8 27 168-196 429-455 (469)
247 PRK15115 response regulator Gl 26.9 53 0.0012 31.6 2.8 27 168-196 398-424 (444)
248 KOG4146 Ubiquitin-like protein 26.9 3.1E+02 0.0068 21.5 8.0 53 19-75 34-97 (101)
249 cd05484 retropepsin_like_LTR_2 26.7 1.1E+02 0.0023 22.7 3.9 53 2-55 2-55 (91)
250 cd06537 CIDE_N_B CIDE_N domain 26.3 1.4E+02 0.003 22.7 4.3 49 20-75 20-70 (81)
251 PF04361 DUF494: Protein of un 26.1 89 0.0019 26.4 3.7 25 151-178 21-45 (155)
252 PF01376 Enterotoxin_b: Heat-l 26.1 94 0.002 23.8 3.4 31 4-34 39-69 (102)
253 TIGR01818 ntrC nitrogen regula 26.1 56 0.0012 31.6 2.8 27 168-196 426-452 (463)
254 PF07929 PRiA4_ORF3: Plasmid p 25.6 1.9E+02 0.0042 24.4 5.7 22 14-35 21-42 (179)
255 cd06404 PB1_aPKC PB1 domain is 25.5 2.5E+02 0.0053 21.5 5.6 33 2-35 2-34 (83)
256 PF11834 DUF3354: Domain of un 25.5 1E+02 0.0022 22.5 3.4 43 21-73 26-69 (69)
257 KOG4842 Protein involved in si 25.5 16 0.00035 33.6 -1.0 39 9-50 11-49 (278)
258 PRK06871 DNA polymerase III su 25.3 1.6E+02 0.0034 27.9 5.6 41 152-194 167-207 (325)
259 PRK05022 anaerobic nitric oxid 25.0 59 0.0013 32.4 2.8 27 168-196 468-494 (509)
260 PF14689 SPOB_a: Sensor_kinase 25.0 85 0.0018 22.1 2.8 12 181-192 36-47 (62)
261 PF03333 PapB: Adhesin biosynt 24.9 1.1E+02 0.0023 23.8 3.6 42 144-197 15-56 (91)
262 smart00143 PI3K_p85B PI3-kinas 24.9 88 0.0019 23.6 3.0 23 13-35 2-24 (78)
263 COG2103 Predicted sugar phosph 24.6 1.6E+02 0.0034 27.6 5.1 41 153-196 233-274 (298)
264 cd01818 TIAM1_RBD Ubiquitin do 24.4 2.5E+02 0.0055 21.1 5.3 37 5-44 4-40 (77)
265 PF11742 DUF3302: Protein of u 24.2 52 0.0011 24.8 1.7 21 253-273 31-51 (78)
266 CHL00030 rpl23 ribosomal prote 24.2 1.7E+02 0.0036 22.7 4.6 40 9-51 18-58 (93)
267 PF04110 APG12: Ubiquitin-like 24.1 2.1E+02 0.0045 21.9 5.0 71 2-75 3-81 (87)
268 PF10025 DUF2267: Uncharacteri 24.1 90 0.002 25.0 3.2 27 152-181 1-29 (125)
269 TIGR03636 L23_arch archaeal ri 24.0 1.8E+02 0.0038 21.7 4.5 33 11-46 15-47 (77)
270 KOG4598 Putative ubiquitin-spe 23.9 1.3E+02 0.0029 31.9 4.9 61 12-77 878-944 (1203)
271 PF06487 SAP18: Sin3 associate 23.9 93 0.002 25.3 3.2 62 11-74 37-120 (120)
272 PF14807 AP4E_app_platf: Adapt 23.7 2.2E+02 0.0048 22.5 5.3 58 18-76 28-86 (104)
273 PRK11433 aldehyde oxidoreducta 23.4 1.7E+02 0.0038 26.2 5.1 52 2-54 51-106 (217)
274 PF11148 DUF2922: Protein of u 22.9 2.8E+02 0.0062 19.7 5.4 34 2-35 4-40 (69)
275 PF03607 DCX: Doublecortin; I 22.7 2.1E+02 0.0046 19.8 4.5 45 20-73 8-54 (60)
276 PF10346 Con-6: Conidiation pr 22.6 67 0.0014 20.7 1.7 17 169-185 2-18 (36)
277 PF07022 Phage_CI_repr: Bacter 22.5 1E+02 0.0022 21.8 2.9 35 154-194 26-61 (66)
278 KOG1661 Protein-L-isoaspartate 22.3 95 0.0021 28.1 3.2 36 149-191 6-42 (237)
279 COG2204 AtoC Response regulato 22.0 78 0.0017 31.6 2.9 28 168-197 417-444 (464)
280 PF14847 Ras_bdg_2: Ras-bindin 22.0 2.2E+02 0.0048 22.5 4.9 57 3-62 3-70 (105)
281 KOG2660 Locus-specific chromos 21.7 73 0.0016 30.3 2.5 48 14-62 167-214 (331)
282 PF03765 CRAL_TRIO_N: CRAL/TRI 21.2 1.8E+02 0.0038 19.5 3.8 25 168-192 29-53 (55)
283 PRK14548 50S ribosomal protein 21.0 2.2E+02 0.0048 21.6 4.6 33 11-46 22-54 (84)
284 PF10152 DUF2360: Predicted co 21.0 4.9E+02 0.011 21.6 8.9 33 149-185 112-144 (148)
285 PF09358 UBA_e1_C: Ubiquitin-a 21.0 1.2E+02 0.0027 24.5 3.4 21 15-35 37-57 (125)
286 cd01777 SNX27_RA Ubiquitin dom 20.8 2.1E+02 0.0046 22.0 4.4 41 2-45 3-43 (87)
287 PF03943 TAP_C: TAP C-terminal 20.7 1.3E+02 0.0027 20.5 2.9 36 154-192 1-37 (51)
288 PRK05841 flgE flagellar hook p 20.6 99 0.0021 32.0 3.4 37 1-37 249-294 (603)
289 KOG3751 Growth factor receptor 20.6 1.9E+02 0.0041 29.5 5.2 74 3-78 191-274 (622)
290 PRK13552 frdB fumarate reducta 20.6 1.5E+02 0.0032 26.8 4.2 25 11-35 24-48 (239)
291 PRK05707 DNA polymerase III su 20.6 2.1E+02 0.0046 27.0 5.4 42 152-194 166-207 (328)
292 PRK03430 hypothetical protein; 20.5 1.2E+02 0.0027 25.7 3.5 25 151-178 21-45 (157)
293 KOG1348 Asparaginyl peptidases 20.4 1.3E+02 0.0027 29.5 3.8 32 153-198 436-467 (477)
No 1
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.1e-58 Score=439.33 Aligned_cols=252 Identities=39% Similarity=0.598 Sum_probs=168.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCCCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k~~ 80 (274)
|+|+||+++|++|.|+|++++||.+||++|+...|++.+++++|||||+||+|+|+++|++|+|+++++|+||++|+|..
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 99999999999999999999999999999999988555899999999999999999999999999999999999998874
Q ss_pred CCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCC--C--CCCC-CCCCCcCcc-ccCCCCCccccccccccCCCCch
Q 023989 81 GSAGASSAQPA-HTTPPTTAPSSNSTPPQEASVPPPA--P--TPSI-PASNVTSNV-TAANANSDTYGQAASNLVAGNDL 153 (274)
Q Consensus 81 ~~~~~~~~~~~-~~~~~~~~~~~~~~p~~~p~~~~~~--~--~p~~-~~~~~~~~~-~~~~~~~~~~~~~~s~l~~g~~~ 153 (274)
.+..+++...+ +++.++ ++.+ ..|...+...++. . ++.+ .+ .++.. +++.........+.|+|++|++|
T Consensus 81 ~~~~~~~~~~~~~~p~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~s~l~~g~~~ 156 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPT-PSPP-ASPASGMSAAPASAVEEKSPSEESA--TATAPESPSTSVPSSGSDAASTLVVGSER 156 (378)
T ss_pred CCCCCCCCCCCCCCCCCC-CCCC-CCCCCCCCCCCCCCCccccccCCCC--CCCCCCCCCccccccCCCcccccccchHH
Confidence 33222111011 111111 0000 0011100000000 0 0000 00 00000 00000111012567899999999
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCCCcccccCCCCCCCCCcccccccCCCCCCCCCCCCCCC
Q 023989 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSPL 233 (274)
Q Consensus 154 e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (274)
|++|++||+|| |+|+||++|||||||||||||||||+|||+++++..+.. .+... . . ....+++..+
T Consensus 157 e~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~~~----~~~~~-~---~-~~~~~~~~~~- 223 (378)
T TIGR00601 157 ETTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEPVQ----QTAAS-T---A-AATTETPQHG- 223 (378)
T ss_pred HHHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCccccccccCC----Ccccc-c---c-cccCCCCCCc-
Confidence 99999999999 999999999999999999999999999999866221111 01000 0 0 0111122222
Q ss_pred CCCcccccCCC------CCCCCCchHHhhccHHHHHHHHHHH
Q 023989 234 NMFPQETLSGA------PAGGLGSLDFLRNNQQVWSLLCCQL 269 (274)
Q Consensus 234 ~lf~~~~~~~~------~~~~~~~l~~Lr~~pqf~~lRq~~~ 269 (274)
|||+++++.+. .+.|+++|+|||++|||++||++|+
T Consensus 224 ~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq 265 (378)
T TIGR00601 224 SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQ 265 (378)
T ss_pred chhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHH
Confidence 99999975431 1124569999999999999999985
No 2
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=5.8e-56 Score=405.10 Aligned_cols=233 Identities=48% Similarity=0.709 Sum_probs=172.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCCCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k~~ 80 (274)
|+|+||+++|++|+|+|.+++||.++|++|+..+|.| +|+++|||||+||+|+|+++|.+|+|+++++|+||++|+|..
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~d-yP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k~~ 79 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPD-YPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDKSA 79 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCC-CchhhheeeecceeccCCcchhhhccccCceEEEEEecCccc
Confidence 8999999999999999999999999999999999988 999999999999999999999999999999999999999831
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCccccCCCCCccccccccccCCCCchHHHHHHH
Q 023989 81 GSAGASSAQPAHTTPPTTAPSSNSTPPQEASVPPPAPTPSIPASNVTSNVTAANANSDTYGQAASNLVAGNDLEQTIQQI 160 (274)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~s~l~~g~~~e~~i~~i 160 (274)
.+.. ++..+++...+ ...++|+.+.+ ....+ .+...++....++.+.++|++|+++|++|.+|
T Consensus 80 ~t~~---ap~s~~~~~~p--~~~~ap~~s~a---~~~s~---------~~~~~~~~~~~~~~aas~Lv~G~~~e~~V~~I 142 (340)
T KOG0011|consen 80 STQV---APQSSAATHLP--KAAEAPPSSAA---EDASP---------ATPAQTSQEDTYEIAASTLVVGSEYEQTVQQI 142 (340)
T ss_pred ccCC---CCCCccccCCC--ccCCCCCcccc---ccCCC---------CccccccccchhhhhhhhhhccchhHHHHHHH
Confidence 1111 00000000000 00011111000 00001 00111233455778899999999999999999
Q ss_pred HHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCCCcccccCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCcccc
Q 023989 161 MDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPETAEVAVPVAHFPASQAAETGAAGAAPVSGVPNSSPLNMFPQET 240 (274)
Q Consensus 161 ~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lf~~~~ 240 (274)
|+|| |+||+|+|||||||||||||||||++|||++.+.+.+.....+ .+. ...+.+++++|++.+
T Consensus 143 m~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~------~~~------~p~~~~p~~~~~~~~ 207 (340)
T KOG0011|consen 143 MEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAA------AAE------LPANAQPLDLFPQGA 207 (340)
T ss_pred HHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCccc------CCC------CCCCCChhhcCCccc
Confidence 9999 9999999999999999999999999999998766543321110 000 001445679999877
Q ss_pred cCCCCCCCCCchHHhhccHHHHHHHHHHH
Q 023989 241 LSGAPAGGLGSLDFLRNNQQVWSLLCCQL 269 (274)
Q Consensus 241 ~~~~~~~~~~~l~~Lr~~pqf~~lRq~~~ 269 (274)
.... |+++|+|||++|||++||++|.
T Consensus 208 ~~~~---~~~~l~fLr~~~qf~~lR~~iq 233 (340)
T KOG0011|consen 208 VEAS---GGDPLEFLRNQPQFQQLRQMIQ 233 (340)
T ss_pred hhhh---cCCchhhhhccHHHHHHHHHHh
Confidence 5543 3389999999999999999986
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=99.80 E-value=1.6e-19 Score=134.09 Aligned_cols=73 Identities=30% Similarity=0.449 Sum_probs=71.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
|+|+||+++|+++.++|++++||++||++|+++.| +++++|||+|+||.|+|+.+|++|||+++++|+++++.
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=99.79 E-value=4.7e-19 Score=132.02 Aligned_cols=75 Identities=53% Similarity=0.774 Sum_probs=72.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNY--PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~--p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k 78 (274)
|+|+||++.|+.+.++|++++||.+||++|++..| + ++++|||+|+|++|+|+.+|++|||++|++|++++++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~---i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~~ 77 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG---CDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKPK 77 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 7 999999999999999999999999999999999998874
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=99.78 E-value=8.6e-19 Score=132.07 Aligned_cols=74 Identities=20% Similarity=0.320 Sum_probs=70.4
Q ss_pred CEEEEEeCCCcE-EEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSH-FEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~-~~ie-V~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||+++|++ +.|+ +++++||.+||++|++..| +++++|||+|+||+|+|+.+|++|||+++++|+++++..
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g---i~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN---VEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC---CCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 7895 8999999999999999999 999999999999999999999999999999999998753
No 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=99.77 E-value=1.2e-18 Score=129.74 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=68.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+||++.|+.+.++|++++||++||++|++..| +++++|||||+||+|+|+++|++|||++|++||+..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999863
No 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=99.76 E-value=3.4e-18 Score=127.05 Aligned_cols=72 Identities=26% Similarity=0.324 Sum_probs=68.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||+. +++.++|++++||++||.+|+++.| +|+++|+|+|+||+|+|+++|++|+|+++++|+++++.+
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEG---IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLL 72 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhC---CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 89999974 6899999999999999999999999 999999999999999999999999999999999998764
No 8
>PTZ00044 ubiquitin; Provisional
Probab=99.76 E-value=3.9e-18 Score=126.82 Aligned_cols=74 Identities=30% Similarity=0.451 Sum_probs=71.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||+++|+++.++|++++||.+||++|++..| +++++|||+|+|+.|+|+.+|++|+|+++++||++++.+
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 999999999999999999999999999999999998754
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=99.75 E-value=3.1e-18 Score=128.85 Aligned_cols=72 Identities=25% Similarity=0.414 Sum_probs=69.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
|+|+||+.+|+.+.|+|+++.||.+||++|+++.+ +++++|||+|+||+|+|+ +|++|||++|++|+||.+.
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 89999999999999999999999999999999998 999999999999999999 9999999999999999865
No 10
>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=99.74 E-value=5.1e-18 Score=128.12 Aligned_cols=74 Identities=27% Similarity=0.403 Sum_probs=71.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||++.|+.+.++|+++.||.+||++|++..| +++++||| +|+|++|+|+++|++|||++|++|+|+++|-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~---i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG---VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC---CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 78999999999999999999999999999999999 99999999 9999999999999999999999999999863
No 11
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.74 E-value=7.8e-18 Score=133.32 Aligned_cols=74 Identities=42% Similarity=0.623 Sum_probs=71.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||++.|+++.|+|++++||.+||++|++..| +++++|||+|+||+|+|+.+|++|+|+++++|+++++.+
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 999999999999999999999999999999999998754
No 12
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.74 E-value=1.4e-17 Score=123.19 Aligned_cols=74 Identities=38% Similarity=0.583 Sum_probs=71.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||+++|+.+.++|+++.||.+||++|++..| +++++|||+|+|+.|+|+++|++|+|++|++|+++++.+
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 999999999999999999999999999999999998753
No 13
>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=99.73 E-value=1.2e-17 Score=125.95 Aligned_cols=74 Identities=22% Similarity=0.159 Sum_probs=65.3
Q ss_pred CEEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc--cCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSH--FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNK--VSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~--~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~--I~~~~~I~v~v~ 75 (274)
|.|+||+.++++ |.|++++++||++||++|++..+.. +++++|||||+||+|+|+.+|++|. ++++.+||++++
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~-~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~~ 79 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSK-PLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVCA 79 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCC-CChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEeC
Confidence 689999999998 5556689999999999999987521 5689999999999999999999996 999999999863
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=99.73 E-value=2.3e-17 Score=120.87 Aligned_cols=72 Identities=33% Similarity=0.498 Sum_probs=69.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
|+|+||+++|+.+.++|++++||.+||++|++..| ++++.|+|+|+|++|+|+.+|++|||++|++|+++.+
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
>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=99.73 E-value=1.2e-17 Score=123.31 Aligned_cols=69 Identities=29% Similarity=0.436 Sum_probs=66.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
++||.+.|+++.++|++++||.+||.+|++..| +++++|||+|+||+|+|+.+|++|+|+++++|||++
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 16
>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=99.73 E-value=1.5e-17 Score=123.61 Aligned_cols=72 Identities=21% Similarity=0.261 Sum_probs=69.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+||++.|+++.|+|++++||.+||++|++..| +++++|+|+|+||+|+|+++|++|||+++++|+++++..
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 999999999999999999999999999999999998753
No 17
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.72 E-value=2.4e-17 Score=121.99 Aligned_cols=74 Identities=41% Similarity=0.599 Sum_probs=71.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+||+.+|+.+.++|++++||.+||++|++..| +++++|+|+|+|+.|+|+.+|++|+|+++++|+++++.+
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 999999999999999999999999999999999998753
No 18
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.72 E-value=1.6e-17 Score=121.94 Aligned_cols=70 Identities=26% Similarity=0.437 Sum_probs=67.5
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
|+||++.|+.+.++|++++||.+||++|+++.| +++++|+|+|+||.|+|+.+|++|||+++++||++.+
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---i~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQG---VPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHC---CCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999864
No 19
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.71 E-value=3.4e-17 Score=120.68 Aligned_cols=71 Identities=28% Similarity=0.363 Sum_probs=67.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
|+|+||+.+|+ +.|+|++++||.+||++|++..| ++.++|||+|+||+|+|+++|++|||+++++||++++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~---i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK---ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC---CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 58999999999999999999999 9999999999999999999999999999999999874
No 20
>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=99.70 E-value=5e-17 Score=118.46 Aligned_cols=69 Identities=38% Similarity=0.595 Sum_probs=66.1
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+++|+.|.|+|++++||.+||++|+...+ ++++.|+|+|+|++|+|+.+|++|||+++++|+|+++++
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=99.69 E-value=7.4e-17 Score=120.34 Aligned_cols=70 Identities=23% Similarity=0.367 Sum_probs=67.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~---~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+|| ++|+.|.|+|++++||.+||++|++.+| +|+++||||| +||+|+|+.+|++|+|++|++|+||-
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 789999 7899999999999999999999999999 9999999997 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=99.66 E-value=2.3e-16 Score=116.59 Aligned_cols=68 Identities=32% Similarity=0.401 Sum_probs=64.4
Q ss_pred EEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CcccccccCCCCeEEEE
Q 023989 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDE-TTLADNKVSEDGFLVVM 73 (274)
Q Consensus 3 I~VKtl-~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~-~tL~d~~I~~~~~I~v~ 73 (274)
|+||+. .|+++.|+|++++||.+||.+|++..| +|+++|||+|+||.|+|+ .+|++|||++|++||+-
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 689999 999999999999999999999999999 999999999999999987 68999999999999873
No 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=99.64 E-value=6.9e-16 Score=112.91 Aligned_cols=70 Identities=24% Similarity=0.325 Sum_probs=67.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+||+. |+.+.++|++++||.+||++|++.+| +++++|||+|+|+.|+|+++|++|||++|++|+||.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG---VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC---CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 88999999999999999999999999 999999999999999999999999999999999984
No 24
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.62 E-value=4.5e-16 Score=109.73 Aligned_cols=70 Identities=36% Similarity=0.554 Sum_probs=68.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|.|.||+++|+.+.|+++++++|+.+|++|+++.| +|+.+|||||.||.+.|+++-.+|++.-|++||++
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=99.61 E-value=1.8e-15 Score=113.03 Aligned_cols=68 Identities=28% Similarity=0.435 Sum_probs=64.8
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCC
Q 023989 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (274)
Q Consensus 8 l~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k 78 (274)
++|+++.|+|++++||.+||++|+...| +|+++|+|+|+|+.|+|+++|++|+|+++++|+|+++.+.
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 6789999999999999999999999999 9999999999999999999999999999999999998643
No 26
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.57 E-value=8.5e-15 Score=141.07 Aligned_cols=78 Identities=27% Similarity=0.437 Sum_probs=72.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCCCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k~~ 80 (274)
++|+||+.++ ++.|.|..+.||++||++|...++ +++++++|||.||+|+|++||..|||+||.+||+|++....+
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 5799999988 899999999999999999999998 899999999999999999999999999999999998866544
Q ss_pred CC
Q 023989 81 GS 82 (274)
Q Consensus 81 ~~ 82 (274)
..
T Consensus 92 ~~ 93 (493)
T KOG0010|consen 92 TG 93 (493)
T ss_pred CC
Confidence 33
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.54 E-value=2.5e-14 Score=101.67 Aligned_cols=64 Identities=45% Similarity=0.703 Sum_probs=61.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDG 68 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~ 68 (274)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| +++++|+|+|+|+.|+|+++|++|||++|+
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 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=99.51 E-value=8.8e-14 Score=106.70 Aligned_cols=74 Identities=19% Similarity=0.312 Sum_probs=71.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|+|+|++.+|+.+.++|..++||..||++++++.| +++++|||+|+|+.|+|+.|+.+|+|+++++|+|+++..
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 68999999999999999999999999999999999 999999999999999999999999999999999998754
No 29
>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=99.48 E-value=4.1e-14 Score=105.53 Aligned_cols=56 Identities=21% Similarity=0.181 Sum_probs=49.8
Q ss_pred CCCCHHHHHHHHHHHhCCCCC-CCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 19 PSDTVMAVKKNIEDVQGKDNY-PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 19 ~~~TV~~LK~kI~~~~g~~~~-p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||++|++|||+.+
T Consensus 19 ~~~TV~~LK~kI~~~~~eg-i~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDS-LPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred ccCcHHHHHHHHHHhhccC-CCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 4789999999999996321 5 599999999999999999999999999999999863
No 30
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=5.8e-15 Score=115.73 Aligned_cols=75 Identities=41% Similarity=0.588 Sum_probs=72.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k 78 (274)
|.|+++++.|++..++|++++||..||.+|..+.| ++++.|+|||+||+|+|..||.+|||+..++||++.+...
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~G---i~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~G 75 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccC---CCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhc
Confidence 78999999999999999999999999999999999 9999999999999999999999999999999999987665
No 31
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=6.5e-14 Score=116.71 Aligned_cols=76 Identities=37% Similarity=0.532 Sum_probs=72.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccCCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKT 79 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~k~ 79 (274)
|+|+|+++.++++.++|+.++||..+|.+|++..| ||+++|||||.|+.|+|..+|+||+|+..++|+++++.+..
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg---Ip~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg 76 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC---CCchhhhhhhhhcccccCCccccccccccceEEEEEEecCC
Confidence 89999999999999999999999999999999999 99999999999999999999999999999999999976543
No 32
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.41 E-value=9.1e-13 Score=94.80 Aligned_cols=68 Identities=46% Similarity=0.665 Sum_probs=64.5
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 4 ~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
+||..+|+.+.++++++.||.+||++|+..+| +++++|+|+|+|+.|+|+.+|.+|+|++++.|+++.
