Query 015941
Match_columns 398
No_of_seqs 305 out of 1476
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:20:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015941.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015941hhsearch_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 1.4E-88 2.9E-93 683.2 39.3 359 1-395 1-378 (378)
2 KOG0011 Nucleotide excision re 100.0 1.8E-88 3.9E-93 654.5 32.2 335 1-396 1-340 (340)
3 cd01807 GDX_N ubiquitin-like d 99.8 1.7E-18 3.6E-23 136.5 9.0 73 1-76 1-73 (74)
4 cd01805 RAD23_N Ubiquitin-like 99.7 7.4E-18 1.6E-22 133.2 9.7 75 1-78 1-77 (77)
5 cd01797 NIRF_N amino-terminal 99.7 8.2E-18 1.8E-22 134.4 8.9 74 1-77 1-76 (78)
6 cd01793 Fubi Fubi ubiquitin-li 99.7 1.9E-17 4.2E-22 130.5 9.0 73 1-78 1-73 (74)
7 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 1.7E-17 3.7E-22 131.0 8.2 71 1-74 2-72 (73)
8 PTZ00044 ubiquitin; Provisiona 99.7 2.8E-17 6.1E-22 129.7 9.3 75 1-78 1-75 (76)
9 cd01802 AN1_N ubiquitin-like d 99.7 4.3E-17 9.4E-22 137.0 9.2 75 1-78 28-102 (103)
10 cd01804 midnolin_N Ubiquitin-l 99.7 5.5E-17 1.2E-21 129.5 8.6 73 1-77 2-74 (78)
11 KOG0010 Ubiquitin-like protein 99.7 1.7E-16 3.6E-21 161.9 13.1 75 1-79 16-90 (493)
12 cd01806 Nedd8 Nebb8-like ubiq 99.7 1.4E-16 3E-21 125.1 9.8 75 1-78 1-75 (76)
13 cd01810 ISG15_repeat2 ISG15 ub 99.7 9.4E-17 2E-21 126.6 8.4 73 3-78 1-73 (74)
14 cd01803 Ubiquitin Ubiquitin. U 99.7 1.5E-16 3.4E-21 124.8 9.2 75 1-78 1-75 (76)
15 cd01792 ISG15_repeat1 ISG15 ub 99.7 8.6E-17 