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 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=99.41 E-value=4.6e-13 Score=106.64 Aligned_cols=77 Identities=19% Similarity=0.259 Sum_probs=63.7
Q ss_pred EEEEEeCCCcEE-EEEeCCCCCHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCcccccc------cCCCCeE
Q 023989 2 KLTVKTLKGSHF-EIRVQPSDTVMAVKKNIEDVQGK--DNYP--CGQQLLIHNGKVLKDETTLADNK------VSEDGFL 70 (274)
Q Consensus 2 ~I~VKtl~g~~~-~ieV~~~~TV~~LK~kI~~~~g~--~~~p--~~~qkLI~~GK~L~D~~tL~d~~------I~~~~~I 70 (274)
.|.||..+|..+ .+.+.+++||.+||++|++..+. +.+| +++|||||+||+|+|++||++|+ +....++
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 EEEeccCC
Q 023989 71 VVMLSKSK 78 (274)
Q Consensus 71 ~v~v~k~k 78 (274)
||+++.+.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99987644
No 34
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.36 E-value=1.9e-12 Score=96.89 Aligned_cols=65 Identities=20% Similarity=0.220 Sum_probs=58.8
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCcccccccC-CCCeEEEEe
Q 023989 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLK-DETTLADNKVS-EDGFLVVML 74 (274)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~-D~~tL~d~~I~-~~~~I~v~v 74 (274)
|...|.++.|+|++++||.+||.+|+++.| +++++||| |.|+.|. |+++|++|||+ +|+++++.+
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 444678999999999999999999999999 99999999 9999985 67999999999 789998865
No 35
>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=99.30 E-value=8.4e-12 Score=91.66 Aligned_cols=71 Identities=23% Similarity=0.402 Sum_probs=65.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~-~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+|+..+|+.+.+.|.++++|..|+++++++.+ ++. +.++|+|.|+.|++++|+++|+|++|+.|.|++
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 888 999999999999999999999999999999874
No 36
>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=99.17 E-value=4.9e-11 Score=77.24 Aligned_cols=36 Identities=47% Similarity=0.741 Sum_probs=33.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYL 191 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL 191 (274)
.++.|++|++|| |+|++|++||+.+.||.|+||+||
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 37
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.14 E-value=1.2e-10 Score=90.76 Aligned_cols=63 Identities=21% Similarity=0.194 Sum_probs=57.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC-CCcccccccCCCCeEEEEeccC
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKD-ETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D-~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
...++|++++||.+||.+|.++++ +++.+|||+|.|+.|.| .+||++|||..++.|++.+..|
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~---V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP 79 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFS---VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEP 79 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhc---CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCC
Confidence 467889999999999999999999 99999999999999965 6799999999999999998644
No 38
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.06 E-value=1e-09 Score=83.70 Aligned_cols=72 Identities=22% Similarity=0.316 Sum_probs=59.9
Q ss_pred EEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGK-----VL-KDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~-g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL-I~~GK-----~L-~D~~tL~d~~I~~~~~I~v~ 73 (274)
+|.|+.-. ....+..++++.||.+||++|+..+| ++++.||| +|.|+ .| +|+++|++|++++|..|||+
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 56666533 33455669999999999999999999 99999999 58887 45 77889999999999999998
Q ss_pred ecc
Q 023989 74 LSK 76 (274)
Q Consensus 74 v~k 76 (274)
-..
T Consensus 80 D~~ 82 (84)
T cd01789 80 DVS 82 (84)
T ss_pred eCC
Confidence 643
No 39
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.03 E-value=2.8e-09 Score=85.53 Aligned_cols=69 Identities=26% Similarity=0.329 Sum_probs=52.6
Q ss_pred CEEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCcccccccCCCCe
Q 023989 1 MKLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKD----NYPCGQQLLIHNGKVLKDETTLADNKVSEDGF 69 (274)
Q Consensus 1 M~I~VKtl~g~-~~~ieV~~~~TV~~LK~kI~~~~g~~----~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~ 69 (274)
+.|+|+..+|+ +-.+.+++++||.+||+.|...-..+ ...++.+||||.||+|+|+++|++|++.-++.
T Consensus 3 i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~ 76 (111)
T PF13881_consen 3 IELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGET 76 (111)
T ss_dssp EEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSE
T ss_pred EEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCC
Confidence 35778888998 77899999999999999999765322 12356789999999999999999999987773
No 40
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=4.4e-10 Score=116.09 Aligned_cols=70 Identities=23% Similarity=0.342 Sum_probs=67.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
.|+||+++.++.+|.|...+||++||+.|.++.. |+.+.|||||.|++|.|++++.+|+| +|.+|||+-+
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n---i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 4889999999999999999999999999999999 99999999999999999999999999 9999999987
No 41
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.98 E-value=4.2e-09 Score=75.13 Aligned_cols=72 Identities=44% Similarity=0.612 Sum_probs=68.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
++++++.|+.+.+++....+|..+|.+|....| ++.+.|+|+|.|+.|.|+.+|.+|+|..++.+++..+.+
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~---~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~ 73 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEG---IPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR 73 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcC---CCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence 678889999999999999999999999999999 999999999999999999999999999999999987754
No 42
>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=98.97 E-value=1.1e-09 Score=70.90 Aligned_cols=38 Identities=39% Similarity=0.712 Sum_probs=35.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
+++.|++|++|| |+|++|++||+++.||.++|++||+.
T Consensus 1 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 1 DEEKLEQLLEMG---FSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 367899999999 99999999999999999999999974
No 43
>PLN02560 enoyl-CoA reductase
Probab=98.96 E-value=2e-09 Score=100.58 Aligned_cols=71 Identities=34% Similarity=0.431 Sum_probs=62.6
Q ss_pred CEEEEEeCCCcEE---EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCcccccccCCCCeE
Q 023989 1 MKLTVKTLKGSHF---EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G----KVLKDETTLADNKVSEDGFL 70 (274)
Q Consensus 1 M~I~VKtl~g~~~---~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~---G----K~L~D~~tL~d~~I~~~~~I 70 (274)
|+|+||..+|+.+ +|+|+++.||++||++|+++.+. +++++|||++. | +.|+|+++|++||++++++|
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~--~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstL 78 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKK--YYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTV 78 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCC--CChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceE
Confidence 8999998888886 79999999999999999999872 47999999983 3 48899999999999999988
Q ss_pred EEE
Q 023989 71 VVM 73 (274)
Q Consensus 71 ~v~ 73 (274)
++=
T Consensus 79 y~k 81 (308)
T PLN02560 79 VFK 81 (308)
T ss_pred EEE
Confidence 763
No 44
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.94 E-value=1.3e-09 Score=70.15 Aligned_cols=37 Identities=43% Similarity=0.712 Sum_probs=35.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
+++.|++|++|| |++++|++||+.+.||.++|++||+
T Consensus 1 ~~~~v~~L~~mG---f~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMG---FSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 367899999999 9999999999999999999999995
No 45
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.87 E-value=7.8e-09 Score=79.00 Aligned_cols=73 Identities=23% Similarity=0.290 Sum_probs=58.1
Q ss_pred EEEEEeCCC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC-C------eec-CCCCcccccccCCCCeEE
Q 023989 2 KLTVKTLKG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN-G------KVL-KDETTLADNKVSEDGFLV 71 (274)
Q Consensus 2 ~I~VKtl~g--~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~-G------K~L-~D~~tL~d~~I~~~~~I~ 71 (274)
+|+|..... ..+++.++.+.||.+||.+|+..+| ++++.|+|.+. . ..| +|+++|.+||+++|+.||
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 566765544 4888999999999999999999999 99999999776 1 223 668899999999999999
Q ss_pred EEeccC
Q 023989 72 VMLSKS 77 (274)
Q Consensus 72 v~v~k~ 77 (274)
|.=..+
T Consensus 80 V~D~~p 85 (87)
T PF14560_consen 80 VVDTNP 85 (87)
T ss_dssp EEE-T-
T ss_pred EEeCCC
Confidence 986554
No 46
>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=98.85 E-value=8.2e-09 Score=77.23 Aligned_cols=69 Identities=26% Similarity=0.264 Sum_probs=54.9
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEE
Q 023989 2 KLTVKTLK-GSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 2 ~I~VKtl~-g~~~~ieV~-~~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D~~tL~d~~I~~~~~I~v 72 (274)
.|.++... .....++++ ++.||.+||+.|++..+. +++++||| ++.|++|.|+.+|.+|||++|++|+|
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~--~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQ--LTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCC--CCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 56666555 333334444 889999999999998652 67899888 58999999999999999999998876
No 47
>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=98.76 E-value=2.5e-08 Score=79.55 Aligned_cols=73 Identities=19% Similarity=0.237 Sum_probs=61.5
Q ss_pred CEEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccccc-------CCCCeEEE
Q 023989 1 MKLTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKV-------SEDGFLVV 72 (274)
Q Consensus 1 M~I~VKtl~-g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I-------~~~~~I~v 72 (274)
|.++++..- ..++.+++.++.||.+||++|+.... .|++.|||+..+.+|+|++||+|||+ +...+|-+
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 445554443 34678899999999999999999998 99999999977799999999999999 66778888
Q ss_pred Eecc
Q 023989 73 MLSK 76 (274)
Q Consensus 73 ~v~k 76 (274)
.+++
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 7775
No 48
>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=98.61 E-value=8.7e-08 Score=72.55 Aligned_cols=69 Identities=28% Similarity=0.365 Sum_probs=44.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eec--CCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVL--KDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G---K~L--~D~~tL~d~~I~~~~~I~v~ 73 (274)
|-|.||+.+| .+.|+|++++||.+||++|.+..+ ++.+.+.|..+- ..| .++++|+++||+.||.|++-
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~---~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLS---IPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS------TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcC---CCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 6788998777 889999999999999999999999 888888874321 334 56889999999999999863
No 49
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.57 E-value=3.5e-07 Score=61.68 Aligned_cols=67 Identities=34% Similarity=0.447 Sum_probs=60.7
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+..++..+.+.+..+.||.+||++|..+.| ++++.++|+++|+.+.+...+.++++.+++.|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG---LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC---cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444688889999999999999999999999 889999999999999999988999999999999874
No 50
>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=98.40 E-value=1.8e-06 Score=63.99 Aligned_cols=72 Identities=22% Similarity=0.348 Sum_probs=63.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCcccccccCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G--KVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~---G--K~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
++|+||.+.+..+.+.|+|..+|.+||++|....| + ...|||.|. | ..|.+..+|.+|||-.+-.|.++.+
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---C-SGLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET 76 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhC---c-ccceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence 58999999999999999999999999999999998 5 469999984 2 4579999999999999888888865
Q ss_pred c
Q 023989 76 K 76 (274)
Q Consensus 76 k 76 (274)
-
T Consensus 77 ~ 77 (80)
T cd01811 77 F 77 (80)
T ss_pred C
Confidence 4
No 51
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=6.4e-07 Score=82.91 Aligned_cols=74 Identities=23% Similarity=0.371 Sum_probs=64.6
Q ss_pred CEEEEEeC---CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 1 MKLTVKTL---KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 1 M~I~VKtl---~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
|.|.|+.- .-..+.|+|+.+..|.+||+.++...| +++++.|+||.||.|.|+.++..+.+...+.+|+|+-++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~g---vp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP 77 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQG---VPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP 77 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhC---CChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence 66777644 234588999999999999999999999 999999999999999999999999998889999985544
No 52
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.1e-06 Score=84.97 Aligned_cols=72 Identities=18% Similarity=0.332 Sum_probs=66.9
Q ss_pred EEEEEeCCCcEEEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 2 KLTVKTLKGSHFEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 2 ~I~VKtl~g~~~~ie-V~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
.|.|| +.|+.|.++ ++.++|+..||.+|...+| +++++||++++|+.|.|+-.+..++||+|.+|+||.+.-
T Consensus 5 ~v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTg---V~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 5 TVIVK-WGGKKYPVETLSTDETPSVLKAQLFALTG---VPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred eEeee-ecCccccceeccCCCchHHHHHHHHHhcC---CCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 36677 889999988 9999999999999999999 999999999999999999999999999999999998654
No 53
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.6e-06 Score=60.70 Aligned_cols=69 Identities=20% Similarity=0.263 Sum_probs=59.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
.+.+...-|+++.|.+.+++||+|+|+.|+.++| ..++.+.|---+.+++|.-+|++|.|++|..+-+.
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 4566677799999999999999999999999999 77887777656677899999999999999877654
No 54
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=4.8e-05 Score=59.44 Aligned_cols=72 Identities=18% Similarity=0.282 Sum_probs=64.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
+|+|+.-++....+.|.-+...+.|++..++..| +....+|++|+|+.+++.+|-.++++++++.|-++...
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 4566664566778899999999999999999999 88999999999999999999999999999999988643
No 55
>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=97.86 E-value=5.4e-05 Score=59.38 Aligned_cols=59 Identities=22% Similarity=0.277 Sum_probs=46.4
Q ss_pred EEEEeCC-CcEEEEEeC--CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 023989 3 LTVKTLK-GSHFEIRVQ--PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (274)
Q Consensus 3 I~VKtl~-g~~~~ieV~--~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~ 62 (274)
|+||..+ -..+.++|. .+.||..||+.|.+..+.+ ..-.++||||+||+|.|...|...
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~-~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPE-PSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCC-CccccEEeeecCcccCccchhhhh
Confidence 5666555 234677777 8899999999999998533 566789999999999998877654
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.70 E-value=5.4e-05 Score=58.77 Aligned_cols=59 Identities=25% Similarity=0.379 Sum_probs=49.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC-eecCCCCcccccccC
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NG-KVLKDETTLADNKVS 65 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~-~G-K~L~D~~tL~d~~I~ 65 (274)
|.|| ....++.++.+++.||-+||.+++.... -|++.|||.. .. .+|+|.++|+|||..
T Consensus 5 ~~Vr-R~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 5 LRVR-RHKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred eeee-ecceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhcccc
Confidence 4455 2345688999999999999999999988 8999999976 33 678999999999874
No 57
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=97.58 E-value=0.00012 Score=48.41 Aligned_cols=39 Identities=33% Similarity=0.451 Sum_probs=35.2
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 153 LEQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 153 ~e~~i~~i~eM--G~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
+++.|+.|.+| . |+++.+.++|++.-+|.|+||++|+.|
T Consensus 1 ~~~~v~~L~~mFP~---~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 1 REEMVQQLQEMFPD---LDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp CHHHHHHHHHHSSS---S-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46899999999 6 999999999999999999999999864
No 58
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.58 E-value=0.00015 Score=54.29 Aligned_cols=71 Identities=23% Similarity=0.324 Sum_probs=50.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCcccccccCCCCeEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLLI-HNGKVLKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~---~qkLI-~~GK~L~D~~tL~d~~I~~~~~I~v 72 (274)
+|+|..-+|+.+.+.+..+.+|++|...|.+..+....... ..+|. -+|..|+++++|.++||.+|+.|++
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 56777645688999999999999999999998873212222 36776 7899999999999999999999986
No 59
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00011 Score=74.18 Aligned_cols=43 Identities=35% Similarity=0.617 Sum_probs=40.1
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
+..|+.|..|++|| |.|.|++.||++..||.+|||||+++-+=
T Consensus 633 ~~~e~~v~si~smG---f~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 633 EVDEESVASIVSMG---FSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred CCChhHheeeeeec---CcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 45689999999999 99999999999999999999999999854
No 60
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.47 E-value=0.00092 Score=50.02 Aligned_cols=69 Identities=26% Similarity=0.289 Sum_probs=57.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLI--HNGKVLKDE--TTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~-qkLI--~~GK~L~D~--~tL~d~~I~~~~~I~v~ 73 (274)
+|.||..+|+.+...+..++||.+|...|..... .+... .+|+ |-.+.|.++ ++|+++|+.++..|+|-
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~---~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF---SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH---CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC---CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 6889999999999999999999999999998877 33443 7786 667888554 69999999999888763
No 61
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.37 E-value=0.0013 Score=49.36 Aligned_cols=68 Identities=19% Similarity=0.187 Sum_probs=55.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~D---~~tL~d~~I~~~~~I~v 72 (274)
+|.||..+|+.+...+..++||.+|.+.|....+ ......+|+ |-.|.|.+ +++|.++|+..+.+|+|
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 6899999999999999999999999999966555 445567775 66788854 47999999988888765
No 62
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.25 E-value=0.0021 Score=48.46 Aligned_cols=64 Identities=17% Similarity=0.266 Sum_probs=52.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSED 67 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~D-~~tL~d~~I~~~ 67 (274)
+|.||..+|+.+...+..++||.+|++.|....+. .......|+ |-.|.|.| +.||+|.|+.+.
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s 72 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLNA 72 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcCc
Confidence 68899999999999999999999999999987641 223566776 77888855 789999999963
No 63
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=97.23 E-value=0.00018 Score=51.34 Aligned_cols=18 Identities=44% Similarity=0.462 Sum_probs=16.8
Q ss_pred hHHhhccHHHHHHHHHHH
Q 023989 252 LDFLRNNQQVWSLLCCQL 269 (274)
Q Consensus 252 l~~Lr~~pqf~~lRq~~~ 269 (274)
|+|||++|+|++||++|.
T Consensus 1 L~~Lr~~Pqf~~lR~~vq 18 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLVQ 18 (59)
T ss_dssp CGGGTTSHHHHHHHHHHH
T ss_pred ChHHHcChHHHHHHHHHH
Confidence 689999999999999985
No 64
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=3e-05 Score=72.37 Aligned_cols=76 Identities=21% Similarity=0.175 Sum_probs=56.4
Q ss_pred EEEEEeCCC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCC--CCeEEEEeccC
Q 023989 2 KLTVKTLKG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSE--DGFLVVMLSKS 77 (274)
Q Consensus 2 ~I~VKtl~g--~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~--~~~I~v~v~k~ 77 (274)
.+.||..++ +...|..+...||++||..++.....+ --..+|||||.||.|.|...|.|.-+|. ...+||++..+
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 456665554 456777888999999999999987644 3356899999999999999999885543 34566666544
Q ss_pred C
Q 023989 78 K 78 (274)
Q Consensus 78 k 78 (274)
.
T Consensus 90 ~ 90 (391)
T KOG4583|consen 90 E 90 (391)
T ss_pred C
Confidence 4
No 65
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.21 E-value=0.0019 Score=47.99 Aligned_cols=69 Identities=10% Similarity=0.238 Sum_probs=57.3
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCcccccccCCCCeEEE
Q 023989 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC--GQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 4 ~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~--~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v 72 (274)
-++...|.+|.+.++...+|+.|-..+.+.....-.+. ..+|..-++++|.++..|.+|+|.+|+.+.+
T Consensus 10 D~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 10 DFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 34677899999999999999999998888765321222 3578899999999999999999999999875
No 66
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=97.19 E-value=0.0031 Score=46.77 Aligned_cols=67 Identities=21% Similarity=0.335 Sum_probs=53.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~D---~~tL~d~~I~~~~~I~v~ 73 (274)
+|.||..+|+.+...+..++||.+|.+.|..... .....+|+ |-.|.|.| +++|.++|+. .+.+++.
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~----~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~~ 75 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP----PAEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQR 75 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC----CCCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEEE
Confidence 6889999999999999999999999999987654 24566776 56688854 7899999999 4555443
No 67
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.15 E-value=0.0034 Score=47.12 Aligned_cols=68 Identities=21% Similarity=0.353 Sum_probs=56.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~D---~~tL~d~~I~~~~~I~v~ 73 (274)
+|.||..+|+.+...+..++||.+|++.|....+ . ....+|+ |--|.+.+ ++||.++|+.+..+|+|-
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~---~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG---N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC---C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 6889999999999999999999999999987654 2 2557776 67788854 479999999988887763
No 68
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.05 E-value=0.0012 Score=58.24 Aligned_cols=67 Identities=24% Similarity=0.313 Sum_probs=57.5
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCC--CeEEEEeccCC
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSED--GFLVVMLSKSK 78 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~--~~I~v~v~k~k 78 (274)
.++.|.+.+..-+||.++|.++....| +.+-.|+++|+|++|.|...|.+|+|..| -+|.+.|...+
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq~~ 223 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQEP 223 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEEEEeccCC
Confidence 456788889999999999999999999 66889999999999999999999999999 55555555443
No 69
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.0027 Score=48.88 Aligned_cols=69 Identities=14% Similarity=0.228 Sum_probs=59.4
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
+.|-.-+|..+.+.|..+.|.+.|.+..+...| -..+..|++|+|+.++-++|-.++++.+++.|-++.
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 344444677888999999999999999999999 558899999999999999999999999999876543
No 70
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.99 E-value=0.00088 Score=64.51 Aligned_cols=39 Identities=31% Similarity=0.504 Sum_probs=36.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
+-.++|++|++|| |+|+.|+.|-.|+..|=+.|+.||+.
T Consensus 336 eE~~AIeRL~~LG---F~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 336 EEKEAIERLCALG---FDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred HHHHHHHHHHHcC---CCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 3467999999999 99999999999999999999999985
No 71
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.88 E-value=0.0021 Score=58.19 Aligned_cols=71 Identities=20% Similarity=0.171 Sum_probs=53.9
Q ss_pred CEEEEEeCCCc-EEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE----EeCCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGS-HFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL----IHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~-~~~-ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL----I~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|.|+++..++. ..+ ++.....||.|++++|..+.-+ +-+.++|+ --+||.|.|+.+|++|+..++.+|+|-
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k--~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vK 77 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLK--ITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVK 77 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhc--cCccchhheeeccCCCccccchhHHHHhccCCCCEEEEe
Confidence 78999877652 333 5677889999999888877653 44544433 458999999999999999999777653
No 72
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.0014 Score=56.77 Aligned_cols=45 Identities=20% Similarity=0.257 Sum_probs=43.0
Q ss_pred cCCCCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 147 LVAGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 147 l~~g~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
+..+..+...|.+|.+|| |+|+.++.+|+-...|-.+|.|+|++|
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 677889999999999999 999999999999999999999999987
No 73
>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=96.81 E-value=0.0037 Score=41.37 Aligned_cols=39 Identities=26% Similarity=0.482 Sum_probs=36.0
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 153 LEQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 153 ~e~~i~~i~eM--G~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
.++.|..|.+| . ++++.|++.|++..+|.|+|++.|+.|
T Consensus 2 ~~~~v~~L~~mFP~---l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPN---LDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46789999999 6 899999999999999999999999876
No 74
>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=96.80 E-value=0.011 Score=44.92 Aligned_cols=69 Identities=17% Similarity=0.327 Sum_probs=59.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCcccccccCCCCeEEEEe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK---DETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~---D~~tL~d~~I~~~~~I~v~v 74 (274)
+|.||..+|+..+-.+..++++.+|...|.. .| .+.+..+|+ |--|++. .+.||.++|+.+..+|+|--
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 6899999999999999999999999999988 56 678889997 6678773 35799999999999998754
No 75
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=96.72 E-value=0.0066 Score=44.20 Aligned_cols=62 Identities=19% Similarity=0.194 Sum_probs=46.5
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEE
Q 023989 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 8 l~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v 72 (274)
.+++.+.|.|.++.++.++-+...+++| +..++..|.|++|.|+-+.++.-.|+-+|..+.+
T Consensus 4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~---l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 4 YNFRRFKVKVTPNTTLNQVLEEACKKFG---LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp TTS-EEEE---TTSBHHHHHHHHHHHTT-----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHcC---CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 5788999999999999999999999999 8889999999999999999999999999988754
No 76
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.68 E-value=0.014 Score=44.65 Aligned_cols=69 Identities=19% Similarity=0.198 Sum_probs=56.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC--------CCCcccccccCCCCeE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLK--------DETTLADNKVSEDGFL 70 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G--K~L~--------D~~tL~d~~I~~~~~I 70 (274)
.+|.||..+|+.+.-.+..++||.+|...|.. .+ ..++...|+++= |+|. .+.||++.||.+...|
T Consensus 5 ~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~---~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 5 VKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK---ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC---CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence 36899999999999999999999999999964 44 456788888643 7885 3679999999987777
Q ss_pred EEE
Q 023989 71 VVM 73 (274)
Q Consensus 71 ~v~ 73 (274)
+|-
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 663
No 77
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.012 Score=51.95 Aligned_cols=71 Identities=21% Similarity=0.247 Sum_probs=55.0
Q ss_pred EEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eec-CCCCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNG-----KVL-KDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~-~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL-I~~G-----K~L-~D~~tL~d~~I~~~~~I~v~ 73 (274)
+|+|.+.... .++.++..+.||.+||.|++..+| ..++.++| +|.| -.| +++..|..|+..+|..||++
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 4555533221 245567899999999999999999 88999999 5766 235 55789999999999999998
Q ss_pred ec
Q 023989 74 LS 75 (274)
Q Consensus 74 v~ 75 (274)
-.
T Consensus 80 D~ 81 (234)
T KOG3206|consen 80 DS 81 (234)
T ss_pred ec
Confidence 54
No 78
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.24 E-value=0.037 Score=41.73 Aligned_cols=68 Identities=25% Similarity=0.338 Sum_probs=57.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC--C-CCcccccccCCCCeEEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK--D-ETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~--D-~~tL~d~~I~~~~~I~v~ 73 (274)
+|.||..+|+.+.-.+..++++.+|...|..+ | ++.+..+|+ |--|.+. | +.+|.+.|+....+|+|-
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 68899999999999999999999999999874 6 667788886 6678884 2 569999999998888774
No 79
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=96.14 E-value=0.036 Score=47.33 Aligned_cols=64 Identities=17% Similarity=0.306 Sum_probs=48.9
Q ss_pred CEEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe-EEEe-CCeec--CCCCcccccccCCC
Q 023989 1 MKLTVKTLKG----SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIH-NGKVL--KDETTLADNKVSED 67 (274)
Q Consensus 1 M~I~VKtl~g----~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~q-kLI~-~GK~L--~D~~tL~d~~I~~~ 67 (274)
|+|.|++++| .++.+.+..+.||.+|+..|....+ ++...+ .|.+ .++.| .++..+.++.-.+.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~---~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~ 72 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP---IPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQ 72 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC---CCccceeEEEEeCCCeeCCCccccHHhhccCcC
Confidence 7899999999 5889999999999999999999998 766663 3443 34444 55666777754443
No 80
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=95.75 E-value=0.013 Score=55.10 Aligned_cols=40 Identities=28% Similarity=0.433 Sum_probs=37.3
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
+-.++|.+|.+|| |+|.-|+.|--|+..|=+-|.+||+.-
T Consensus 297 ee~eAIeRL~alG---F~ralViqayfACdKNEelAAN~Ll~~ 336 (340)
T KOG0011|consen 297 EEKEAIERLEALG---FPRALVIQAYFACDKNEELAANYLLSH 336 (340)
T ss_pred HHHHHHHHHHHhC---CcHHHHHHHHHhcCccHHHHHHHHHhh
Confidence 4578999999999 999999999999999999999999864
No 81
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=95.28 E-value=0.029 Score=41.95 Aligned_cols=56 Identities=25% Similarity=0.322 Sum_probs=46.9
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc-ccCCCCeEEEEe
Q 023989 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN-KVSEDGFLVVML 74 (274)
Q Consensus 17 V~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~-~I~~~~~I~v~v 74 (274)
|.++++|.+||+.|...... ..-....|.++|+.|+|...|+++ |++++..|.|+.
T Consensus 1 v~~~d~v~dvrq~L~~~~~t--~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve 57 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPET--CYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVE 57 (76)
T ss_pred CChhhHHHHHHHHHHhCccc--cceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEe
Confidence 56789999999999987552 446678999999999999999888 689999888774
No 82
>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=95.12 E-value=0.024 Score=39.82 Aligned_cols=23 Identities=22% Similarity=0.583 Sum_probs=19.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHH
Q 023989 154 EQTIQQIMDMGGGTWDKETVTRALQA 179 (274)
Q Consensus 154 e~~i~~i~eMG~~~f~r~qv~~ALrA 179 (274)
...|.++++|| |+|+.|+.|||-
T Consensus 10 ~~lVd~F~~mG---F~~dkVvevlrr 32 (55)
T PF09288_consen 10 KDLVDQFENMG---FERDKVVEVLRR 32 (55)
T ss_dssp HHHHHHHHHHT-----HHHHHHHHHH
T ss_pred HHHHHHHHHcC---CcHHHHHHHHHH
Confidence 57899999999 999999999995
No 83
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=94.92 E-value=0.038 Score=54.48 Aligned_cols=41 Identities=29% Similarity=0.469 Sum_probs=37.5
Q ss_pred CchHHHHHHHHHcCCCCC-CHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 151 NDLEQTIQQIMDMGGGTW-DKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f-~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
..|..-.++|-+|| | +|++-++||+|.+.|.++|||-|+.+
T Consensus 452 ~r~q~QLeQL~~MG---F~nre~nlqAL~atgGdi~aAverll~s 493 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMG---FLDREANLQALRATGGDINAAVERLLGS 493 (493)
T ss_pred HHHHHHHHHHHhcC---CccHHHHHHHHHHhcCcHHHHHHHHhcC
Confidence 45888899999999 8 99999999999999999999999853
No 84
>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=94.79 E-value=0.054 Score=41.40 Aligned_cols=36 Identities=31% Similarity=0.503 Sum_probs=31.6
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCC
Q 023989 157 IQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGI 195 (274)
Q Consensus 157 i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GI 195 (274)
|+.+.+.| |+++.|.+||++.-+++..|..|+++++
T Consensus 1 i~~~~~~g---~~~~~v~~aL~~tSgd~~~a~~~vl~~l 36 (87)
T PF11626_consen 1 IKHYEELG---YSREFVTHALYATSGDPELARRFVLNFL 36 (87)
T ss_dssp -HHHHHHT---B-HHHHHHHHHHTTTBHHHHHHHHHHCH
T ss_pred CchHHHhC---CCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 56788899 9999999999999999999999999883
No 85
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=94.61 E-value=0.12 Score=36.69 Aligned_cols=56 Identities=21% Similarity=0.364 Sum_probs=40.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
|+|.|. |+ .+++....|+.+||.++... .=-+||+|-..+++. -+++||.|+++.+
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~---------~DI~I~NGF~~~~d~-----~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKPD---------ADIVILNGFPTKEDI-----ELKEGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCCC---------CCEEEEcCcccCCcc-----ccCCCCEEEEEeC
Confidence 666654 44 46777889999999875442 227799999988764 4667999988753
No 86
>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=94.52 E-value=0.11 Score=36.94 Aligned_cols=41 Identities=27% Similarity=0.370 Sum_probs=37.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
...+|+.|-|.-|+ +..+++...|+-++++||.||+-||+=
T Consensus 5 ~rk~VQ~iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 5 SRKTVQSIKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 46899999998766 899999999999999999999999873
No 87
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.18 E-value=0.2 Score=37.30 Aligned_cols=66 Identities=11% Similarity=0.144 Sum_probs=45.9
Q ss_pred CEEEEEeCC------C-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCcccccccCCCCeEE
Q 023989 1 MKLTVKTLK------G-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC--GQQLLIHNGKVLKDETTLADNKVSEDGFLV 71 (274)
Q Consensus 1 M~I~VKtl~------g-~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~--~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~ 71 (274)
|+|+|+... | ....++++...||.+|++.|...... +.. ....+..+|+...+ ++-|++||.|.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~--l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVa 74 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPS--LEEVRSCCVLALNEEYTTE-----SAALKDGDELA 74 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChh--HHHHhhCcEEEECCEEcCC-----CcCcCCCCEEE
Confidence 678888553 3 45678888899999999999876420 111 22346678888753 34578899998
Q ss_pred EE
Q 023989 72 VM 73 (274)
Q Consensus 72 v~ 73 (274)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 87
No 88
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=94.15 E-value=0.3 Score=35.80 Aligned_cols=64 Identities=19% Similarity=0.151 Sum_probs=49.5
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCcccccccCCCCeE
Q 023989 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH----NG--KVLKDETTLADNKVSEDGFL 70 (274)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~----~G--K~L~D~~tL~d~~I~~~~~I 70 (274)
|+.++|....++|+.+.|+.+|=+.|..+.+. ...+..-|.| +| .-|+.+++|.++..+.+...
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~ 70 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPF 70 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCE
Confidence 67789999999999999999999999999993 3455667877 23 44788899999877733333
No 89
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=94.11 E-value=0.073 Score=50.67 Aligned_cols=70 Identities=20% Similarity=0.154 Sum_probs=60.0
Q ss_pred CEEEEEeC--CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC--CcccccccCCCCeEEEE
Q 023989 1 MKLTVKTL--KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDE--TTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl--~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~--~tL~d~~I~~~~~I~v~ 73 (274)
|.++|-+. ..+.|.|+|..+.....|+..+....| +..+..-|||+++.|.++ ..|..||++++++|.+-
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 66666554 567889999999999999999999999 889999999999999664 68999999999887543
No 90
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=93.80 E-value=0.069 Score=52.23 Aligned_cols=59 Identities=22% Similarity=0.157 Sum_probs=51.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 14 ~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
.++...+.|=.+|..+|+++.| ++-...|.|.+||+|.-.+||.+-|++.+..+.|++.
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 4556667788899999999999 8888999999999999999999999998877766665
No 91
>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=93.51 E-value=0.23 Score=32.76 Aligned_cols=37 Identities=27% Similarity=0.423 Sum_probs=30.9
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 154 e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
++.|.+.|+. | -+++.++.-|+.+.+|.++||+.-+.
T Consensus 1 ~e~i~~F~~iTg---~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 1 DEKIAQFMSITG---ADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHC---cCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 5688999996 7 79999999999999999999987654
No 92
>PRK06437 hypothetical protein; Provisional
Probab=93.42 E-value=0.66 Score=33.62 Aligned_cols=54 Identities=19% Similarity=0.234 Sum_probs=43.0
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
.++...++++...||.+|=+. .+ ++.+...++.+|+++. .++-|++||.|-++-
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lg---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LG---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cC---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 445577888888999988755 46 7788889999999997 556788999998763
No 93
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=93.07 E-value=0.11 Score=35.06 Aligned_cols=37 Identities=22% Similarity=0.497 Sum_probs=28.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
.++.+.-|+.+| |.+.++.+|++....+++.-+|.++
T Consensus 3 ~~d~~~AL~~LG---y~~~e~~~av~~~~~~~~~~~e~~i 39 (47)
T PF07499_consen 3 LEDALEALISLG---YSKAEAQKAVSKLLEKPGMDVEELI 39 (47)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHHHSTTS-HHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhcCCCCCHHHHH
Confidence 578999999999 9999999999988755555566654
No 94
>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=92.98 E-value=0.52 Score=34.46 Aligned_cols=57 Identities=12% Similarity=0.131 Sum_probs=42.1
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGK-DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~-~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
...++++...||.+|.+.+...++. .........+..+|+... .+.-|++||.|.++
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 4677888889999999999987541 001234567778999887 34568899999987
No 95
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=92.73 E-value=0.79 Score=33.36 Aligned_cols=58 Identities=24% Similarity=0.415 Sum_probs=42.7
Q ss_pred EEEEeCCCc--EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 3 LTVKTLKGS--HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 3 I~VKtl~g~--~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
++|+ ++|+ ...++++...||.+|-+.+ + ++.+...+..+|+++.. +.-+++||.|-++
T Consensus 5 m~v~-vng~~~~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 5 IRVK-VIGRGIEKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred EEEE-EeccccceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 3444 3454 5678888889999988765 5 66677788899999854 5557889988876
No 96
>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=92.59 E-value=0.55 Score=35.58 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=34.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK 51 (274)
++.|.|.+..+..+|+++|.++.+ ++.+..+|-|+..
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEeccC
Confidence 899999999999999999999999 9899999999764
No 97
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=92.18 E-value=0.19 Score=49.27 Aligned_cols=42 Identities=21% Similarity=0.401 Sum_probs=39.3
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCCCc
Q 023989 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPET 198 (274)
Q Consensus 154 e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP~~ 198 (274)
+..|.+|+.|| |++-..+.||++.-||.|.|.+.|+-.++..
T Consensus 430 ~~~la~Lv~mG---F~e~~A~~ALe~~gnn~~~a~~~L~~s~~n~ 471 (568)
T KOG2561|consen 430 GISLAELVSMG---FEEGKARSALEAGGNNEDTAQRLLSASVANE 471 (568)
T ss_pred hhhHHHHHHhc---cccchHHHHHHhcCCcHHHHHHHHHHhCCCC
Confidence 56899999999 9999999999999999999999999988764
No 98
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=91.81 E-value=0.72 Score=35.41 Aligned_cols=47 Identities=21% Similarity=0.347 Sum_probs=38.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH 48 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~ 48 (274)
.+++|+.+|+.+.+.+.++..+.+|++.|.++.|.+........|.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 46789999999999999999999999999999993322225677777
No 99
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=91.56 E-value=0.89 Score=32.39 Aligned_cols=60 Identities=18% Similarity=0.269 Sum_probs=42.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+| +|+.+.+ + ..||.+|.+.+ + +..+...+-++|+++. .....+.-+++||.|-++-
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 55554 5777666 3 45899888764 5 5566677889999986 3335566789999998773
No 100
>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=91.16 E-value=0.062 Score=50.22 Aligned_cols=60 Identities=22% Similarity=0.372 Sum_probs=0.0
Q ss_pred EEEEEeCCCcEEEEEeC---C--CCCHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCcccc
Q 023989 2 KLTVKTLKGSHFEIRVQ---P--SDTVMAVKKNIED----------VQGKDNYPCGQQL-----LIHNGKVLKDETTLAD 61 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~---~--~~TV~~LK~kI~~----------~~g~~~~p~~~qk-----LI~~GK~L~D~~tL~d 61 (274)
.|++|.+..-.+.|.+. + +.+|.+||..+++ +.+ +|.+.+| |+|+-|.+.|.++|.+
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 46677776655555433 2 6899999999999 777 8999999 9999999999999888
Q ss_pred ccc
Q 023989 62 NKV 64 (274)
Q Consensus 62 ~~I 64 (274)
+.-
T Consensus 157 ~l~ 159 (309)
T PF12754_consen 157 VLA 159 (309)
T ss_dssp ---
T ss_pred HHh
Confidence 743
No 101
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=90.99 E-value=0.32 Score=48.54 Aligned_cols=39 Identities=33% Similarity=0.629 Sum_probs=35.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcC-CHHHHHHHHHcCC
Q 023989 154 EQTIQQIMDMGGGTWDKETVTRALQAAYN-NPERAVDYLYSGI 195 (274)
Q Consensus 154 e~~i~~i~eMG~~~f~r~qv~~ALrAafn-NpdrAvEyL~~GI 195 (274)
...|.+|++|| |+.+.+.|||-+..| +-+.|+.||+-.+
T Consensus 559 qs~I~qL~~mG---fp~~~~~rAL~~tgNqDaEsAMNWLFqHM 598 (749)
T COG5207 559 QSLIRQLVDMG---FPEEDAARALGITGNQDAESAMNWLFQHM 598 (749)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHhhccCcchHHHHHHHHhhc
Confidence 56899999999 999999999999877 7899999999774
No 102
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=90.64 E-value=1.6 Score=32.22 Aligned_cols=57 Identities=18% Similarity=0.267 Sum_probs=42.1
Q ss_pred Cc-EEEEEeCCC-CCHHHHHHHHHHHhCCCCCC--CCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 10 GS-HFEIRVQPS-DTVMAVKKNIEDVQGKDNYP--CGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 10 g~-~~~ieV~~~-~TV~~LK~kI~~~~g~~~~p--~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|+ ...+++..+ .||.+|++.+.++.+. +- .....+..+|+...+ +.-|++|+.|.++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~--l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPE--LAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCch--hhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 44 357888877 8999999999988641 11 134567788888875 4578889999887
No 103
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=90.23 E-value=0.47 Score=45.61 Aligned_cols=66 Identities=17% Similarity=0.276 Sum_probs=52.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCCCe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSEDGF 69 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~GK~L~D-~~tL~d~~I~~~~~ 69 (274)
.|.||..+|+.+...++.+.||.+|+..|...... .....+-|+ |--|.|.| +.||++-||.+...
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~--~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl 375 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPG--DSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL 375 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCC--CcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence 47899899999999999999999999999998762 333455554 55688865 67999999987443
No 104
>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=89.61 E-value=1.9 Score=32.65 Aligned_cols=46 Identities=13% Similarity=0.073 Sum_probs=35.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCC
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNG 50 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~-~~qkLI~~G 50 (274)
|+|++. .+|..+.+.+.++.++.+|+++|.++.+ +.. ....|-|..
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~D 47 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLD 47 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEEC
Confidence 455555 4667889999999999999999999988 543 466776643
No 105
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=89.39 E-value=2 Score=33.12 Aligned_cols=61 Identities=15% Similarity=0.212 Sum_probs=41.5
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eC--C-eecCC-CCcccccccCCCCeEEEEecc
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HN--G-KVLKD-ETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~--G-K~L~D-~~tL~d~~I~~~~~I~v~v~k 76 (274)
.+...+...+||..+++.+.+.+. + ....||- |. + ..|.+ +.||.+.+|.+|-.|++-.+.
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~---i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFN---I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT-----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred HhHhhccccChHHHHHHHHHHHhC---C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 567788999999999999999998 8 6667873 32 2 33644 579999999999888776654
No 106
>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=89.14 E-value=0.87 Score=32.94 Aligned_cols=59 Identities=15% Similarity=0.169 Sum_probs=46.9
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
...+++....||.+|.+.+..+...- .......+..+|+.+.+ ...+.-+++||.|.++
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~-~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ 71 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPEL-ALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAIL 71 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGG-HTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhcccc-ccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEE
Confidence 66788899999999999999886411 12367788999999988 3666778899999987
No 107
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=89.13 E-value=0.21 Score=49.80 Aligned_cols=40 Identities=15% Similarity=0.238 Sum_probs=37.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
-.|..++.|+||| |.-.+|++||--..+|.+|+|+|.++.
T Consensus 620 VdE~~~~Slle~G---ln~n~~Rkal~~~n~d~~r~V~w~~N~ 659 (749)
T COG5207 620 VDESKARSLLENG---LNPNLCRKALMDMNTDSKRRVVWCIND 659 (749)
T ss_pred ccHHHHHHHHHcC---CCHHHHHHHHHHccCCchheEEEEEeC
Confidence 3688999999999 999999999999999999999999983
No 108
>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=89.10 E-value=2.2 Score=31.95 Aligned_cols=59 Identities=12% Similarity=0.215 Sum_probs=41.1
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCC---CCC-----CCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKD---NYP-----CGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~---~~p-----~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
....++++ ..||.+|.+.|.+++... .+. -....+..+|+..+++.. .-|++|+.|.++
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 35677876 899999999999886410 000 123566778888765532 568999999987
No 109
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=88.42 E-value=0.69 Score=47.46 Aligned_cols=41 Identities=27% Similarity=0.408 Sum_probs=36.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhc-CCHHHHHHHHHcCCC
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY-NNPERAVDYLYSGIP 196 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAaf-nNpdrAvEyL~~GIP 196 (274)
.+..|.+|++|| |+.+.|.|||-..- .+.+-|..||+.-+=
T Consensus 571 d~s~i~qL~~MG---Fp~eac~rAly~tgN~~aEaA~NWl~~HMd 612 (763)
T KOG0944|consen 571 DRSVISQLVEMG---FPEEACRRALYYTGNSGAEAASNWLMEHMD 612 (763)
T ss_pred hHHHHHHHHHcC---CCHHHHHHHHhhhcCccHHHHHHHHHHhcc
Confidence 367899999999 99999999999984 489999999998863
No 110
>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=87.96 E-value=4.4 Score=34.42 Aligned_cols=61 Identities=25% Similarity=0.211 Sum_probs=46.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeC---C---eecCCCCcccccccC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHN---G---KVLKDETTLADNKVS 65 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~-~~qkLI~~---G---K~L~D~~tL~d~~I~ 65 (274)
.|.|..++|....|.++++.||.+|.+.|..+.| +.. ...-|.+. + ..|+...+|.+...+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 5788889999999999999999999999999999 532 23344432 1 346667777777655
No 111
>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=86.96 E-value=3.3 Score=30.35 Aligned_cols=45 Identities=9% Similarity=0.097 Sum_probs=36.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G 50 (274)
+|+++. .+..+.+.+..+.|..+|+.+|..+.+ ......+|-|..
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 455653 667888999999999999999999998 655678888864
No 112
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=86.73 E-value=2.8 Score=34.22 Aligned_cols=60 Identities=17% Similarity=0.178 Sum_probs=43.7
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-------CCCCCCeEEEeCC-----------------eec---CCCCcccccccCCC
Q 023989 16 RVQP-SDTVMAVKKNIEDVQGKD-------NYPCGQQLLIHNG-----------------KVL---KDETTLADNKVSED 67 (274)
Q Consensus 16 eV~~-~~TV~~LK~kI~~~~g~~-------~~p~~~qkLI~~G-----------------K~L---~D~~tL~d~~I~~~ 67 (274)
.|+. +.||++|++.+.+..... .+.-+.+||++.. .+| +|+++|.+|||.+.
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 4886 999999999988775311 1334556776532 467 77889999999999
Q ss_pred CeEEEEec
Q 023989 68 GFLVVMLS 75 (274)
Q Consensus 68 ~~I~v~v~ 75 (274)
..|-+...
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 98887754
No 113
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=86.63 E-value=3 Score=30.41 Aligned_cols=67 Identities=16% Similarity=0.216 Sum_probs=53.2
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCcccccccCCCCeEEEEec
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI-~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
+|+...+|......+.-+..+--+..|--.-|++...|- -+|.+|+-++.++|||+.++-++++-++
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLK 71 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLK 71 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEee
Confidence 678888898888888888887777665322567777664 4789999999999999999999887764
No 114
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=86.30 E-value=0.35 Score=36.23 Aligned_cols=27 Identities=37% Similarity=0.482 Sum_probs=23.7
Q ss_pred C-CHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 168 W-DKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 168 f-~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
. .+.+++.||.-.|+|+++||.||++-
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 115
>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=85.22 E-value=2.7 Score=31.07 Aligned_cols=64 Identities=19% Similarity=0.048 Sum_probs=46.3
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC--C--eecCCCCcccccccCCCCeEEE
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN--G--KVLKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~--G--K~L~D~~tL~d~~I~~~~~I~v 72 (274)
+.|-..+|+.-.+.|.+..||.++=.++.++.| +.++...|.+. + +.+..+.....+ .+..|.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~~~~~~~~~~~~d~~~L---~~~El~V 69 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLGLDEKKPLDLDTDSSSL---AGEELEV 69 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEecCCCcCCcCchhhhhhh---cCCEEEE
Confidence 456667899999999999999999999999999 77777766554 4 555554433332 3444544
No 116
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=84.92 E-value=5.1 Score=28.30 Aligned_cols=61 Identities=15% Similarity=0.276 Sum_probs=42.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+| +|+.+ ++....||.+|-.. .+ ++....-+.++|+++.-.. ..+.-+++||.|-++-
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---LAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH 61 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cC---CCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence 55544 47654 55677898887654 46 7778888899998886332 3344488899887763
No 117
>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=84.80 E-value=2.9 Score=32.04 Aligned_cols=60 Identities=15% Similarity=0.197 Sum_probs=42.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 13 ~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
+...++-..++..||..++.+.+ +.-+...+...+..|+.+++|-+-+|+-...|.+.+-
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~---~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQ 64 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLG---ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQ 64 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH----S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhC---CCcCCCeEEeccceecCCccHHHhhccccCEEEEEEE
Confidence 44567778899999999999999 6677888888887799999999999998888887764
No 118
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=84.59 E-value=1.7 Score=38.36 Aligned_cols=36 Identities=19% Similarity=0.387 Sum_probs=32.4
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 155 ~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
.+|.+|-++ | ..=-+|..||..+.+|.|.|++||--
T Consensus 6 ~~ik~LR~~tg---a~~~~ck~AL~~~~gd~~~A~~~lr~ 42 (198)
T PRK12332 6 KLVKELREKTG---AGMMDCKKALEEANGDMEKAIEWLRE 42 (198)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 578888887 7 88899999999999999999999973
No 119
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=84.36 E-value=7 Score=38.21 Aligned_cols=74 Identities=19% Similarity=0.240 Sum_probs=59.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----Cee--cCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GKV--LKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~----GK~--L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|.|.||.-.| ...++|+++++.+-|-.+|-.-...+ +.++++.++-+ |.+ +..++++.++|++.|..|++-.
T Consensus 1 Mi~rfRsk~G-~~Rve~qe~d~lg~l~~kll~~~~~n-~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRSKEG-QRRVEVQESDVLGMLSPKLLAFFEVN-YSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCC-ceeeeccccchhhhhhHHHHhhhccC-CCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 7888997666 56899999999999999988776544 77888887642 343 3457899999999999999988
Q ss_pred cc
Q 023989 75 SK 76 (274)
Q Consensus 75 ~k 76 (274)
+-
T Consensus 79 sd 80 (571)
T COG5100 79 SD 80 (571)
T ss_pred cc
Confidence 53
No 120
>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=83.94 E-value=5.1 Score=30.75 Aligned_cols=46 Identities=17% Similarity=0.241 Sum_probs=35.8
Q ss_pred EEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 023989 2 KLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (274)
Q Consensus 2 ~I~VKtl-~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK 51 (274)
+|+||.. .|..+.|.|+++.+..+|..+|.++++ +. ...+|-|...
T Consensus 2 ~ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~---~~-~~~~iKykDE 48 (86)
T cd06408 2 KIRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFG---FK-RRLKIKMKDD 48 (86)
T ss_pred cEEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhC---CC-CceEEEEEcC
Confidence 3555544 677889999999999999999999999 63 5666666554
No 121
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=83.93 E-value=7.6 Score=27.26 Aligned_cols=59 Identities=14% Similarity=0.158 Sum_probs=38.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|+|+| +|+. +++....||.+|.+.+ + +. ....+.++|+++..+. ..+.-+++||.|.++
T Consensus 1 m~i~v---Ng~~--~~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~ 59 (65)
T PRK06944 1 MDIQL---NQQT--LSLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLV 59 (65)
T ss_pred CEEEE---CCEE--EECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEE
Confidence 55554 4655 4556778999888764 3 32 3457788999875332 233348889999887
No 122
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=83.91 E-value=4.9 Score=28.71 Aligned_cols=60 Identities=22% Similarity=0.255 Sum_probs=42.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+| +|+.+.+ +...||.+|-+. .+ ++....-+.++|.++..+.- ..+ +++||.|-++-
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---FPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence 55554 4766554 567888777654 46 77889999999998854432 245 89999998763
No 123
>smart00455 RBD Raf-like Ras-binding domain.
Probab=83.66 E-value=4.9 Score=29.40 Aligned_cols=52 Identities=17% Similarity=0.135 Sum_probs=42.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecCCCC
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLKDET 57 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G--K~L~D~~ 57 (274)
+.|-..+|+...+.+.+..||.++=.+|.++.| +.++...|...| |.|+-++
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~---l~~~~~~v~~~g~~k~ldl~~ 55 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRG---LNPECCVVRLRGEKKPLDLNQ 55 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCcceecCC
Confidence 345566899999999999999999999999999 888888888755 5564444
No 124
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=83.15 E-value=2 Score=40.20 Aligned_cols=36 Identities=22% Similarity=0.296 Sum_probs=32.3
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 155 ~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
..|.+|-++ | +.=-+|..||..+.||-|.|++||--
T Consensus 6 ~~IK~LRe~Tg---agm~dCKkAL~e~~gDiekAi~~LRk 42 (290)
T TIGR00116 6 QLVKELRERTG---AGMMDCKKALTEANGDFEKAIKNLRE 42 (290)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 568888887 7 88889999999999999999999963
No 125
>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=82.67 E-value=5.7 Score=28.14 Aligned_cols=56 Identities=13% Similarity=0.244 Sum_probs=40.3
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 8 l~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
++|+.+ +++...||.+|.+++ + ++.+...+.++|+++..+ ...++-|++||.|.++
T Consensus 4 iNg~~~--~~~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii 59 (65)
T cd00565 4 VNGEPR--EVEEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIV 59 (65)
T ss_pred ECCeEE--EcCCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 356554 456788999988764 4 567788889999998543 2344558899999876
No 126
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=82.08 E-value=9.4 Score=27.88 Aligned_cols=62 Identities=21% Similarity=0.330 Sum_probs=43.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|.++|. ++|+. ++++...||.+|-.. .+ ++.+..-+.++|.++..+. ..+.-++++|.|-++
T Consensus 1 ~~m~i~-~ng~~--~e~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv 62 (68)
T COG2104 1 MPMTIQ-LNGKE--VEIAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVV 62 (68)
T ss_pred CcEEEE-ECCEE--EEcCCCCcHHHHHHH----hC---CCCceEEEEECCEEccchh-hhhccccCCCEEEEE
Confidence 455565 34655 555666899988755 56 7788888899999987433 345567888888776
No 127
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.95 E-value=1.8 Score=41.14 Aligned_cols=56 Identities=16% Similarity=0.144 Sum_probs=45.3
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeec-----CCCCcccccccCCCCeEEEEe
Q 023989 16 RVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVL-----KDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 16 eV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~---~GK~L-----~D~~tL~d~~I~~~~~I~v~v 74 (274)
-|.-.-||.|+|+++..+.| +...++||+| .||.- .-++.|-.|+|++||.+.|-.
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 35557799999999999999 8899999987 45543 335789999999999987753
No 128
>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=81.38 E-value=6.5 Score=28.58 Aligned_cols=45 Identities=18% Similarity=0.113 Sum_probs=34.5
Q ss_pred EEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 023989 2 KLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~-~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G 50 (274)
+|+++ .+|..+.+.+. .+.|..+|+.+|.++.+ ......+|-|..
T Consensus 2 ~vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVK-YGGEIRRFVVVSRSISFEDLRSKIAEKFG---LDAVSFKLKYPD 47 (81)
T ss_pred cEEEE-ecCCCEEEEEecCCCCHHHHHHHHHHHhC---CCCCcEEEEeeC
Confidence 45555 34667888888 99999999999999998 544566776754
No 129
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=81.16 E-value=3.8 Score=33.13 Aligned_cols=38 Identities=26% Similarity=0.335 Sum_probs=34.2
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 154 e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
++.|.-+|+- | -+|+.+++||+.+.++.-.|+-||..+
T Consensus 77 ~edI~lv~~q~g---vs~~~A~~AL~~~~gDl~~AI~~L~~~ 115 (115)
T PRK06369 77 EEDIELVAEQTG---VSEEEARKALEEANGDLAEAILKLSSE 115 (115)
T ss_pred HHHHHHHHHHHC---cCHHHHHHHHHHcCCcHHHHHHHHhcC
Confidence 6788889986 7 899999999999999999999999753
No 130
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=80.98 E-value=10 Score=26.98 Aligned_cols=61 Identities=13% Similarity=0.174 Sum_probs=41.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+| +|+.+.+ ....||.+|.+. .+ +......+-.+++++..+ ...++-+++||.|-++-
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---QLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEE---CCeEEEc--CCCCCHHHHHHH----cC---CCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEE
Confidence 56655 4666544 567899988865 34 445667888999998522 23445588999988763
No 131
>CHL00098 tsf elongation factor Ts
Probab=80.62 E-value=2.9 Score=36.94 Aligned_cols=36 Identities=25% Similarity=0.337 Sum_probs=32.1
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 155 ~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
++|.+|-++ | ..=-+|.+||..+.+|-|.|++||--
T Consensus 3 ~~ik~LR~~Tg---ag~~dck~AL~e~~gd~~~A~~~Lr~ 39 (200)
T CHL00098 3 ELVKELRDKTG---AGMMDCKKALQEANGDFEKALESLRQ 39 (200)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 468888887 7 78889999999999999999999975
No 132
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=80.32 E-value=2.5 Score=33.18 Aligned_cols=33 Identities=30% Similarity=0.338 Sum_probs=22.7
Q ss_pred EEEeCCeecCCCCccccc-ccCCCCeEEEEeccC
Q 023989 45 LLIHNGKVLKDETTLADN-KVSEDGFLVVMLSKS 77 (274)
Q Consensus 45 kLI~~GK~L~D~~tL~d~-~I~~~~~I~v~v~k~ 77 (274)
.|-|.||.|.++++|.+| |--+...|+|=+.++
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~ 36 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKR 36 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccC
Confidence 577999999999999999 333334444444443
No 133
>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=80.12 E-value=6.6 Score=28.76 Aligned_cols=44 Identities=14% Similarity=0.127 Sum_probs=34.4
Q ss_pred EEEEeCCCcEEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 023989 3 LTVKTLKGSHFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (274)
Q Consensus 3 I~VKtl~g~~~~-ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G 50 (274)
|+++ .++.... +.+..+.+..+|+.+|...++ ......+|-|..
T Consensus 4 vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~D 48 (84)
T PF00564_consen 4 VKVR-YGGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYKD 48 (84)
T ss_dssp EEEE-ETTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEEE
T ss_pred EEEE-ECCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEeeC
Confidence 4444 2455555 899999999999999999999 666888998854
No 134
>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=79.59 E-value=2.3 Score=40.92 Aligned_cols=29 Identities=14% Similarity=0.378 Sum_probs=23.8
Q ss_pred cCCCCchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 023989 147 LVAGNDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (274)
Q Consensus 147 l~~g~~~e~~i~~i~eMG~~~f~r~qv~~ALr 178 (274)
.+..--++++|+.++.|| |.||+|+.-.|
T Consensus 315 ~~~~~p~ddvidKv~~MG---f~rDqV~a~v~ 343 (358)
T PF07223_consen 315 SGNRHPYDDVIDKVASMG---FRRDQVRATVR 343 (358)
T ss_pred ccccCcHHHHHHHHHHcC---CcHHHHHHHHH
Confidence 455556999999999999 99999987443
No 135
>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=79.48 E-value=3.1 Score=31.12 Aligned_cols=40 Identities=30% Similarity=0.554 Sum_probs=32.2
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHhcCC-HHHHHHHHHcCCC
Q 023989 156 TIQQIMDMGGGTWDKETVTRALQAAYNN-PERAVDYLYSGIP 196 (274)
Q Consensus 156 ~i~~i~eMG~~~f~r~qv~~ALrAafnN-pdrAvEyL~~GIP 196 (274)
-+--||=+|+|.|+-++-..|++-|-.+ -.+.++||+ |.|
T Consensus 20 eLvALmwiGRGd~~~eew~~a~~~A~~~~~~~ta~YLl-~~p 60 (75)
T PF12616_consen 20 ELVALMWIGRGDFEAEEWEEAVAEARERASARTADYLL-GTP 60 (75)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHhccchHHHHHH-cCC
Confidence 3667888999999999999999888555 557889997 545
No 136
>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=79.46 E-value=1.9 Score=28.16 Aligned_cols=27 Identities=30% Similarity=0.505 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+-+..||+.+-+|..+|.+.| ||+
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 789999999999999999999998 664
No 137
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=79.40 E-value=2.6 Score=32.18 Aligned_cols=56 Identities=11% Similarity=0.086 Sum_probs=29.8
Q ss_pred EEeC-CCCCHHHHHHHHHH-HhCCCCCCCC----CeEEEeCCee----cCCCCcccccccCCCCeEEEE
Q 023989 15 IRVQ-PSDTVMAVKKNIED-VQGKDNYPCG----QQLLIHNGKV----LKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 15 ieV~-~~~TV~~LK~kI~~-~~g~~~~p~~----~qkLI~~GK~----L~D~~tL~d~~I~~~~~I~v~ 73 (274)
+.++ ...|+.+|-++|-+ +.| +..- .-++||.... -..+++|+++||++|++|.|.
T Consensus 2 v~~d~~~~TL~~lv~~Vlk~~Lg---~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 2 VKVDTKKMTLGDLVEKVLKKKLG---MNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp EEE-TTT-BHHHHHHHCCCCCS-----SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred EEEechhCcHHHHHHHHHHhccC---CCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 3444 46799999988755 444 2221 2344444332 123579999999999998775
No 138
>PRK09377 tsf elongation factor Ts; Provisional
Probab=79.17 E-value=3.3 Score=38.73 Aligned_cols=36 Identities=19% Similarity=0.338 Sum_probs=32.3
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 155 ~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
..|.+|-++ | +.=-+|.+||..+.+|.|.|++||--
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 578888887 7 88889999999999999999999973
No 139
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=78.53 E-value=3.3 Score=38.26 Aligned_cols=35 Identities=26% Similarity=0.414 Sum_probs=30.0
Q ss_pred HHHHHcCCCCCCHHHHHHHHHHh-cCCHHHHHHHH-HcCC
Q 023989 158 QQIMDMGGGTWDKETVTRALQAA-YNNPERAVDYL-YSGI 195 (274)
Q Consensus 158 ~~i~eMG~~~f~r~qv~~ALrAa-fnNpdrAvEyL-~~GI 195 (274)
+.+|+|| |++..+.+||-.. .-+.+-|++|| +.+.
T Consensus 5 ~~l~~mg---fps~k~e~al~~~~n~~~e~al~wl~~d~~ 41 (290)
T KOG2689|consen 5 QSLEEMG---FPSGKAEKALAVYGNRGIEQALDWLEMDHA 41 (290)
T ss_pred HHHHHhc---CchhhhhhHhhhhccccHHHHHHHHHhccc
Confidence 8899999 9999999999876 45789999999 6553
No 140
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=77.20 E-value=14 Score=26.51 Aligned_cols=61 Identities=18% Similarity=0.297 Sum_probs=41.1
Q ss_pred CEEEEEeCCCcEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 1 MKLTVKTLKGSHFEIRVQPS-DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~-~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
|+|+| +|+.+.+ ... .||.+|-+. .+ +.....-+-++|+++.-+ ...++-+++||.|-++.
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---LDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEE---CCEEEEc--CCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 55554 4776544 444 577776653 56 667777888999998543 24556689999988763
No 141
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=77.18 E-value=12 Score=28.34 Aligned_cols=57 Identities=11% Similarity=0.159 Sum_probs=40.6
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 8 l~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
++|+.+ +++...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|-++-
T Consensus 23 VNG~~~--~~~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 23 INDQSI--QVDISSSLAQIIAQ----LS---LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred ECCeEE--EcCCCCcHHHHHHH----cC---CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 456554 44567888877664 35 7677778889999994 3346667799999998764
No 142
>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=76.97 E-value=14 Score=28.32 Aligned_cols=58 Identities=14% Similarity=0.132 Sum_probs=42.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCccccc
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI------HNGKVLKDETTLADN 62 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI------~~GK~L~D~~tL~d~ 62 (274)
|+|-..+|..-.|.|+...|+.++-+.+..+.++. +...--|+ +=.+.++|...|-++
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~--~~~~W~LvE~~P~l~lER~~EDHE~vvdv 68 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ--DDSSWTLVEHLPHLQLERLFEDHELVVEV 68 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC--CCCCeEEEEecchhhhhhhccchHHHHHH
Confidence 55666789999999999999999999999999852 22333342 224678887766554
No 143
>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=76.93 E-value=26 Score=25.54 Aligned_cols=57 Identities=14% Similarity=0.040 Sum_probs=40.9
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCccccc
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADN 62 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~--~GK~L~D~~tL~d~ 62 (274)
+.|--.+|+...+.|.+..||.++=.++.++.| +.++...+.. ..|.|..++....+
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceeee
Confidence 456667899999999999999999999999999 6676665543 45667666655544
No 144
>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=76.41 E-value=12 Score=26.46 Aligned_cols=56 Identities=18% Similarity=0.267 Sum_probs=39.6
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 8 l~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
++|+.+. +....||.+|.+. .+ ++.+...+.++|+++..+ ...++-|++||.|-++
T Consensus 3 iNg~~~~--~~~~~tv~~ll~~----l~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii 58 (64)
T TIGR01683 3 VNGEPVE--VEDGLTLAALLES----LG---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIV 58 (64)
T ss_pred ECCeEEE--cCCCCcHHHHHHH----cC---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 4566554 4567899998875 35 666777888999998432 2344568899998876
No 145
>PRK07440 hypothetical protein; Provisional
Probab=76.29 E-value=15 Score=26.64 Aligned_cols=61 Identities=13% Similarity=0.234 Sum_probs=42.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
++|+ ++|+. +++....||.+|-+. .+ +.....-+-++|+++.-+ ...++-+++||.|-++-
T Consensus 5 m~i~-vNG~~--~~~~~~~tl~~lL~~----l~---~~~~~vav~~N~~iv~r~-~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 5 ITLQ-VNGET--RTCSSGTSLPDLLQQ----LG---FNPRLVAVEYNGEILHRQ-FWEQTQVQPGDRLEIVT 65 (70)
T ss_pred eEEE-ECCEE--EEcCCCCCHHHHHHH----cC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 3444 46765 455677898887653 45 667778888999998632 24556688899988763
No 146
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=76.25 E-value=9.3 Score=39.77 Aligned_cols=65 Identities=22% Similarity=0.334 Sum_probs=47.1
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCcccccccCCCCeEEEEeccCC
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--KDETTLADNKVSEDGFLVVMLSKSK 78 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L--~D~~tL~d~~I~~~~~I~v~v~k~k 78 (274)
+...+.+-++++.|+..++..|+..+| ++.+.|-|+|.|... .|..+..--+ -.+-|+++....+
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h~~~~~Q~~~dg--~~~~l~l~~~~~~ 389 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSHLEDSAQCIPDG--LDSPLYLVSDQDK 389 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccccCcccccCCCC--CCCceEEEecCCC
Confidence 456788899999999999999999999 999999999998654 4422211112 2345666655443
No 147
>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=75.57 E-value=12 Score=28.30 Aligned_cols=36 Identities=8% Similarity=0.083 Sum_probs=32.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G 50 (274)
++.|.+.+..+..+|..+|+++.. .+++..+|-|.-
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 567789999999999999999999 899999999964
No 148
>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=75.43 E-value=3.4 Score=31.45 Aligned_cols=55 Identities=20% Similarity=0.224 Sum_probs=38.2
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--------------CCCCcccccccCCCCeEEEE
Q 023989 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--------------KDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L--------------~D~~tL~d~~I~~~~~I~v~ 73 (274)
|+|++++|+.+|-+.+.+... +....=.|-..+|-| +=+++|.++ +.+|+.|+|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~---~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPE---FQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTT---T--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChh---hhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 689999999999999998743 323333333444332 236899999 9999998874
No 149
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=75.05 E-value=13 Score=27.97 Aligned_cols=52 Identities=23% Similarity=0.307 Sum_probs=40.7
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCcccccccCCCCeEEEE
Q 023989 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 10 g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~-~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
+..+.++++...||+++-+. .| +|.....+|+ +|+...=+ |-+++|+.|.|.
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG---VP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG---VPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVY 74 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC---CChHHeEEEEECCEECCCc-----ccCCCCCEEEEE
Confidence 34678889999999887654 78 9999998765 88876543 678899999876
No 150
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=74.43 E-value=4.6 Score=39.63 Aligned_cols=74 Identities=20% Similarity=0.264 Sum_probs=60.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCcccccccCCCCeEEEEecc
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKD---ETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D---~~tL~d~~I~~~~~I~v~v~k 76 (274)
+|.||..+|..|+=++..++-+..+|..|....+ +......| .|--|+..| +++|.++.+.+...|+|+-++
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 6889988999999899999999999999998877 66666666 588888844 579999999998888877655
Q ss_pred CC
Q 023989 77 SK 78 (274)
Q Consensus 77 ~k 78 (274)
+.
T Consensus 393 r~ 394 (506)
T KOG2507|consen 393 RA 394 (506)
T ss_pred Cc
Confidence 43
No 151
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=73.25 E-value=8.4 Score=31.43 Aligned_cols=59 Identities=20% Similarity=0.283 Sum_probs=44.8
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc---ccCCCCeEEEEecc
Q 023989 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN---KVSEDGFLVVMLSK 76 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~---~I~~~~~I~v~v~k 76 (274)
+=|..+.||.++...|..+.+ +.+++.=|..++.++..+.+++++ .-.++.+|+|..+.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~ 106 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVRT 106 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEcc
Confidence 358999999999999999998 778875555577666777788776 23456788887653
No 152
>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=72.85 E-value=15 Score=27.94 Aligned_cols=35 Identities=20% Similarity=0.210 Sum_probs=28.2
Q ss_pred EEEEEeCCCcEEEEEeCC--CCCHHHHHHHHHHHhCCCCCC
Q 023989 2 KLTVKTLKGSHFEIRVQP--SDTVMAVKKNIEDVQGKDNYP 40 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~--~~TV~~LK~kI~~~~g~~~~p 40 (274)
+|++. .+|.+..+.+++ +.+..+|++.|...++ +.
T Consensus 2 ~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~---l~ 38 (81)
T cd06396 2 NLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFG---LN 38 (81)
T ss_pred EEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhC---CC
Confidence 34444 467788889988 7799999999999998 65
No 153
>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=72.76 E-value=8.2 Score=31.27 Aligned_cols=36 Identities=28% Similarity=0.299 Sum_probs=32.7
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 154 e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
++-|.-+++- | -+|+.+++||+.+.+|.-.|+-||.
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 6788888886 7 8999999999999999999999984
No 154
>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=72.17 E-value=26 Score=34.69 Aligned_cols=73 Identities=16% Similarity=0.241 Sum_probs=55.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCC---CCCCCCeEEE-eCCeecCCCCcccccccCCCCeEEEEec
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKD---NYPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~---~~p~~~qkLI-~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
+|+|..- .+...+-+..+..|.+|-..|-+..+.+ ........|. -.|..|+-+++|.+.+|.||+.+++.-.
T Consensus 4 RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 5677743 3457788889999999999999988732 1122344553 4678899999999999999999998853
No 155
>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=71.92 E-value=0.95 Score=30.68 Aligned_cols=21 Identities=29% Similarity=0.675 Sum_probs=13.5
Q ss_pred HHHHHH-HcCCCCCCHHHHHHHHHH
Q 023989 156 TIQQIM-DMGGGTWDKETVTRALQA 179 (274)
Q Consensus 156 ~i~~i~-eMG~~~f~r~qv~~ALrA 179 (274)
.|..|- -|| |+|++|..||+.
T Consensus 5 vv~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 5 VVSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp CHHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHHhC---CCHHHHHHHHHc
Confidence 344444 399 999999999997
No 156
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=71.76 E-value=21 Score=28.61 Aligned_cols=59 Identities=22% Similarity=0.164 Sum_probs=42.2
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCccccc--ccC-CCCeEEEEecc
Q 023989 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLIHNGKVLKDETTLADN--KVS-EDGFLVVMLSK 76 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~g~~~~p~~~-qkLI~~GK~L~D~~tL~d~--~I~-~~~~I~v~v~k 76 (274)
+-|+.+.||.+|...|..... +.++. +=|..++.+...+.+++++ .-+ ++.+|+|..+.
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 348899999999999999987 55555 4444566555667777765 233 47788887754
No 157
>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=70.95 E-value=8.4 Score=39.04 Aligned_cols=65 Identities=29% Similarity=0.422 Sum_probs=43.0
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCCeEEEe--C--Ce-ecCCC-------------CcccccccCC
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYP------CGQQLLIH--N--GK-VLKDE-------------TTLADNKVSE 66 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p------~~~qkLI~--~--GK-~L~D~-------------~tL~d~~I~~ 66 (274)
..+.+.|-.-|||.++|+||-+..-++ .| ++..-|-+ . |+ +|.|. .||..|+|.+
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 457888889999999999998876433 33 34444533 2 23 56553 3789999999
Q ss_pred CCeEEEEecc
Q 023989 67 DGFLVVMLSK 76 (274)
Q Consensus 67 ~~~I~v~v~k 76 (274)
|++|.++-++
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9998888654
No 158
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=70.49 E-value=13 Score=32.87 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=31.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCccccc
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLL--IHNGKV---LKDETTLADN 62 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~---~qkL--I~~GK~---L~D~~tL~d~ 62 (274)
.+.+-|+.+.||.||.+++..+.+ ++.+ .+|| ++++|+ +..+..|.++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~---~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVG---FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT-------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcC---CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 577889999999999999999988 5443 5565 578866 6778888876
No 159
>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=69.63 E-value=13 Score=28.06 Aligned_cols=64 Identities=16% Similarity=0.234 Sum_probs=40.3
Q ss_pred EEEeCCC-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCCeEEEEecc
Q 023989 4 TVKTLKG-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 4 ~VKtl~g-~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~--~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
.|++.+. ..+-|-. .++.+|+.|..++.+ ++.+..+|+. .|.+++|+.-+.. + +.+++.|++.+
T Consensus 6 kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~t--L-p~nT~lm~L~~ 72 (78)
T PF02017_consen 6 KVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQT--L-PDNTVLMLLEK 72 (78)
T ss_dssp EEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCC--S-SSSEEEEEEES
T ss_pred EEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhh--C-CCCCEEEEECC
Confidence 4555442 2344443 589999999999999 7777777765 6777777643333 3 34455555543
No 160
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=68.85 E-value=13 Score=34.58 Aligned_cols=68 Identities=12% Similarity=0.193 Sum_probs=51.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCcccccccCCCCeEEE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKD---ETTLADNKVSEDGFLVV 72 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D---~~tL~d~~I~~~~~I~v 72 (274)
.|.||..+|+++...+....|+.+|+..|.-..+.+ ..-..| -|--+.+.+ .++|..+++.+-.+|++
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~---~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDG---LDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCC---CCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 578998899999999999999999999999998832 222222 233455532 47899999998777754
No 161
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=68.85 E-value=33 Score=25.31 Aligned_cols=54 Identities=13% Similarity=0.191 Sum_probs=33.3
Q ss_pred EEeCC-CCCHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 15 IRVQP-SDTVMAVKKNIEDVQGK--DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 15 ieV~~-~~TV~~LK~kI~~~~g~--~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
++++. ..||.+|++.|.+++.. ........++..+++...+ +.-|++||.|.++
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~ 75 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFF 75 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEe
Confidence 44443 47999999999987531 0011233344456655433 3358899999887
No 162
>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=68.56 E-value=9.2 Score=33.43 Aligned_cols=28 Identities=14% Similarity=0.430 Sum_probs=25.1
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafn 182 (274)
..++.+..|+.+| |++.++.+|++....
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIKN 173 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3578999999999 999999999998865
No 163
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=68.06 E-value=5.4 Score=38.10 Aligned_cols=66 Identities=12% Similarity=0.073 Sum_probs=53.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecC--CCCcccccccCCCCe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVLK--DETTLADNKVSEDGF 69 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G---K~L~--D~~tL~d~~I~~~~~ 69 (274)
.|.||..+|+.+.+.+-.+++|..|=..++..... .+-+..||+++= |.|. .+.||.++||.+...
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg--~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDG--SDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcc--cccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 48899999998888888999999888877766542 667788999876 6664 367999999998765
No 164
>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=67.34 E-value=43 Score=24.52 Aligned_cols=55 Identities=25% Similarity=0.204 Sum_probs=37.5
Q ss_pred EEEEeCCCc----EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-e---CC--eecCCCCc
Q 023989 3 LTVKTLKGS----HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI-H---NG--KVLKDETT 58 (274)
Q Consensus 3 I~VKtl~g~----~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI-~---~G--K~L~D~~t 58 (274)
|.|-...+. .-.|.|..++|+.+|-..+.++.+.. -.+....|+ + .| +.|.|+..
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-~~~~~y~L~~~~~~~~~er~L~~~E~ 69 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLA-EDPSDYCLVEVEESGGEERPLDDDEC 69 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-SSGGGEEEEEEECTTTEEEEETTTSB
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCC-CCCCCEEEEEEEcCCCEEEEcCCCCc
Confidence 444444555 67899999999999999999999931 244556673 2 22 66766543
No 165
>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=67.28 E-value=48 Score=24.41 Aligned_cols=65 Identities=20% Similarity=0.203 Sum_probs=40.8
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCCC-Ccccc--cccCCCCeEEEEec
Q 023989 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNG----KVLKDE-TTLAD--NKVSEDGFLVVMLS 75 (274)
Q Consensus 10 g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~G----K~L~D~-~tL~d--~~I~~~~~I~v~v~ 75 (274)
+....|.|..++|..+|-..+.++.+.+. .+....|+ +.+ +.|.|+ ..|.- .....+....++++
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl~~~~~~~~~~~~~~F~lr 85 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPLQIQLNAPRQREDLRFLLR 85 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChHHHHHhcCCCCCcEEEEEe
Confidence 45567999999999999999999999432 45566664 222 566554 44432 22333334444444
No 166
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=67.18 E-value=8.1 Score=34.08 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=25.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNN 183 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnN 183 (274)
..++.|..|+.+| |.|.++.+|++...++
T Consensus 143 ~~~ea~~AL~~LG---y~~~ea~~al~~v~~~ 171 (196)
T PRK13901 143 KFKELEQSIVNMG---FDRKLVNSAIKEIMLL 171 (196)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhcc
Confidence 4688999999999 9999999999987664
No 167
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=66.87 E-value=30 Score=26.64 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=43.4
Q ss_pred EEEEeCCCcEEEEEeC-----CCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCe-----ecCCCCccccc-----ccCC
Q 023989 3 LTVKTLKGSHFEIRVQ-----PSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGK-----VLKDETTLADN-----KVSE 66 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~-----~~~TV~~LK~kI~~~~g~~~~p~-~~qkLI~~GK-----~L~D~~tL~d~-----~I~~ 66 (274)
|+|+ .+|....|.+. ++.+..+|+.+|.+.++ ++. ....|-|... .|.++.-|.++ +...
T Consensus 3 vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~ 78 (91)
T cd06398 3 VKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSR 78 (91)
T ss_pred EEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCC
Confidence 4444 35555566666 47999999999999998 766 5677777542 23444333332 2335
Q ss_pred CCeEEEEec
Q 023989 67 DGFLVVMLS 75 (274)
Q Consensus 67 ~~~I~v~v~ 75 (274)
..+|.+.++
T Consensus 79 ~~~lrl~v~ 87 (91)
T cd06398 79 LNPLRIDVT 87 (91)
T ss_pred CceEEEEEE
Confidence 667776664
No 168
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=66.49 E-value=7.6 Score=30.59 Aligned_cols=30 Identities=27% Similarity=0.541 Sum_probs=27.2
Q ss_pred CCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 023989 150 GNDLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (274)
Q Consensus 150 g~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafn 182 (274)
-.|+..++.+|.+-| |+++....+||++|+
T Consensus 68 ~~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Yk 97 (100)
T PF15652_consen 68 QEEFNNSYREMFDAG---VSKECRKKALKAQYK 97 (100)
T ss_pred HHHHHHHHHHHHHcC---CCHHHHHHHHHHHHh
Confidence 467888999999999 999999999999886
No 169
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=65.53 E-value=22 Score=33.86 Aligned_cols=62 Identities=15% Similarity=0.174 Sum_probs=44.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
|+|+| +|+.+ ++....||.+|-+. .+ ++.+..-+.++|+++.- ....++-|++||.|-++--
T Consensus 1 M~I~V---NGk~~--el~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~~ 62 (326)
T PRK11840 1 MRIRL---NGEPR--QVPAGLTIAALLAE----LG---LAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVHF 62 (326)
T ss_pred CEEEE---CCEEE--ecCCCCcHHHHHHH----cC---CCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEEE
Confidence 55554 47654 45677888877654 46 77888999999999953 2345666889998887743
No 170
>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=64.36 E-value=27 Score=25.99 Aligned_cols=63 Identities=21% Similarity=0.246 Sum_probs=39.1
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCcccccccCCCCeEEEEecc
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH------NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~------~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
++|-+=.+++.||.+|+..|.+++.+ ..+....|.. .|--|+.+-.+++. +..++.|.|+++.
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 45666688999999999999999864 3334334431 12223334444554 3467777777653
No 171
>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=61.14 E-value=57 Score=25.67 Aligned_cols=74 Identities=18% Similarity=0.125 Sum_probs=45.2
Q ss_pred EEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHh--CCCC-CCCC-CeEEEeCCe--ecCCCCccccc-----ccCCCCeE
Q 023989 3 LTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQ--GKDN-YPCG-QQLLIHNGK--VLKDETTLADN-----KVSEDGFL 70 (274)
Q Consensus 3 I~VKtl~-g~~~~ieV~~~~TV~~LK~kI~~~~--g~~~-~p~~-~qkLI~~GK--~L~D~~tL~d~-----~I~~~~~I 70 (274)
|.|...+ ...+.+.+++++|+.+|.+.+-.+. ..+. -+.+ +..|=-.|+ .|..+..|.+| .++.+..+
T Consensus 20 v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~ 99 (108)
T smart00144 20 IVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREP 99 (108)
T ss_pred EEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCc
Confidence 4444333 3568999999999999999888762 1110 1122 344444553 35555666665 36777778
Q ss_pred EEEecc
Q 023989 71 VVMLSK 76 (274)
Q Consensus 71 ~v~v~k 76 (274)
++++..
T Consensus 100 ~L~L~~ 105 (108)
T smart00144 100 HLVLMT 105 (108)
T ss_pred eEEEEe
Confidence 777654
No 172
>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=60.99 E-value=26 Score=27.68 Aligned_cols=56 Identities=25% Similarity=0.201 Sum_probs=41.6
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCccccc---ccCCCCeEEEEec
Q 023989 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLIHNGKVLKDETTLADN---KVSEDGFLVVMLS 75 (274)
Q Consensus 17 V~~~~TV~~LK~kI~~~~g~~~~p~~~-qkLI~~GK~L~D~~tL~d~---~I~~~~~I~v~v~ 75 (274)
|..+.||.+|...|..... +.++. +=|+.++..+..+.+++++ .-.++.+|+|..+
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 6789999999999999987 55543 5566788777888898876 2356778888765
No 173
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=60.96 E-value=18 Score=34.10 Aligned_cols=41 Identities=20% Similarity=0.309 Sum_probs=35.7
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
...++.++-|.+-| .+.+++..+++.+.++|.+|.+|+..+
T Consensus 172 ~~~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~~ 212 (319)
T PRK08769 172 PPAHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRED 212 (319)
T ss_pred cCHHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 34578888888889 999999999999999999999998654
No 174
>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=60.08 E-value=67 Score=24.44 Aligned_cols=60 Identities=13% Similarity=0.187 Sum_probs=41.1
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeec-CCCCccccc--ccCCCCeEEEEecc
Q 023989 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLIHNGKVL-KDETTLADN--KVSEDGFLVVMLSK 76 (274)
Q Consensus 14 ~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~-qkLI~~GK~L-~D~~tL~d~--~I~~~~~I~v~v~k 76 (274)
.+-|+.+.||.+|...|.++.+ +.+++ +-|..+...+ ..+.+++++ ..+++.+|+|..+.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~---l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLK---LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhC---CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEeC
Confidence 3558899999999999999988 55554 3444444323 445666654 23678899887654
No 175
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=59.86 E-value=16 Score=34.23 Aligned_cols=36 Identities=19% Similarity=0.358 Sum_probs=29.9
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 155 QTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 155 ~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
.+|.+|-++-| -.=-+|.+||..+.+|-|.|+|||-
T Consensus 7 ~~VKeLRe~Tg--AGMmdCKkAL~E~~Gd~EkAie~LR 42 (296)
T COG0264 7 ALVKELREKTG--AGMMDCKKALEEANGDIEKAIEWLR 42 (296)
T ss_pred HHHHHHHHHhC--CcHHHHHHHHHHcCCCHHHHHHHHH
Confidence 57888888733 3445799999999999999999996
No 176
>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=59.58 E-value=25 Score=26.17 Aligned_cols=33 Identities=18% Similarity=0.128 Sum_probs=22.9
Q ss_pred EEEEeCCCc-EEEEEeC-CCCCHHHHHHHHHHHhC
Q 023989 3 LTVKTLKGS-HFEIRVQ-PSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 3 I~VKtl~g~-~~~ieV~-~~~TV~~LK~kI~~~~g 35 (274)
|+.|....+ ...|.++ ...+|.+||..|..+.+
T Consensus 1 V~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 1 VHYKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred CeEEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 344544444 3457777 56899999999988876
No 177
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=59.01 E-value=10 Score=31.66 Aligned_cols=64 Identities=16% Similarity=0.199 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHhCC--CCCCCCCeEEEeC-----------------C-eecCCCCcccccccCCCCeEEEEeccCC
Q 023989 19 PSDTVMAVKKNIEDVQGK--DNYPCGQQLLIHN-----------------G-KVLKDETTLADNKVSEDGFLVVMLSKSK 78 (274)
Q Consensus 19 ~~~TV~~LK~kI~~~~g~--~~~p~~~qkLI~~-----------------G-K~L~D~~tL~d~~I~~~~~I~v~v~k~k 78 (274)
-+.|+.+|-..|.+..-. ..--.=++.+||- | |-.+|+++|..++++-||+|.|-++.++
T Consensus 60 ~datL~ELtsLvkevnpeaR~kgt~f~fa~Vf~d~~~~~y~~RevG~t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~~p~ 139 (151)
T KOG3391|consen 60 MDATLRELTSLVKEVNPEARKKGTSFDFAVVFPDKKSPRYIVREVGTTCLGRKGIDDNKTLQQTKFEIGDYLDVAITPPN 139 (151)
T ss_pred hhhhHHHHHHHHHHcCHHHhccCceEEEEEEeccCCCCCceeeeecccccCcccCCccchhhhCCccccceEEEEecCcc
Confidence 468999998888763210 0000012233432 2 3358899999999999999999998877
Q ss_pred CCCC
Q 023989 79 TLGS 82 (274)
Q Consensus 79 ~~~~ 82 (274)
..+.
T Consensus 140 ~~~~ 143 (151)
T KOG3391|consen 140 RRPP 143 (151)
T ss_pred cCCC
Confidence 5543
No 178
>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=58.81 E-value=19 Score=27.76 Aligned_cols=54 Identities=19% Similarity=0.156 Sum_probs=33.9
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC-C------eecCCCC---cc--cccccCCCCeEEEE
Q 023989 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN-G------KVLKDET---TL--ADNKVSEDGFLVVM 73 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~-G------K~L~D~~---tL--~d~~I~~~~~I~v~ 73 (274)
++++...||.+|-..|.+.+. ..+-+|+.. | -+|-++. .+ .++-+++||.|.++
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 444467899999999988753 334444432 2 2232222 23 35779999999887
No 179
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=58.52 E-value=23 Score=24.00 Aligned_cols=20 Identities=10% Similarity=0.368 Sum_probs=16.2
Q ss_pred HHHHHhcCCHHHHHHHHHcC
Q 023989 175 RALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 175 ~ALrAafnNpdrAvEyL~~G 194 (274)
+.++.-|+|+++|..||-+-
T Consensus 2 ~~a~~vfgd~~~a~~Wl~~p 21 (54)
T PF09722_consen 2 KQAEEVFGDEDKARRWLRTP 21 (54)
T ss_pred hHHHHHHCCHHHHHHHHHCh
Confidence 45677789999999999644
No 180
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=58.15 E-value=34 Score=25.56 Aligned_cols=50 Identities=16% Similarity=0.290 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCCeEEEEec
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~~qkLI~--~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
-.+..+|+.|..++.+ ++....+|+. .|..++|+.-+.. + +.+++.|++.
T Consensus 18 A~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~t--L-p~nt~l~~L~ 69 (74)
T smart00266 18 ASSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQT--L-PDNTELMALE 69 (74)
T ss_pred cCCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhc--C-CCCcEEEEEc
Confidence 3579999999999999 7766667644 7888888754444 3 3344444443
No 181
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.70 E-value=12 Score=32.98 Aligned_cols=28 Identities=11% Similarity=0.368 Sum_probs=25.0
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALrAaf 181 (274)
+..++.+..|+.+| |.|.++.+|++...
T Consensus 153 ~~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 153 SVFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred chHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 34688999999999 99999999999875
No 182
>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=56.19 E-value=55 Score=24.35 Aligned_cols=50 Identities=18% Similarity=0.211 Sum_probs=39.7
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecCCCC
Q 023989 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLKDET 57 (274)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G--K~L~D~~ 57 (274)
|--.+|+.-.+.+-+..||.++=.++.++.| +..+...++.-| |.|.-++
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRg---l~~~~~~vf~~g~~k~l~~~q 55 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRG---INYAAVDLFLVGGDKPLVLDQ 55 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcC---CChhHEEEEEecCCcccccCC
Confidence 3345788888999999999999999999999 778887776655 5564443
No 183
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=55.13 E-value=38 Score=26.26 Aligned_cols=75 Identities=15% Similarity=0.107 Sum_probs=44.7
Q ss_pred EEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHh--CCCCCCCC-CeEEEeCC--eecCCCCcccccc-----cCCCCeE
Q 023989 2 KLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQ--GKDNYPCG-QQLLIHNG--KVLKDETTLADNK-----VSEDGFL 70 (274)
Q Consensus 2 ~I~VKtl-~g~~~~ieV~~~~TV~~LK~kI~~~~--g~~~~p~~-~qkLI~~G--K~L~D~~tL~d~~-----I~~~~~I 70 (274)
.|.|... .+..+.|.|+.+.|+.+|...+..+. +....... +.-|=-.| ..|..+..|.+|. ++.+..+
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 45679999999999999999888772 21101111 34454455 3466778888883 5666677
Q ss_pred EEEecc
Q 023989 71 VVMLSK 76 (274)
Q Consensus 71 ~v~v~k 76 (274)
++++-.
T Consensus 98 ~L~Lv~ 103 (106)
T PF00794_consen 98 HLVLVH 103 (106)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 776543
No 184
>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=55.11 E-value=34 Score=25.76 Aligned_cols=50 Identities=14% Similarity=0.289 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCCeEEEEec
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~~qkLI~--~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
-.+..+|+.|..++.+ ++....+|+. .|..++|+.-+.. +. .+++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~t--Lp-~nT~l~~l~ 71 (78)
T cd01615 20 ASSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQT--LP-DNTVLMLLE 71 (78)
T ss_pred cCCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhc--CC-CCcEEEEEC
Confidence 3579999999999998 7656666654 7888887754444 33 344444443
No 185
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=54.34 E-value=27 Score=33.04 Aligned_cols=39 Identities=13% Similarity=0.154 Sum_probs=32.0
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 153 ~e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
.+...+-|.+- | .+.+++..++|.+.++|.+|.+||-.|
T Consensus 169 ~~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 169 EQYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred HHHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 35556667665 7 999999999999999999999998654
No 186
>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=53.92 E-value=44 Score=28.15 Aligned_cols=74 Identities=19% Similarity=0.141 Sum_probs=39.3
Q ss_pred CEEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCC-CCCCCCe----EEEe-CCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKD-NYPCGQQ----LLIH-NGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~-~~~TV~~LK~kI~~~~g~~-~~p~~~q----kLI~-~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|||+|+. ....+.|-+. .+.||.+|-++-..++.+- ...++.. +|-| .|-+|+.+..|.+. +.+.++|+.+
T Consensus 1 mkvtV~f-g~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAv 78 (145)
T PF12053_consen 1 MKVTVCF-GRTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAV 78 (145)
T ss_dssp -EEEEEE-TTEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEE
T ss_pred CeEEEEe-CCeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhhee
Confidence 8999995 4456777776 5689999876654433210 0222322 3332 56788778788776 5677788777
Q ss_pred ecc
Q 023989 74 LSK 76 (274)
Q Consensus 74 v~k 76 (274)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 654
No 187
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=52.88 E-value=18 Score=31.53 Aligned_cols=28 Identities=11% Similarity=0.449 Sum_probs=25.0
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafn 182 (274)
..++.+..|+.+| |.+.++.+|++....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 4688999999999 999999999998854
No 188
>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=52.39 E-value=37 Score=25.61 Aligned_cols=50 Identities=14% Similarity=0.219 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
-.+..+|+.|..+..+ ++....+| --.|.+++|+.-+.. +.++ +..|++.
T Consensus 20 A~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~--Lpdn-T~lm~L~ 71 (78)
T cd06539 20 ASSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQT--LGDN-THFMVLE 71 (78)
T ss_pred ecCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhh--CCCC-CEEEEEC
Confidence 3579999999999998 76555555 447888877754444 3344 4444443
No 189
>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=50.70 E-value=1.2e+02 Score=23.80 Aligned_cols=45 Identities=16% Similarity=0.190 Sum_probs=31.5
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEE-EeCC
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLL-IHNG 50 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~-~~qkL-I~~G 50 (274)
|.|=..++...++.+..+.||.+|-..+..+.. ++. +..+| ++.|
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~---l~~~~ny~l~l~~~ 51 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFY---LPSGGNYQLSLKKH 51 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhc---CCCCCCeEEEEEEC
Confidence 333334665667999999999999999999987 433 34444 4444
No 190
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=50.33 E-value=17 Score=32.23 Aligned_cols=29 Identities=14% Similarity=0.548 Sum_probs=24.9
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNN 183 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnN 183 (274)
..+++|..|+.|| |.+.++.+|+....-+
T Consensus 155 ~~~~~v~AL~~LG---y~~~e~~~av~~v~~~ 183 (201)
T COG0632 155 ALEEAVEALVALG---YKEKEIKKAVKKVLKE 183 (201)
T ss_pred hhhHHHHHHHHcC---CCHHHHHHHHHHHHhc
Confidence 3456699999999 9999999999987765
No 191
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=50.07 E-value=20 Score=31.20 Aligned_cols=27 Identities=15% Similarity=0.345 Sum_probs=24.3
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAaf 181 (274)
..++.+..|+.+| |.|.++.+|++...
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 192
>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=49.29 E-value=63 Score=22.22 Aligned_cols=37 Identities=30% Similarity=0.303 Sum_probs=30.6
Q ss_pred HHHHHHHHH--cCCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 154 EQTIQQIMD--MGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 154 e~~i~~i~e--MG~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
|..|.+... -| -.|+-++|-|+-..-|.+-||.-|++
T Consensus 10 edlI~q~q~VLqg---ksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 10 EDLINQAQVVLQG---KSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp HHHHHHHHHHSTT---S-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 677777665 48 99999999999999999999999986
No 193
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=48.81 E-value=22 Score=30.98 Aligned_cols=26 Identities=15% Similarity=0.546 Sum_probs=23.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHh
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAA 180 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAa 180 (274)
..++.+..|+.+| |.|.++.+|++..
T Consensus 141 ~~~ea~~AL~~LG---y~~~ea~~a~~~~ 166 (183)
T PRK14601 141 DKSEALAALLTLG---FKQEKIIKVLASC 166 (183)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHhc
Confidence 3588999999999 9999999999876
No 194
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=48.67 E-value=19 Score=31.67 Aligned_cols=27 Identities=11% Similarity=0.226 Sum_probs=24.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafn 182 (274)
.++.+.-|+.+| |.|.++.+|++....
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i~~ 175 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAALPS 175 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 578999999999 999999999998743
No 195
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=48.25 E-value=81 Score=24.61 Aligned_cols=60 Identities=20% Similarity=0.252 Sum_probs=44.5
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee---------cCCCCcccccccCCCCeEEE
Q 023989 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKV---------LKDETTLADNKVSEDGFLVV 72 (274)
Q Consensus 10 g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qk-LI~~GK~---------L~D~~tL~d~~I~~~~~I~v 72 (274)
...+.+.|+++.|=.++|..|++.+| +.+.... |+..|+. +..+..-...-+..|..|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 46899999999999999999999999 7777774 4566641 44555555556666766544
No 196
>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=46.30 E-value=45 Score=25.47 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=35.0
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCeecC
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKVLK 54 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qk-LI~~GK~L~ 54 (274)
..+.++|+.+.|=.++|+.|+..+| +.+...+ +++.||.-.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~---V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYG---VKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHT---SEEEEEEEEEETSEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcC---CCeeEEEEeEeCCCceE
Confidence 5789999999999999999999999 8787775 468887654
No 197
>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=45.63 E-value=31 Score=22.57 Aligned_cols=25 Identities=12% Similarity=0.182 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
..|+.++..|+...+|.-+|+|.++
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHhC
Confidence 5789999999999999999999874
No 198
>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=45.03 E-value=80 Score=24.58 Aligned_cols=40 Identities=13% Similarity=0.095 Sum_probs=31.3
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 023989 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH 48 (274)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~ 48 (274)
++-..|++.-+.|+.+.|..+|+.++.+..+ +... +.|-|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~---~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFG---AGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhC---CCCc-eEEEE
Confidence 3455677888999999999999999999998 5544 44433
No 199
>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=44.93 E-value=42 Score=28.46 Aligned_cols=44 Identities=18% Similarity=0.376 Sum_probs=30.2
Q ss_pred EEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 023989 12 HFEIRVQP-SDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (274)
Q Consensus 12 ~~~ieV~~-~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~ 62 (274)
.+.|+++. .+.+..+++...+... ++. =|+.|+.++...|+.||
T Consensus 76 ri~lele~~~~~ie~I~~iCee~lp---f~y----~i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 76 RIILELEDEEDVIEKIREICEEVLP---FGY----DIKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEecCcHHHHHHHHHHHHHhCC---Cce----EeeeeEEeccCCchhhh
Confidence 46677777 6666666665555443 221 13579999999999999
No 200
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=44.40 E-value=27 Score=30.65 Aligned_cols=27 Identities=11% Similarity=0.342 Sum_probs=24.3
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAaf 181 (274)
..++.+.-|+.+| |.+.++.+|++...
T Consensus 151 ~~~ea~~AL~~LG---y~~~ea~~al~~i~ 177 (197)
T PRK14603 151 AAEDAVLALLALG---FREAQVRSVVAELL 177 (197)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 4688999999999 99999999999864
No 201
>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=44.16 E-value=44 Score=28.27 Aligned_cols=44 Identities=16% Similarity=0.326 Sum_probs=30.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~ 62 (274)
.+.|++...+.+.++++...+... ++ --|..||.+++..|+.||
T Consensus 75 rI~le~~~~~~i~~I~eiC~e~~p---F~----y~i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 75 RIILELEDEDIVEEIEEICKEMLP---FG----YEVRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEEecCHHHHHHHHHHHHhhCC---Cc----eEeeeeeEeecCCchhhh
Confidence 455677777777777766555543 22 124678999999999998
No 202
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=43.97 E-value=70 Score=25.80 Aligned_cols=47 Identities=9% Similarity=0.192 Sum_probs=35.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCccccc
Q 023989 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--KDETTLADN 62 (274)
Q Consensus 13 ~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L--~D~~tL~d~ 62 (274)
-.+.|++++|+..+-..|.+..+ ++..++-.+|=..-. .-|+.++++
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sFAPsPDq~v~~L 95 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSFAPSPDQIVGNL 95 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCccCCCchhHHHHH
Confidence 45678999999999999999999 888888888855444 334444433
No 203
>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=43.78 E-value=59 Score=33.01 Aligned_cols=8 Identities=0% Similarity=-0.035 Sum_probs=3.1
Q ss_pred CCCCCeEE
Q 023989 39 YPCGQQLL 46 (274)
Q Consensus 39 ~p~~~qkL 46 (274)
+.-+.-+|
T Consensus 205 i~LeKenI 212 (574)
T PF07462_consen 205 INLEKENI 212 (574)
T ss_pred cccchhhh
Confidence 33333333
No 204
>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=43.58 E-value=23 Score=32.05 Aligned_cols=72 Identities=15% Similarity=0.248 Sum_probs=46.4
Q ss_pred EEEEEeCC--CcEE----EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----Ce--ecCCCCcccccccCCCCe
Q 023989 2 KLTVKTLK--GSHF----EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GK--VLKDETTLADNKVSEDGF 69 (274)
Q Consensus 2 ~I~VKtl~--g~~~----~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~----GK--~L~D~~tL~d~~I~~~~~ 69 (274)
-|++|-.+ .+++ .+-|+.+++|.+|-..|.+..| ++.+.--++|. ++ .++.+.++....|.+||.
T Consensus 70 LlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdI 146 (249)
T PF12436_consen 70 LLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDI 146 (249)
T ss_dssp EEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEE
T ss_pred EEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCE
Confidence 36666543 2333 2568899999999999999999 88876666664 33 367889999999999999
Q ss_pred EEEEecc
Q 023989 70 LVVMLSK 76 (274)
Q Consensus 70 I~v~v~k 76 (274)
|++-...
T Consensus 147 i~fQ~~~ 153 (249)
T PF12436_consen 147 ICFQRAP 153 (249)
T ss_dssp EEEEE--
T ss_pred EEEEecc
Confidence 9887644
No 205
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=42.46 E-value=53 Score=27.98 Aligned_cols=70 Identities=21% Similarity=0.421 Sum_probs=43.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHH-HHH---HHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKK-NIE---DVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~-kI~---~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|.|+++ ++|+.+.++++|..++.++-. .+. .+.||+.-...--.++++|+..+-..++... -+|..|.-+
T Consensus 2 ~~i~lt-vNG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~~--~~G~~ItTi 75 (156)
T COG2080 2 MPITLT-VNGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAVQ--AEGAEITTI 75 (156)
T ss_pred CcEEEE-ECCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHHH--hCCCeEEEe
Confidence 556676 799999999999998777654 322 3344443344455777888777655544432 345455433
No 206
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=41.10 E-value=42 Score=28.50 Aligned_cols=60 Identities=23% Similarity=0.256 Sum_probs=41.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
.+++|+.+++.|-|.|+... +-||| .|.+..| .. ||-|.- -++.++-+|+..|++-++-+
T Consensus 47 nLfLkdkK~q~~lv~~~e~~-~vDLk-~ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fgl 106 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDEDA-VVDLK-SIHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFGL 106 (164)
T ss_pred eeEeecCCCCEEEEEecccc-eecHH-HHHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEeee
Confidence 47889889988888887554 55788 4677766 33 776643 34556667888887665543
No 207
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=40.45 E-value=19 Score=39.16 Aligned_cols=68 Identities=7% Similarity=-0.114 Sum_probs=54.7
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 023989 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
+++....|...+....++...|.+|....| |+...++|++-|..++++..+..|+....-..+..++.
T Consensus 330 ~~l~~p~~~~~~~~~~~~~~~~p~~~~qtg---ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~~~as 397 (1143)
T KOG4248|consen 330 CNLACPPPRHLHVVRPMSHYTTPMVLQQTG---IPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPGQAAS 397 (1143)
T ss_pred hcccCCCCceeeecchhhhccCceeeeccc---ccccccceeeecccccCCCCCCccccccCCCCCccccC
Confidence 445555566666677788888999999999 99999999999999999999998888877766655443
No 208
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=40.37 E-value=66 Score=25.88 Aligned_cols=37 Identities=19% Similarity=0.332 Sum_probs=29.7
Q ss_pred hHHHHHHHHH--cCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCC
Q 023989 153 LEQTIQQIMD--MGGGTWDKETVTRALQAAYNNPERAVDYLYSGI 195 (274)
Q Consensus 153 ~e~~i~~i~e--MG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GI 195 (274)
.|+.+++|.. .+ |.|++++.+|.+-+ +..+|||++|-
T Consensus 31 l~~Ia~~i~~~~s~---~t~~di~~vl~~~~---~~~~~~l~~G~ 69 (124)
T PF14848_consen 31 LEDIAEEIAKEGST---LTRADIEAVLNALK---DEMIEALMNGY 69 (124)
T ss_pred HHHHHHHHHHhCCC---CCHHHHHHHHHHHH---HHHHHHHhCCC
Confidence 5667777874 56 99999999998854 67789999993
No 209
>PRK01777 hypothetical protein; Validated
Probab=40.31 E-value=1.7e+02 Score=22.60 Aligned_cols=62 Identities=10% Similarity=-0.001 Sum_probs=39.5
Q ss_pred CEEEEEeC-C--CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC-------CeEEEeCCeecCCCCcccccccCCCCeE
Q 023989 1 MKLTVKTL-K--GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG-------QQLLIHNGKVLKDETTLADNKVSEDGFL 70 (274)
Q Consensus 1 M~I~VKtl-~--g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~-------~qkLI~~GK~L~D~~tL~d~~I~~~~~I 70 (274)
|+|.|... . ...+.+++....||.++-... | ++.+ ..++.-+||...-+ .-+++||.|
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---LLELRTDIDLAKNKVGIYSRPAKLT-----DVLRDGDRV 71 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----C---CCccCcccccccceEEEeCeECCCC-----CcCCCCCEE
Confidence 45666532 2 234578899999999887664 4 3333 23566677776543 347789999
Q ss_pred EEEe
Q 023989 71 VVML 74 (274)
Q Consensus 71 ~v~v 74 (274)
-+.-
T Consensus 72 eIyr 75 (95)
T PRK01777 72 EIYR 75 (95)
T ss_pred EEec
Confidence 8873
No 210
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=40.28 E-value=17 Score=29.33 Aligned_cols=29 Identities=24% Similarity=0.416 Sum_probs=24.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHH
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNI 30 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI 30 (274)
|+|+|+ ..++.+..++..+.|.++|.+++
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 889998 46889999999998888888764
No 211
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=40.27 E-value=79 Score=24.29 Aligned_cols=41 Identities=22% Similarity=0.278 Sum_probs=34.3
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCeec
Q 023989 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKVL 53 (274)
Q Consensus 10 g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qk-LI~~GK~L 53 (274)
...+.+.|+...|=.++|+.|+..++ +.+...+ +++.||.-
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~---VkV~~VnT~~~~gk~k 61 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG---VKVESVNTLNVKGKTK 61 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC---CceeEEEEEEeCCcee
Confidence 46899999999999999999999999 7787774 46777653
No 212
>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=39.80 E-value=95 Score=23.81 Aligned_cols=61 Identities=18% Similarity=0.258 Sum_probs=41.8
Q ss_pred EEEeCCCCCHHHHHHHHHHHh-CCCCCC-CC-CeEEEeCC--eecCCCCcccccccCCCCeEEEEe
Q 023989 14 EIRVQPSDTVMAVKKNIEDVQ-GKDNYP-CG-QQLLIHNG--KVLKDETTLADNKVSEDGFLVVML 74 (274)
Q Consensus 14 ~ieV~~~~TV~~LK~kI~~~~-g~~~~p-~~-~qkLI~~G--K~L~D~~tL~d~~I~~~~~I~v~v 74 (274)
-+-|+..+|+.++=++++... |.-.-+ ++ ..++-+.| ..+..+.++.+-||++-+.|-+..
T Consensus 18 Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 18 LVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 467999999999999998653 432112 22 45666888 899999999999999999888765
No 213
>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=39.44 E-value=65 Score=32.72 Aligned_cols=7 Identities=29% Similarity=0.411 Sum_probs=2.9
Q ss_pred HHHHHHH
Q 023989 25 AVKKNIE 31 (274)
Q Consensus 25 ~LK~kI~ 31 (274)
+||+.|.
T Consensus 225 ElKeii~ 231 (574)
T PF07462_consen 225 ELKEIIK 231 (574)
T ss_pred HHHHHHh
Confidence 3444443
No 214
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=38.99 E-value=59 Score=30.72 Aligned_cols=40 Identities=18% Similarity=0.231 Sum_probs=32.6
Q ss_pred CCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 150 GNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 150 g~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
....+..++-|.+.| .+. ...+|+.+.++|.+|.+|+-.|
T Consensus 166 ~~~~~~~~~~L~~~~---~~~--~~~~l~l~~G~p~~A~~~~~~~ 205 (319)
T PRK06090 166 PPSTAQAMQWLKGQG---ITV--PAYALKLNMGSPLKTLAMMKEG 205 (319)
T ss_pred CCCHHHHHHHHHHcC---Cch--HHHHHHHcCCCHHHHHHHhCCC
Confidence 344578888899999 873 4678999999999999998655
No 215
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.19 E-value=1.7e+02 Score=26.63 Aligned_cols=19 Identities=11% Similarity=0.039 Sum_probs=15.4
Q ss_pred CcccccccCCCCeEEEEec
Q 023989 57 TTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 57 ~tL~d~~I~~~~~I~v~v~ 75 (274)
..=-|||+|+|.+|.+-++
T Consensus 145 ~pslDlgFKEGeTIkinik 163 (253)
T KOG2500|consen 145 GPSLDLGFKEGETIKINIK 163 (253)
T ss_pred CccccccccCCcEEEEEee
Confidence 3334599999999999987
No 216
>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=37.85 E-value=66 Score=29.08 Aligned_cols=43 Identities=7% Similarity=0.088 Sum_probs=31.4
Q ss_pred EEEEEeCC---CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE
Q 023989 2 KLTVKTLK---GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI 47 (274)
Q Consensus 2 ~I~VKtl~---g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI 47 (274)
.|+|+... +..|+++++...|-.+|-++|++..+ +.++.+||.
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 45666543 34799999999999999999999999 779999885
No 217
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=37.81 E-value=81 Score=29.79 Aligned_cols=63 Identities=19% Similarity=0.200 Sum_probs=44.9
Q ss_pred EEeCCCCCHHHHHHHHHHHh----CCC--------CCCCCCeEEEeCCeecCCCCcccccc---cCCCCeEEEEeccC
Q 023989 15 IRVQPSDTVMAVKKNIEDVQ----GKD--------NYPCGQQLLIHNGKVLKDETTLADNK---VSEDGFLVVMLSKS 77 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~----g~~--------~~p~~~qkLI~~GK~L~D~~tL~d~~---I~~~~~I~v~v~k~ 77 (274)
|....-.-|+.|+..|.++. ... ..+.+.+.|+++|.+|..+.||..+. -+.++-|++..|.+
T Consensus 252 L~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k 329 (331)
T PF11816_consen 252 LNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRK 329 (331)
T ss_pred ecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEec
Confidence 44444567889999999888 100 03566789999999999999887764 46777777776654
No 218
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=37.75 E-value=53 Score=28.84 Aligned_cols=40 Identities=10% Similarity=0.253 Sum_probs=35.4
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
.+.+++++-+.+.| +++++..+..+.-+.|+|. ++.++.-
T Consensus 80 ~e~~el~~iy~~~G---l~~~~a~~i~~~l~~~~~~-~~~m~~e 119 (213)
T PF01988_consen 80 EEKEELVEIYRAKG---LSEEDAEEIAEELSKDKDA-LDFMMRE 119 (213)
T ss_pred hHHHHHHHHHHHCC---CCHHHHHHHHHHHHhCchH-HHHHHhh
Confidence 35677888999999 9999999999999999999 9998754
No 219
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=37.72 E-value=40 Score=24.05 Aligned_cols=21 Identities=14% Similarity=0.493 Sum_probs=18.2
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHh
Q 023989 157 IQQIMDMGGGTWDKETVTRALQAA 180 (274)
Q Consensus 157 i~~i~eMG~~~f~r~qv~~ALrAa 180 (274)
-+.||+|| |...+..+=+|-|
T Consensus 6 k~dLi~lG---f~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELG---FSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcC---CCHHHHHHHHHHH
Confidence 36799999 9999999988876
No 220
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.24 E-value=70 Score=25.76 Aligned_cols=59 Identities=15% Similarity=0.170 Sum_probs=36.7
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-CCC------CCCeEEEeC----------------C-eecC-CCCcccccccCCCCe
Q 023989 16 RVQP-SDTVMAVKKNIEDVQGKD-NYP------CGQQLLIHN----------------G-KVLK-DETTLADNKVSEDGF 69 (274)
Q Consensus 16 eV~~-~~TV~~LK~kI~~~~g~~-~~p------~~~qkLI~~----------------G-K~L~-D~~tL~d~~I~~~~~ 69 (274)
+++. +.||++++..|.+....+ .++ -+..|+++. . .+|+ ++++|..|||.+...
T Consensus 28 d~dLad~Tvk~f~~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sKT~nLvinldhDd~w~L~d~~ktL~~~GIenETE 107 (127)
T KOG4147|consen 28 DVDLADQTVKEFIVFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSKTNNLVINLDHDDRWLLKDEDKTLKAAGIENETE 107 (127)
T ss_pred ccchhHhhHHHHHHHHHHhcccCCCCCccccccccceeeehhhhhcccceEEEeccCCcceeecCccchHHHhccCcchh
Confidence 5664 789999988877664311 022 223344332 2 4455 467999999998877
Q ss_pred EEEEe
Q 023989 70 LVVML 74 (274)
Q Consensus 70 I~v~v 74 (274)
|.+..
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 76654
No 221
>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=37.01 E-value=1e+02 Score=21.38 Aligned_cols=59 Identities=19% Similarity=0.233 Sum_probs=38.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
|+|.+.+|+... ++...|+.|+=..|....++ .-.--..+|+..+-+. -|++++.|-++
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~~-----~~~~A~Vng~~vdl~~-----~L~~~d~v~ii 59 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLAK-----RAVAAKVNGQLVDLDH-----PLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHH-----CEEEEEETTEEEETTS-----BB-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHh-----heeEEEEcCEECCCCC-----CcCCCCEEEEE
Confidence 456667887755 66889999999999988762 1222346776554433 35566766654
No 222
>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=34.83 E-value=1.3e+02 Score=21.53 Aligned_cols=44 Identities=23% Similarity=0.330 Sum_probs=35.7
Q ss_pred chHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHc----C-CCCc
Q 023989 152 DLEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS----G-IPET 198 (274)
Q Consensus 152 ~~e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~----G-IP~~ 198 (274)
..+++|..+... | --.+=++++|.-+..|.+||+.-... | ||.+
T Consensus 11 ~q~~~v~~~~~~Tg---mn~~~s~~cLe~~~Wd~~~Al~~F~~lk~~~~IP~e 60 (63)
T smart00804 11 EQQEMVQAFSAQTG---MNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPPE 60 (63)
T ss_pred HHHHHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCChh
Confidence 457888888886 7 88899999999999999999966444 3 8864
No 223
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=34.67 E-value=2.2e+02 Score=26.51 Aligned_cols=29 Identities=14% Similarity=0.252 Sum_probs=18.6
Q ss_pred cCCCCcccccccCCCCeEEEEeccCCCCCC
Q 023989 53 LKDETTLADNKVSEDGFLVVMLSKSKTLGS 82 (274)
Q Consensus 53 L~D~~tL~d~~I~~~~~I~v~v~k~k~~~~ 82 (274)
|-|++.+-++.+|..+. -+++||+..-+.
T Consensus 115 lv~~~di~e~~lk~~~~-e~~irkkeal~~ 143 (274)
T PLN02983 115 LVDSRDIVELQLKQLDC-ELVIRKKEALPQ 143 (274)
T ss_pred hhccccceeeeccccce-EEEEecccccCC
Confidence 56778888888876553 445566655443
No 224
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=33.00 E-value=98 Score=33.29 Aligned_cols=62 Identities=13% Similarity=0.307 Sum_probs=46.0
Q ss_pred CCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCccccccc--CCCCeEEEE
Q 023989 9 KGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKV--SEDGFLVVM 73 (274)
Q Consensus 9 ~g~~~~ieV~-~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~-~GK~L~D~~tL~d~~I--~~~~~I~v~ 73 (274)
.|+..+++.+ ...|+.+||..|..+.| +....+.++- +|..+.-++.|..|.- .+-+-|++.
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 4677777776 46899999999999999 6677777765 5567777888888862 344455555
No 225
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=31.50 E-value=1.1e+02 Score=25.13 Aligned_cols=35 Identities=29% Similarity=0.409 Sum_probs=30.6
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHH
Q 023989 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYL 191 (274)
Q Consensus 154 e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL 191 (274)
|+-|.=+|+- | -+|+++++||.++.+++-.|+=-|
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 6788888885 8 999999999999999998887655
No 226
>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=31.14 E-value=36 Score=23.87 Aligned_cols=32 Identities=22% Similarity=0.424 Sum_probs=22.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHH
Q 023989 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIED 32 (274)
Q Consensus 1 M~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~ 32 (274)
|.|++++.+|+.|.++.+.-.--.-||..|..
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 78999999999999985543344445666654
No 227
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=30.83 E-value=44 Score=31.35 Aligned_cols=27 Identities=41% Similarity=0.556 Sum_probs=25.2
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+.+++||+.+.+|..+|.+.| ||.
T Consensus 286 ~Er~~I~~aL~~~~gn~~~aA~~L--GIs 312 (326)
T PRK11608 286 QEKELLQRSLQQAKFNQKRAAELL--GLT 312 (326)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh--CCC
Confidence 899999999999999999999998 775
No 228
>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=30.58 E-value=1e+02 Score=23.31 Aligned_cols=50 Identities=14% Similarity=0.308 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCC--CeEEE--eCCeecCCCCcccccccCCCCeEEEEec
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCG--QQLLI--HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~--~qkLI--~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
-.+..+|+.|..++.+ ++.. ..+|+ -.|..++|+.-+.. +. .+++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~~~~lvL~eDGT~VddEeyF~t--Lp-~nT~l~~L~ 73 (80)
T cd06536 20 ASSLEELRIKACESLG---FDSSSAPITLVLAEDGTIVEDEDYFLC--LP-PNTKFVLLA 73 (80)
T ss_pred cCCHHHHHHHHHHHhC---CCCCCCceEEEEecCCcEEccHHHHhh--CC-CCcEEEEEC
Confidence 3579999999999998 7633 35554 47888888764444 33 344444443
No 229
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=30.50 E-value=44 Score=29.48 Aligned_cols=51 Identities=24% Similarity=0.376 Sum_probs=28.5
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEE--EeCC-----eecCCCC--cccccc
Q 023989 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLL--IHNG-----KVLKDET--TLADNK 63 (274)
Q Consensus 10 g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~---~~qkL--I~~G-----K~L~D~~--tL~d~~ 63 (274)
|..|.+-|.+.+|+.++|++|.++.| ++- +..|+ +..+ +.|+|+. .|.+..
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 45688899999999999999999998 543 34454 4455 4567754 455443
No 230
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=30.50 E-value=63 Score=24.59 Aligned_cols=31 Identities=23% Similarity=0.439 Sum_probs=24.5
Q ss_pred cCCCCchHHHHHHHHHcCCCCC-CHHHHHH-HHHH
Q 023989 147 LVAGNDLEQTIQQIMDMGGGTW-DKETVTR-ALQA 179 (274)
Q Consensus 147 l~~g~~~e~~i~~i~eMG~~~f-~r~qv~~-ALrA 179 (274)
+-.+..+...|+++++.| -| .|++|+| |||.
T Consensus 7 V~lp~~~~~~i~~lV~~G--~y~s~SeviR~alr~ 39 (89)
T COG3609 7 VRLPEQLVEFIDELVESG--RYKSRSEVIRAALRL 39 (89)
T ss_pred EeCCHHHHHHHHHHHHcC--CCCCHHHHHHHHHHH
Confidence 345778999999999997 45 8999888 5554
No 231
>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=30.31 E-value=39 Score=25.48 Aligned_cols=43 Identities=19% Similarity=0.224 Sum_probs=24.3
Q ss_pred HHHHHhCCCCCCCCCeEEEe---CCeecCCCCcccccccCCCCeEEEEeccC
Q 023989 29 NIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 29 kI~~~~g~~~~p~~~qkLI~---~GK~L~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
.|.+++. +.++...|+- ++..|+-+++|.+|||++ |+.+-.+.
T Consensus 2 ~IC~KCE---fdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~~~ 47 (79)
T PF09469_consen 2 AICEKCE---FDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDTSR 47 (79)
T ss_dssp HHHHHTT-----TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE---
T ss_pred ccccccc---cCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhcccc
Confidence 4677755 8888887763 567899999999999996 77776653
No 232
>PF06006 DUF905: Bacterial protein of unknown function (DUF905); InterPro: IPR009253 This family consists of several short hypothetical proteobacterial proteins of unknown function.; PDB: 2HJJ_A.
Probab=30.13 E-value=35 Score=25.16 Aligned_cols=18 Identities=28% Similarity=0.554 Sum_probs=9.5
Q ss_pred CCCCHHHHHHHHHHhcCCH
Q 023989 166 GTWDKETVTRALQAAYNNP 184 (274)
Q Consensus 166 ~~f~r~qv~~ALrAafnNp 184 (274)
|+|.|+|++. +.++|.|.
T Consensus 6 g~ftr~qA~a-V~a~y~NV 23 (70)
T PF06006_consen 6 GPFTREQAEA-VAAQYRNV 23 (70)
T ss_dssp ----HHHHHH-HHHH-TTE
T ss_pred CCccHHHHHH-HHHHhcce
Confidence 6799999865 67777764
No 233
>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=29.87 E-value=81 Score=22.95 Aligned_cols=25 Identities=16% Similarity=0.501 Sum_probs=21.3
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALr 178 (274)
...+.++..|..|| |++++|..-|+
T Consensus 9 ~R~daA~dam~~lG---~~~~~v~~vl~ 33 (65)
T PF10440_consen 9 ERIDAALDAMRQLG---FSKKQVRPVLK 33 (65)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHH
Confidence 45678999999999 99999987765
No 234
>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=29.56 E-value=1.2e+02 Score=23.01 Aligned_cols=51 Identities=18% Similarity=0.312 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~-~~qkLI~~GK~L~D~~tL~d~~I~~~~~I~v~v~k 76 (274)
-.+..+|+.|..++.+ ++. -.+.|--.|..++|+.-+.. + +.+++.|++.+
T Consensus 20 A~sL~eL~~K~~~~l~---l~~~~~lvL~eDGT~Vd~EeyF~t--L-p~nt~l~vL~~ 71 (79)
T cd06538 20 ADSLEDLLNKVLDALL---LDCISSLVLDEDGTGVDTEEFFQA--L-ADNTVFMVLGK 71 (79)
T ss_pred cCCHHHHHHHHHHHcC---CCCccEEEEecCCcEEccHHHHhh--C-CCCcEEEEECC
Confidence 3579999999999998 642 22334457888877754444 2 33455555443
No 235
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=29.17 E-value=35 Score=26.73 Aligned_cols=21 Identities=29% Similarity=0.676 Sum_probs=12.7
Q ss_pred HHHHHhcCCHHHHHHHHHcC-CCCc
Q 023989 175 RALQAAYNNPERAVDYLYSG-IPET 198 (274)
Q Consensus 175 ~ALrAafnNpdrAvEyL~~G-IP~~ 198 (274)
..++.+ .|+|++||-+| ||++
T Consensus 75 ~s~k~a---l~~A~~Fl~~~~vP~~ 96 (96)
T PF08169_consen 75 SSLKPA---LDKASTFLKTGVVPDN 96 (96)
T ss_dssp HHH-HH---HHHHHHHHHS----TT
T ss_pred chhhHH---HHHHHHHHhcCCCCCC
Confidence 356665 47999999999 7764
No 236
>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=28.67 E-value=2.2e+02 Score=21.64 Aligned_cols=43 Identities=14% Similarity=0.093 Sum_probs=32.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH 48 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~ 48 (274)
+.+|| ..|.+-.|.++..-|-..|+++|...+. ++....-|.|
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~---lp~~~~~vtY 44 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYN---LPEIKVGVTY 44 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhC---CChhHeEEEE
Confidence 34555 4555666667778899999999999999 8877777766
No 237
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=28.64 E-value=68 Score=29.71 Aligned_cols=31 Identities=35% Similarity=0.666 Sum_probs=26.2
Q ss_pred CCHHHHHHHHHH-------------------hcCCHHHHHHHHHcCCCCc
Q 023989 168 WDKETVTRALQA-------------------AYNNPERAVDYLYSGIPET 198 (274)
Q Consensus 168 f~r~qv~~ALrA-------------------afnNpdrAvEyL~~GIP~~ 198 (274)
++++++.+.|+. -||+|....+||-.|+|--
T Consensus 215 ~~~eel~~~l~~~~gLv~~~~~~~~~~~~y~~~~~P~K~~~ymA~G~PVI 264 (333)
T PRK09814 215 FDPEELPNELSKGFGLVWDGDTNDGEYGEYYKYNNPHKLSLYLAAGLPVI 264 (333)
T ss_pred CCHHHHHHHHhcCcCeEEcCCCCCccchhhhhccchHHHHHHHHCCCCEE
Confidence 488888887775 3899999999999999964
No 238
>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=28.53 E-value=66 Score=24.11 Aligned_cols=23 Identities=17% Similarity=0.294 Sum_probs=19.1
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhC
Q 023989 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 13 ~~ieV~~~~TV~~LK~kI~~~~g 35 (274)
+.++|..+.|+.++|+.+.++-.
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 46889999999999999988765
No 239
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=28.44 E-value=63 Score=28.24 Aligned_cols=27 Identities=7% Similarity=0.256 Sum_probs=24.1
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAaf 181 (274)
..++.+..|+.+| |.+.++.+|++...
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 99999999998775
No 240
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=28.09 E-value=50 Score=33.06 Aligned_cols=27 Identities=26% Similarity=0.304 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+.+++||+.+-+|.-+|.++| ||+
T Consensus 490 ~Er~~i~~aL~~~~gn~~~aA~~L--Gis 516 (534)
T TIGR01817 490 SERERLIAALEQAGWVQAKAARLL--GMT 516 (534)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH--CCC
Confidence 799999999999999999999998 775
No 241
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=27.54 E-value=53 Score=30.91 Aligned_cols=27 Identities=30% Similarity=0.489 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+.+.+||+...+|..+|.++| ||.
T Consensus 292 ~E~~~I~~aL~~~~gn~~~aA~~L--Gis 318 (329)
T TIGR02974 292 YEIELLQQALAEAQFNQRKAAELL--GLT 318 (329)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh--CCC
Confidence 899999999999999999999998 775
No 242
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=27.44 E-value=1.4e+02 Score=24.68 Aligned_cols=37 Identities=19% Similarity=0.123 Sum_probs=33.4
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHc
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~ 193 (274)
..+.|.-+.+-| -..|++++||.-+. ++-+|++.|.+
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 467899999999 99999999999987 99999999865
No 243
>COG4055 McrD Methyl coenzyme M reductase, subunit D [Coenzyme metabolism]
Probab=27.30 E-value=1.3e+02 Score=25.49 Aligned_cols=49 Identities=12% Similarity=0.214 Sum_probs=31.7
Q ss_pred EEEEEeCCCC-CHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCC
Q 023989 12 HFEIRVQPSD-TVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDG 68 (274)
Q Consensus 12 ~~~ieV~~~~-TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~I~~~~ 68 (274)
.+.|+++..+ ++.++++...+...| ... ++-|+.+++.-|+.|| +|-|.
T Consensus 84 ri~~eie~e~~~~e~ie~ic~e~lPf------~y~-v~vG~F~r~kpTVTDy-~KyG~ 133 (165)
T COG4055 84 RIILEIEDEDETMEKIEEICDEMLPF------GYE-VRVGKFTRRKPTVTDY-IKYGE 133 (165)
T ss_pred EEEEEecCcHhHHHHHHHHHHHhCCC------cee-eeeeeeeccCCcchhh-hhhCc
Confidence 3556776664 777777655555442 122 4779999999999998 44443
No 244
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=27.27 E-value=1.3e+02 Score=27.95 Aligned_cols=41 Identities=22% Similarity=0.431 Sum_probs=34.1
Q ss_pred hHHHHHHHHH-cCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 153 LEQTIQQIMD-MGGGTWDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 153 ~e~~i~~i~e-MG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
+++++.-|++ .| -++++++++|..+.+++-.|+-.++.|+.
T Consensus 235 ~~ra~~i~~~~~~---~~~~~a~~~l~~~~~~vk~a~~~~~~~~~ 276 (299)
T PRK05441 235 VDRAVRIVMEATG---VSREEAEAALEAADGSVKLAIVMILTGLD 276 (299)
T ss_pred HHHHHHHHHHHHC---cCHHHHHHHHHHhCCCcHHHHHHHHhCCC
Confidence 3445555666 48 99999999999999999999999999854
No 245
>KOG4361 consensus BCL2-associated athanogene-like proteins and related BAG family chaperone regulators [Signal transduction mechanisms]
Probab=27.25 E-value=26 Score=33.63 Aligned_cols=61 Identities=18% Similarity=0.229 Sum_probs=44.5
Q ss_pred EEEEeCCCCCHH---HHHHHHHHHhCCCCCCCCCe--EEEeCCeecCCCC-cccccccCCCCeEEEEecc
Q 023989 13 FEIRVQPSDTVM---AVKKNIEDVQGKDNYPCGQQ--LLIHNGKVLKDET-TLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 13 ~~ieV~~~~TV~---~LK~kI~~~~g~~~~p~~~q--kLI~~GK~L~D~~-tL~d~~I~~~~~I~v~v~k 76 (274)
+.+.+.+..+-. ++++...+..| +....+ +++|.++.|+|.. .|..+++++-+.|.|+.-+
T Consensus 73 ~~~~i~p~~~~g~~~d~a~~~~~~ag---~sh~d~~~k~~y~~~e~rd~~l~l~~~g~p~~sk~~~~~~~ 139 (344)
T KOG4361|consen 73 HGLAIVPQYPSGNALDLAKPLTEDAG---LSHYDQEVKLVYVDKELRDQSLRLSSAGVPDASKINVVPDP 139 (344)
T ss_pred cccccccccccccchhhhcccccccc---eeecccccccceecccccccccccccccCcccccceeccCh
Confidence 344555555544 77777777777 444444 9999999998865 6899999999998888644
No 246
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=27.24 E-value=53 Score=31.92 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=25.1
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+-+++||+...+|..+|.++| ||.
T Consensus 429 ~E~~~i~~aL~~~~gn~~~aA~~L--gis 455 (469)
T PRK10923 429 LERTLLTTALRHTQGHKQEAARLL--GWG 455 (469)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh--CCC
Confidence 799999999999999999999999 774
No 247
>PRK15115 response regulator GlrR; Provisional
Probab=26.86 E-value=53 Score=31.60 Aligned_cols=27 Identities=19% Similarity=0.220 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+-+++||+...+|-.+|.++| ||.
T Consensus 398 ~E~~~i~~al~~~~gn~~~aA~~L--gis 424 (444)
T PRK15115 398 FELNYLRKLLQITKGNVTHAARMA--GRN 424 (444)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh--CCC
Confidence 789999999999999999999998 664
No 248
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=26.85 E-value=3.1e+02 Score=21.47 Aligned_cols=53 Identities=25% Similarity=0.309 Sum_probs=34.8
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCee------c-CC-CC-cc--cccccCCCCeEEEEec
Q 023989 19 PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKV------L-KD-ET-TL--ADNKVSEDGFLVVMLS 75 (274)
Q Consensus 19 ~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~------L-~D-~~-tL--~d~~I~~~~~I~v~v~ 75 (274)
...||.+|-..|..+.-. .-.+-+|..|.+ | +| |. .| ++|.+++||.|+++-+
T Consensus 34 ~~~tvgdll~yi~~~~ie----~r~~lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiST 97 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIE----TRDSLFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFIST 97 (101)
T ss_pred CcccHHHHHHHHHHHHhc----CCcceEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEe
Confidence 457999999999886541 122255666632 2 33 22 22 6789999999998754
No 249
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=26.65 E-value=1.1e+02 Score=22.69 Aligned_cols=53 Identities=11% Similarity=0.203 Sum_probs=36.8
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeecCC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGKVLKD 55 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL-I~~GK~L~D 55 (274)
.++++ ++|+.+.+.||...++.=+-++...+.++..+....+++ .|+|..+.-
T Consensus 2 ~~~~~-Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~ 55 (91)
T cd05484 2 TVTLL-VNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSV 55 (91)
T ss_pred EEEEE-ECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeE
Confidence 35555 678999999999988888888888888843233334555 467766543
No 250
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=26.31 E-value=1.4e+02 Score=22.73 Aligned_cols=49 Identities=10% Similarity=0.125 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEEEec
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~~qkL--I~~GK~L~D~~tL~d~~I~~~~~I~v~v~ 75 (274)
-.+..+|+.|..+..+ ++. ..+| --.|.+++|+.-+.. +.++ ++.|++.
T Consensus 20 A~sL~EL~~K~~~~L~---~~~-~~~lvLeeDGT~Vd~EeyF~t--Lpdn-T~lm~L~ 70 (81)
T cd06537 20 AASLQELLAKALETLL---LSG-VLTLVLEEDGTAVDSEDFFEL--LEDD-TCLMVLE 70 (81)
T ss_pred ccCHHHHHHHHHHHhC---CCC-ceEEEEecCCCEEccHHHHhh--CCCC-CEEEEEC
Confidence 3579999999999988 642 2444 347888877754443 3344 4444443
No 251
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=26.14 E-value=89 Score=26.43 Aligned_cols=25 Identities=20% Similarity=0.508 Sum_probs=21.3
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALr 178 (274)
++.+.....|.+.| |+++++.+||.
T Consensus 21 ~d~~~L~~~L~~aG---F~~~eI~~Al~ 45 (155)
T PF04361_consen 21 PDQDDLTRELSAAG---FEDEEINKALD 45 (155)
T ss_pred CCHHHHHHHHHHcC---CCHHHHHHHHH
Confidence 35678899999999 99999988875
No 252
>PF01376 Enterotoxin_b: Heat-labile enterotoxin beta chain; InterPro: IPR001835 Escherichia coli heat-labile enterotoxin is a bacterial protein toxin with an AB5 multimer structure, in which the B pentamer has a membrane-binding function and the A chain (IPR001144 from INTERPRO) is needed for enzymatic activity []. The B subunits are arranged as a donut-shaped pentamer, each subunit participating in ~30 hydrogen bonds and 6 salt bridges with its two neighbours []. The A subunit has a less well-defined secondary structure. It predominantly interacts with the pentamer via the C-terminal A2 fragment, which runs through the charged central pore of the B subunits. A putative catalytic residue in the A1 fragment (Glu112) lies close to a hydrophobic region, which packs two loops together. It is thought that this region might be important for catalysis and membrane translocation [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1LTA_D 2XRS_O 1LTS_E 1LTT_H 1TET_P 1JQY_Y 1PZI_D 1DJR_E 1EEF_D 1LTB_E ....
Probab=26.12 E-value=94 Score=23.77 Aligned_cols=31 Identities=26% Similarity=0.424 Sum_probs=21.9
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHh
Q 023989 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQ 34 (274)
Q Consensus 4 ~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~ 34 (274)
.|...+|.+|.++|..+.-+..-|+.|+..+
T Consensus 39 iitf~ngatfqvevpgsqhi~sqkk~iermk 69 (102)
T PF01376_consen 39 IITFKNGATFQVEVPGSQHIDSQKKAIERMK 69 (102)
T ss_dssp EEEETTS-EEEE--SSTTSTTTHHHHHHHHH
T ss_pred EEEecCCcEEEEecCCccchhhhHHHHHHHH
Confidence 3455589999999999988888888877664
No 253
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=26.07 E-value=56 Score=31.57 Aligned_cols=27 Identities=22% Similarity=0.346 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+-+.+||+...+|..+|.++| ||.
T Consensus 426 ~E~~~i~~al~~~~gn~~~aA~~L--gis 452 (463)
T TIGR01818 426 FERPLLEAALQHTRGHKQEAAALL--GWG 452 (463)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh--CCC
Confidence 789999999999999999999998 764
No 254
>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=25.59 E-value=1.9e+02 Score=24.37 Aligned_cols=22 Identities=23% Similarity=0.293 Sum_probs=19.9
Q ss_pred EEEeCCCCCHHHHHHHHHHHhC
Q 023989 14 EIRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 14 ~ieV~~~~TV~~LK~kI~~~~g 35 (274)
.|.|..+.|+.+|-..|....|
T Consensus 21 ri~Vp~~~tl~~Lh~~Iq~afg 42 (179)
T PF07929_consen 21 RIEVPADITLADLHEVIQAAFG 42 (179)
T ss_dssp EEEEETT-BHHHHHHHHHHHTT
T ss_pred EEEECCCCCHHHHHHHHHHHhC
Confidence 5899999999999999999998
No 255
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=25.55 E-value=2.5e+02 Score=21.45 Aligned_cols=33 Identities=12% Similarity=0.269 Sum_probs=27.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g 35 (274)
+|++. ..|..+.+.++++.|..+|.+++.+.+.
T Consensus 2 ~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~ 34 (83)
T cd06404 2 RVKAA-YNGDIMITSIDPSISLEELCNEVRDMCR 34 (83)
T ss_pred eEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhC
Confidence 34444 3677888899999999999999999987
No 256
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=25.50 E-value=1e+02 Score=22.53 Aligned_cols=43 Identities=16% Similarity=0.339 Sum_probs=27.7
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc-cCCCCeEEEE
Q 023989 21 DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNK-VSEDGFLVVM 73 (274)
Q Consensus 21 ~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~~-I~~~~~I~v~ 73 (274)
.|+.+|.+..++++| +. ...-+. .|..-+.|.. |.+|+.|+++
T Consensus 26 ~SleeLl~ia~~kfg---~~-~~~v~~------~dgaeIdDI~~IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFG---FS-ATKVLN------EDGAEIDDIDVIRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhC---CC-ceEEEc------CCCCEEeEEEEEEcCCEEEEC
Confidence 699999999999999 53 211122 3333444443 5778888764
No 257
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=25.48 E-value=16 Score=33.64 Aligned_cols=39 Identities=10% Similarity=0.135 Sum_probs=34.6
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~G 50 (274)
.|..+.++++..++|.|.+..+.+..+ +.+...||++.+
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~---vss~~~kll~~~ 49 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAV---VSSKPNKLLALN 49 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeee---eccchHHHHhhh
Confidence 577899999999999999999999988 778888888876
No 258
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=25.29 E-value=1.6e+02 Score=27.91 Aligned_cols=41 Identities=20% Similarity=0.336 Sum_probs=31.3
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
..+..++-|.+-| + .+.+++..+++.+.++|.+|++|+..|
T Consensus 167 ~~~~~~~~L~~~~-~-~~~~~~~~~~~l~~g~p~~A~~~~~~~ 207 (325)
T PRK06871 167 EEQQALDWLQAQS-S-AEISEILTALRINYGRPLLALTFLEQG 207 (325)
T ss_pred CHHHHHHHHHHHh-c-cChHHHHHHHHHcCCCHHHHHHHhhCC
Confidence 3456666666654 1 566678899999999999999998765
No 259
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=25.04 E-value=59 Score=32.45 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
|||+.+++||+.+.+|-.+|.++| ||.
T Consensus 468 ~Er~~I~~aL~~~~gn~~~aA~~L--Gis 494 (509)
T PRK05022 468 FQRQLIRQALAQHQGNWAAAARAL--ELD 494 (509)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh--CCC
Confidence 899999999999999999999998 765
No 260
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=24.96 E-value=85 Score=22.12 Aligned_cols=12 Identities=25% Similarity=0.390 Sum_probs=8.7
Q ss_pred cCCHHHHHHHHH
Q 023989 181 YNNPERAVDYLY 192 (274)
Q Consensus 181 fnNpdrAvEyL~ 192 (274)
-+.+|+|.|||.
T Consensus 36 lg~~~~a~eYi~ 47 (62)
T PF14689_consen 36 LGKYEEAKEYIK 47 (62)
T ss_dssp TT-HHHHHHHHH
T ss_pred CCCHHHHHHHHH
Confidence 457899999984
No 261
>PF03333 PapB: Adhesin biosynthesis transcription regulatory protein; InterPro: IPR004356 P pili, or fimbriae, are ~68A in diameter and 1 micron in length, the bulk of which is a fibre composed of the main structural protein PapA []. At its tip, the pilus is terminated by a fibrillum consisting of repeating units of the PapE protein. This, in turn, is topped by the adhesins, PapF and PapG, both of which are needed for receptor binding. The tip fibrillum is anchored to the main PapA fibre by the PapK pilus-adaptor protein. PapH, an outer membrane protein, then anchors the entire rod in the bacterial envelope []. A cytoplasmic chaperone (PapD) assists in assembling the monomers of the macromolecule in the membrane. All of the functional pap genes are arranged in a cluster (operon) on the Escherichia coli genome. It is believed that selective pressure exerted by the host's urinal and intestinal tract isoreceptors forced the spread of this operon to other strains via lateral transfer []. PapB, encoded within the cluster, acts as a transcriptional regulator of the functional pap genes and is located in the bacterial cytoplasm []. Its mechanism involves differential binding to separate sites in the cluster, suggesting that this protein is both an activator and repressor of pilus-adhesion transcription. The protein shares similarity with other E. coli fimbrial- adhesion transcription regulators, such as AfaA, DaaA and FanB. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 3M8J_A.
Probab=24.92 E-value=1.1e+02 Score=23.75 Aligned_cols=42 Identities=24% Similarity=0.483 Sum_probs=25.9
Q ss_pred ccccCCCCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCCC
Q 023989 144 ASNLVAGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPE 197 (274)
Q Consensus 144 ~s~l~~g~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP~ 197 (274)
...|+.|...++...-|+++. +--=+.|+.||| +||..|++.
T Consensus 15 ~~~L~pG~vs~e~F~lLl~ls--~IrS~kiI~AL~----------dyLV~G~sr 56 (91)
T PF03333_consen 15 NGYLIPGKVSEEHFWLLLELS--SIRSEKIIAALR----------DYLVDGLSR 56 (91)
T ss_dssp HC---TT-S-HHHHHHHHHHS------HHHHHHHH----------HHHTT---H
T ss_pred cCccCCCCcCHHHHHHHHHHC--CCCcHHHHHHHH----------HHHHcCCcH
Confidence 356888999999999999995 156688999999 599999764
No 262
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=24.89 E-value=88 Score=23.55 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=19.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhC
Q 023989 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 13 ~~ieV~~~~TV~~LK~kI~~~~g 35 (274)
+.++|..+.|+.++|+.+.++-.
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~ 24 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQAR 24 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHH
Confidence 46789999999999999987754
No 263
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=24.55 E-value=1.6e+02 Score=27.61 Aligned_cols=41 Identities=22% Similarity=0.370 Sum_probs=35.9
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCC
Q 023989 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYSGIP 196 (274)
Q Consensus 153 ~e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP 196 (274)
.++.+.-+|+. | -+|++.+++|+.+.+++--|+=.+++|+-
T Consensus 233 ~dRa~RIv~~aT~---~~~~~A~~~L~~~~~~vK~AIvm~~~~~~ 274 (298)
T COG2103 233 RDRAVRIVMEATG---CSAEEAEALLEEAGGNVKLAIVMLLTGLS 274 (298)
T ss_pred HHHHHHHHHHHhC---CCHHHHHHHHHHcCCccHhHHHHHHhCCC
Confidence 45677777776 8 99999999999999999999999999963
No 264
>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=24.43 E-value=2.5e+02 Score=21.08 Aligned_cols=37 Identities=8% Similarity=-0.054 Sum_probs=31.3
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe
Q 023989 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ 44 (274)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~q 44 (274)
|...+|+...+-|.+++||.++-+.+.++.+ +.+...
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~---ldp~eh 40 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQ---LDPMEH 40 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcC---CChhHh
Confidence 4556888899999999999999999999999 656654
No 265
>PF11742 DUF3302: Protein of unknown function (DUF3302); InterPro: IPR011223 This is a family of uncharacterised bacterial proteins, restricted to the Gammaproteobacteria.
Probab=24.24 E-value=52 Score=24.83 Aligned_cols=21 Identities=24% Similarity=0.245 Sum_probs=16.1
Q ss_pred HHhhccHHHHHHHHHHHHhhc
Q 023989 253 DFLRNNQQVWSLLCCQLLFLF 273 (274)
Q Consensus 253 ~~Lr~~pqf~~lRq~~~~~~~ 273 (274)
.-=|||||++.+.-+-++-||
T Consensus 31 A~kr~Hpq~eaI~v~gwisLf 51 (78)
T PF11742_consen 31 AHKRNHPQAEAIHVLGWISLF 51 (78)
T ss_pred HHhcCCchHHHHHHHHHHHHH
Confidence 345899999999887776554
No 266
>CHL00030 rpl23 ribosomal protein L23
Probab=24.23 E-value=1.7e+02 Score=22.68 Aligned_cols=40 Identities=18% Similarity=0.077 Sum_probs=32.4
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCe
Q 023989 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGK 51 (274)
Q Consensus 9 ~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qk-LI~~GK 51 (274)
....+.+.|+.+.|=.++|+.|+..++ +.+.... ++..||
T Consensus 18 e~n~y~F~V~~~anK~eIK~avE~lf~---VkV~~VNt~~~~~k 58 (93)
T CHL00030 18 EKNQYTFDVDSGSTKTEIKHWIELFFG---VKVIAVNSHRLPRK 58 (93)
T ss_pred HCCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEcCCC
Confidence 346899999999999999999999999 7676664 345565
No 267
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=24.11 E-value=2.1e+02 Score=21.95 Aligned_cols=71 Identities=15% Similarity=0.194 Sum_probs=38.9
Q ss_pred EEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe-ec-CCCCccccc--ccCCCCeEEEE
Q 023989 2 KLTVKTLKG----SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK-VL-KDETTLADN--KVSEDGFLVVM 73 (274)
Q Consensus 2 ~I~VKtl~g----~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK-~L-~D~~tL~d~--~I~~~~~I~v~ 73 (274)
.|.+|...+ +.-.+.|+.++|+..|-..|.++.+ +...+.-.+|=.. -- .-|.+++++ ...-++.|+|.
T Consensus 3 ~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk---~~~~~slFlYin~sFaPspDe~vg~L~~~f~~~~~Liv~ 79 (87)
T PF04110_consen 3 TVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLK---LKPSDSLFLYINNSFAPSPDETVGDLYRCFGTNGELIVS 79 (87)
T ss_dssp EEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT-------SS-EEEEEEEE---TTSBHHHHHHHH-BTTBEEEE
T ss_pred EEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhC---CccCCeEEEEEcCccCCCchhHHHHHHHHhCCCCEEEEE
Confidence 344554433 2345678899999999999999988 5444444444333 22 446666665 23455666665
Q ss_pred ec
Q 023989 74 LS 75 (274)
Q Consensus 74 v~ 75 (274)
-.
T Consensus 80 Ys 81 (87)
T PF04110_consen 80 YS 81 (87)
T ss_dssp EE
T ss_pred Ee
Confidence 44
No 268
>PF10025 DUF2267: Uncharacterized conserved protein (DUF2267); InterPro: IPR018727 This entry contains proteins that have no known function. ; PDB: 2YSK_A.
Probab=24.08 E-value=90 Score=24.96 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=20.5
Q ss_pred chHHHHHHHHH-cCCCCC-CHHHHHHHHHHhc
Q 023989 152 DLEQTIQQIMD-MGGGTW-DKETVTRALQAAY 181 (274)
Q Consensus 152 ~~e~~i~~i~e-MG~~~f-~r~qv~~ALrAaf 181 (274)
+|++-|..+++ || + +|+++.+|+||-+
T Consensus 1 ~~~~fl~~V~~~~~---l~~~~~A~~a~~avL 29 (125)
T PF10025_consen 1 KYDEFLDEVRERAG---LPDREEAYRATRAVL 29 (125)
T ss_dssp HHHHHHHHHHHHHT------HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhC---CCCHHHHHHHHHHHH
Confidence 36788888876 78 8 9999999999854
No 269
>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=23.99 E-value=1.8e+02 Score=21.72 Aligned_cols=33 Identities=12% Similarity=0.109 Sum_probs=29.1
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL 46 (274)
..+.+.|+...|=.++|+.|+..++ +.+...+.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~---VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFD---VKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 5899999999999999999999999 77776654
No 270
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=23.90 E-value=1.3e+02 Score=31.90 Aligned_cols=61 Identities=21% Similarity=0.309 Sum_probs=45.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--e--CCeec--CCCCcccccccCCCCeEEEEeccC
Q 023989 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--H--NGKVL--KDETTLADNKVSEDGFLVVMLSKS 77 (274)
Q Consensus 12 ~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~--~GK~L--~D~~tL~d~~I~~~~~I~v~v~k~ 77 (274)
-+.+.|+...++..+|+.|++..+ ++.+..||. | +|..+ .++.+|.. .-++++|.+-+-++
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~---V~~~HFKi~R~~~~N~~~~S~~~NetLs~--~~~~~~iTI~LG~~ 944 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLE---VDKDHFKIVRHASDNGSEASFMDNETLSG--AFQSCFITIKLGAP 944 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhC---cChhHeEEEEEecCCcchhhhccchhhhh--hcccceEEEEecCc
Confidence 467899999999999999999999 899999986 2 33333 45566665 45667777666543
No 271
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=23.85 E-value=93 Score=25.28 Aligned_cols=62 Identities=23% Similarity=0.270 Sum_probs=36.2
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-CC---CeEEEe-----------------CCee-cCCCCcccccccCCCC
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYP-CG---QQLLIH-----------------NGKV-LKDETTLADNKVSEDG 68 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p-~~---~qkLI~-----------------~GK~-L~D~~tL~d~~I~~~~ 68 (274)
..+.|-.-.+.|+.+|-..|.+..-. .+ .+ ..++|| .|+. .+|++||.+++..-||
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~~~--~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGD 114 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVNPP--ARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGD 114 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH-HH--HHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-
T ss_pred CeeEEEEcccCCHHHHHHHHHHhCcc--cCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCC
Confidence 35667777899999998888874210 00 00 234555 2222 2678999999999999
Q ss_pred eEEEEe
Q 023989 69 FLVVML 74 (274)
Q Consensus 69 ~I~v~v 74 (274)
.|.|-+
T Consensus 115 yidvaI 120 (120)
T PF06487_consen 115 YIDVAI 120 (120)
T ss_dssp EEEEEE
T ss_pred EEEEeC
Confidence 998754
No 272
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=23.66 E-value=2.2e+02 Score=22.49 Aligned_cols=58 Identities=10% Similarity=0.035 Sum_probs=44.0
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCC-cccccccCCCCeEEEEecc
Q 023989 18 QPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDET-TLADNKVSEDGFLVVMLSK 76 (274)
Q Consensus 18 ~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~-tL~d~~I~~~~~I~v~v~k 76 (274)
..-.|+.++-+.+.++.+...+.+=....|+.|+.|.+.. .|-.+++..+ ++.+-++-
T Consensus 28 ~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~ll~~~~~~L~H~~~~~~-~l~l~vrs 86 (104)
T PF14807_consen 28 SSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQLLNSSPVCLLHCRVNAG-TLDLWVRS 86 (104)
T ss_pred cCcCCHHHHHHHHHHhcCceEEEEeCccceeeeeccCCCCeEEEEEEecCC-eEEEEEEc
Confidence 4668889988888888774323444558899999998877 8999999877 77777654
No 273
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=23.43 E-value=1.7e+02 Score=26.21 Aligned_cols=52 Identities=23% Similarity=0.416 Sum_probs=32.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHH----HhCCCCCCCCCeEEEeCCeecC
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIED----VQGKDNYPCGQQLLIHNGKVLK 54 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~----~~g~~~~p~~~qkLI~~GK~L~ 54 (274)
+|+|+ ++|+.+.+++++..|+.++-..-.. +.||+.-....-.++.+|+...
T Consensus 51 ~i~~~-VNG~~~~~~v~~~~tLLd~LR~~l~ltGtK~GC~~G~CGACTVlVdG~~v~ 106 (217)
T PRK11433 51 PVTLK-VNGKTEQLEVDTRTTLLDALREHLHLTGTKKGCDHGQCGACTVLVNGRRLN 106 (217)
T ss_pred eEEEE-ECCEEEEEecCCCCcHHHHHHHhcCCCCCCCCCCCCCcCceEEEECCEEee
Confidence 46666 7899999999999998876554222 2333322333445666666543
No 274
>PF11148 DUF2922: Protein of unknown function (DUF2922); InterPro: IPR021321 This bacterial family of proteins has no known function.
Probab=22.91 E-value=2.8e+02 Score=19.71 Aligned_cols=34 Identities=26% Similarity=0.355 Sum_probs=26.3
Q ss_pred EEEEEeCCCcEEEEEeC---CCCCHHHHHHHHHHHhC
Q 023989 2 KLTVKTLKGSHFEIRVQ---PSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~---~~~TV~~LK~kI~~~~g 35 (274)
++.|++..|+.+.|.++ .+.|-.++|........
T Consensus 4 ~l~F~~~~gk~~ti~i~~pk~~lt~~~V~~~m~~ii~ 40 (69)
T PF11148_consen 4 ELVFKTEDGKTFTISIPNPKEDLTEAEVKAAMQAIIA 40 (69)
T ss_pred EEEEEcCCCCEEEEEcCCCCCCCCHHHHHHHHHHHHH
Confidence 67899999999998775 56777777777666654
No 275
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=22.65 E-value=2.1e+02 Score=19.84 Aligned_cols=45 Identities=20% Similarity=0.309 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCCeEEEE
Q 023989 20 SDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVM 73 (274)
Q Consensus 20 ~~TV~~LK~kI~~~~g~~~~p~~~qkLI~--~GK~L~D~~tL~d~~I~~~~~I~v~ 73 (274)
..|...|.+.|.++.+ ++-. .|-+| .|+.+.+ |++ |++|...++.
T Consensus 8 ~~s~e~lL~~it~~v~---l~~g-Vr~lyt~~G~~V~~---l~~--l~dg~~yVa~ 54 (60)
T PF03607_consen 8 FRSFEQLLDEITEKVQ---LPSG-VRKLYTLDGKRVKS---LDE--LEDGGSYVAS 54 (60)
T ss_dssp HSSHHHHHHHHHHSSS---STTS--SEEEETTSSEESS---GGG--S-TTEEEEEE
T ss_pred hcCHHHHHHHHHhhcC---CCcc-cceEECCCCCEeCC---HHH--HCCCCEEEEE
Confidence 3578899999999887 6655 65555 6776644 444 6677666555
No 276
>PF10346 Con-6: Conidiation protein 6; InterPro: IPR018824 This entry represents a conserved region found in fungal conidiation-specific protein 6 []. This protein is expressed approximately 6 hours after the induction of development and is induced just prior to major constriction-chain growth [].
Probab=22.60 E-value=67 Score=20.65 Aligned_cols=17 Identities=35% Similarity=0.565 Sum_probs=14.6
Q ss_pred CHHHHHHHHHHhcCCHH
Q 023989 169 DKETVTRALQAAYNNPE 185 (274)
Q Consensus 169 ~r~qv~~ALrAafnNpd 185 (274)
+...|.+-|+|+-+||.
T Consensus 2 ~~~~V~~G~KAal~NPn 18 (36)
T PF10346_consen 2 DPNNVAGGYKAALHNPN 18 (36)
T ss_pred cHHHHHHHHHHHhcCCC
Confidence 45789999999999994
No 277
>PF07022 Phage_CI_repr: Bacteriophage CI repressor helix-turn-helix domain; InterPro: IPR010744 This family consists of several phage CI repressor proteins and related bacterial sequences. The CI repressor is known to function as a transcriptional switch, determining whether transcription is lytic or lysogenic [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2FJR_B.
Probab=22.53 E-value=1e+02 Score=21.76 Aligned_cols=35 Identities=17% Similarity=0.259 Sum_probs=17.6
Q ss_pred HHHHH-HHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 154 EQTIQ-QIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 154 e~~i~-~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
..+|. +.. .+|+++.+.+++.-+. + .--+|||++|
T Consensus 26 ~st~s~~~~--~r~~~P~~~l~~ia~~-~---gvsl~WLltG 61 (66)
T PF07022_consen 26 KSTLSNNWK--KRGSIPAEWLIKIALE-T---GVSLDWLLTG 61 (66)
T ss_dssp HHHHH-HHH--HSSS--HHHHHHHHHH-H------HHHHHC-
T ss_pred HHHhhHHHH--hCCCCCHHHHHHHHHH-H---CcCHHHHHhC
Confidence 34566 333 3567787777663332 2 2448999999
No 278
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.32 E-value=95 Score=28.10 Aligned_cols=36 Identities=19% Similarity=0.272 Sum_probs=28.2
Q ss_pred CCCchHHHHHHHHHcCCCCC-CHHHHHHHHHHhcCCHHHHHHHH
Q 023989 149 AGNDLEQTIQQIMDMGGGTW-DKETVTRALQAAYNNPERAVDYL 191 (274)
Q Consensus 149 ~g~~~e~~i~~i~eMG~~~f-~r~qv~~ALrAafnNpdrAvEyL 191 (274)
.|++-+..|++|.+-+ | -++.|++|||| .||.-=|+
T Consensus 6 ~gs~n~~LId~L~~~~---~Ir~~~v~~A~~a----~dR~dy~p 42 (237)
T KOG1661|consen 6 SGSDNDDLIDNLRENK---IIRTRRVEQAMRA----TDRSDYAP 42 (237)
T ss_pred cCcchHHHHHHHHhcc---hhHHHHHHHHHHh----hchhhccc
Confidence 4677899999999999 7 67779999998 56654333
No 279
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=22.01 E-value=78 Score=31.62 Aligned_cols=28 Identities=25% Similarity=0.401 Sum_probs=25.9
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHHcCCCC
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLYSGIPE 197 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~~GIP~ 197 (274)
|+|+-+..||...-+|..+|.+|| ||+-
T Consensus 417 ~Er~~I~~aL~~~~g~~~~aA~~L--Gi~R 444 (464)
T COG2204 417 VERQLILQALERTGGNKSEAAERL--GISR 444 (464)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH--CCCH
Confidence 889999999999999999999999 7763
No 280
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=21.96 E-value=2.2e+02 Score=22.51 Aligned_cols=57 Identities=16% Similarity=0.184 Sum_probs=36.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEEEeCC--------eecCCCCccccc
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLLIHNG--------KVLKDETTLADN 62 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~---~~qkLI~~G--------K~L~D~~tL~d~ 62 (274)
|+|-.-+|++..|.|..-.+-.++|.++-+++| +.. ...-.+..| +.|.|...+.=|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg---~~~~~~~~~~~v~d~~~~~~~~~~~LsD~EL~~IC 70 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFG---LPEHPRNYCFYVLDGESPDPSNCRPLSDVELVTIC 70 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHT---SS--CCCEEEEEE-S-----SSEEEE-SSHHHHHH
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcC---CccccccceEEEecccccccccceECcHHHHHHHH
Confidence 566667899999999999999999999999999 433 233445555 455665555444
No 281
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=21.67 E-value=73 Score=30.33 Aligned_cols=48 Identities=21% Similarity=0.147 Sum_probs=39.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 023989 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (274)
Q Consensus 14 ~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI~~GK~L~D~~tL~d~ 62 (274)
.|.++...||..||+.+..+.+. .-...++-++|++..|.+..||.+.
T Consensus 167 fvrcsa~~Tv~hlkkfl~~k~~~-~~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 167 FLRCSAAATVNHLKKFLRKKMDN-LSNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred eEeccHHHHHHHHHHHHHHHhcc-ccchhhheeecCCccccchhhhhhh
Confidence 46778899999999999999872 1345567889999999999999865
No 282
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=21.19 E-value=1.8e+02 Score=19.50 Aligned_cols=25 Identities=28% Similarity=0.262 Sum_probs=21.6
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 168 WDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 168 f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
.++.-+.|=|||--+|.++|++-|.
T Consensus 29 ~~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 29 HDDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp -SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CCHHHHHHHHHHccCCHHHHHHHHH
Confidence 7899999999999999999999875
No 283
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=21.03 E-value=2.2e+02 Score=21.57 Aligned_cols=33 Identities=12% Similarity=0.139 Sum_probs=29.3
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkL 46 (274)
..+.+.|+...+=.++|+.|+..+| +.+...+.
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~---VkV~~VnT 54 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFD---VKVEKVNT 54 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 5899999999999999999999999 77777654
No 284
>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=21.02 E-value=4.9e+02 Score=21.61 Aligned_cols=33 Identities=21% Similarity=0.370 Sum_probs=25.9
Q ss_pred CCCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHH
Q 023989 149 AGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPE 185 (274)
Q Consensus 149 ~g~~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpd 185 (274)
..+.|.... .|+.|| .++..|+.-|++---+|+
T Consensus 112 ~dP~y~kYf-KMl~~G---vP~~aVk~KM~~eGlDp~ 144 (148)
T PF10152_consen 112 DDPRYAKYF-KMLKMG---VPREAVKQKMQAEGLDPS 144 (148)
T ss_pred CCccHHHHH-HHHHcC---CCHHHHHHHHHHcCCCHH
Confidence 455665554 567999 999999999999877775
No 285
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=20.95 E-value=1.2e+02 Score=24.51 Aligned_cols=21 Identities=19% Similarity=0.233 Sum_probs=17.0
Q ss_pred EEeCCCCCHHHHHHHHHHHhC
Q 023989 15 IRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 15 ieV~~~~TV~~LK~kI~~~~g 35 (274)
++|+.+.|+++|-+.|++++|
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~ 57 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYG 57 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS
T ss_pred EEEcCCCCHHHHHHHHHHHhC
Confidence 566678999999999999998
No 286
>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=20.83 E-value=2.1e+02 Score=22.01 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=34.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE
Q 023989 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL 45 (274)
Q Consensus 2 ~I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qk 45 (274)
.|.|--.+|..+.|+|..+++..+|=+.+..+.| ++.+..+
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 4666667899999999999999999999999999 7766543
No 287
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=20.68 E-value=1.3e+02 Score=20.54 Aligned_cols=36 Identities=22% Similarity=0.276 Sum_probs=26.0
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHHH
Q 023989 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (274)
Q Consensus 154 e~~i~~i~eM-G~~~f~r~qv~~ALrAafnNpdrAvEyL~ 192 (274)
+++|..+... | -..+-+.++|.-+..|.+||+.-..
T Consensus 1 q~mv~~~s~~Tg---mn~~~s~~CL~~n~Wd~~~A~~~F~ 37 (51)
T PF03943_consen 1 QEMVQQFSQQTG---MNLEWSQKCLEENNWDYERALQNFE 37 (51)
T ss_dssp HHHHHHHHHHCS---S-CCHHHHHHHHTTT-CCHHHHHHH
T ss_pred CHHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 3567777765 5 6667788999999999999997643
No 288
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=20.63 E-value=99 Score=31.96 Aligned_cols=37 Identities=19% Similarity=0.283 Sum_probs=26.7
Q ss_pred CEEEEEeCCCcEEEEE--eCC-------CCCHHHHHHHHHHHhCCC
Q 023989 1 MKLTVKTLKGSHFEIR--VQP-------SDTVMAVKKNIEDVQGKD 37 (274)
Q Consensus 1 M~I~VKtl~g~~~~ie--V~~-------~~TV~~LK~kI~~~~g~~ 37 (274)
++|+|+..+|++..+. .++ -.|+.+||.+|+++.|.+
T Consensus 249 ~~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~ 294 (603)
T PRK05841 249 LNITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLD 294 (603)
T ss_pred EEEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhccccc
Confidence 3688888878765443 331 258999999999998843
No 289
>KOG3751 consensus Growth factor receptor-bound proteins (GRB7, GRB10, GRB14) [Signal transduction mechanisms]
Probab=20.63 E-value=1.9e+02 Score=29.54 Aligned_cols=74 Identities=15% Similarity=0.088 Sum_probs=50.9
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eC----CeecCCCCc----ccccccCCCCeEEE
Q 023989 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HN----GKVLKDETT----LADNKVSEDGFLVV 72 (274)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~~LK~kI~~~~g~~~~p~~~qkLI--~~----GK~L~D~~t----L~d~~I~~~~~I~v 72 (274)
|+|-+-+|....|+|+...|+.++-+.+.++..|+ .-+...|+ |. -+.++|... |....+..++.|++
T Consensus 191 VKvfseDgasksL~Vder~tardV~~lL~eKnH~~--~d~~W~LvEh~P~L~iER~fEDHElVVEvls~W~~dseNK~lF 268 (622)
T KOG3751|consen 191 VKVFSEDGASKSLLVDERMTARDVCQLLAEKNHCA--DDEDWCLVEHYPHLQIERVFEDHELVVEVLSMWTQDSENKLLF 268 (622)
T ss_pred EEEEccCCceeeEeecccccHHHHHHHHHHhhhhh--cccceeeeeecchhhhhhhhhhHHHHHHHHhhcccCCCceeEE
Confidence 33445578889999999999999999999998852 22334442 22 256788654 34446777888888
Q ss_pred EeccCC
Q 023989 73 MLSKSK 78 (274)
Q Consensus 73 ~v~k~k 78 (274)
+.+-.|
T Consensus 269 ~k~~~K 274 (622)
T KOG3751|consen 269 RKNPAK 274 (622)
T ss_pred eecchh
Confidence 765444
No 290
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=20.61 E-value=1.5e+02 Score=26.79 Aligned_cols=25 Identities=16% Similarity=0.321 Sum_probs=21.2
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhC
Q 023989 11 SHFEIRVQPSDTVMAVKKNIEDVQG 35 (274)
Q Consensus 11 ~~~~ieV~~~~TV~~LK~kI~~~~g 35 (274)
+.|.|++++..||.++=.+|.++..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~D 48 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQD 48 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcCC
Confidence 4588889999999999999998643
No 291
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=20.56 E-value=2.1e+02 Score=26.96 Aligned_cols=42 Identities=21% Similarity=0.169 Sum_probs=31.5
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcC
Q 023989 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSG 194 (274)
Q Consensus 152 ~~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~G 194 (274)
..++.++-|.+-+++ .+.+++..+++.+.++|.+|++|+-.|
T Consensus 166 ~~~~~~~~L~~~~~~-~~~~~~~~~l~la~Gsp~~A~~l~~~~ 207 (328)
T PRK05707 166 SNEESLQWLQQALPE-SDERERIELLTLAGGSPLRALQLHEQG 207 (328)
T ss_pred CHHHHHHHHHHhccc-CChHHHHHHHHHcCCCHHHHHHHHCcc
Confidence 345666666664211 788888999999999999999997654
No 292
>PRK03430 hypothetical protein; Validated
Probab=20.53 E-value=1.2e+02 Score=25.75 Aligned_cols=25 Identities=24% Similarity=0.432 Sum_probs=21.7
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 023989 151 NDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (274)
Q Consensus 151 ~~~e~~i~~i~eMG~~~f~r~qv~~ALr 178 (274)
.+.++....|.+-| |+++++.+||.
T Consensus 21 pd~~~L~~~L~~aG---F~~~eI~~AL~ 45 (157)
T PRK03430 21 VDQDKLEDDLTDAG---FHREDIYNALL 45 (157)
T ss_pred CCHHHHHHHHHHcC---CCHHHHHHHHH
Confidence 45688999999999 99999988865
No 293
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=20.42 E-value=1.3e+02 Score=29.49 Aligned_cols=32 Identities=16% Similarity=0.193 Sum_probs=26.4
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHHHcCCCCc
Q 023989 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYSGIPET 198 (274)
Q Consensus 153 ~e~~i~~i~eMG~~~f~r~qv~~ALrAafnNpdrAvEyL~~GIP~~ 198 (274)
+=..+.+|++|| ++.+|.+.||.. .|.|||..
T Consensus 436 h~~~~aN~Cn~g---~~~e~~~~A~~~-----------aC~~~~~~ 467 (477)
T KOG1348|consen 436 HMRVLANMCNKG---VPLEQIELAMDQ-----------ACLGIYTE 467 (477)
T ss_pred HHHHHHHHHhcC---ccHHHHHHHHHh-----------HhcCCccc
Confidence 345789999999 999999988765 68898875
Done!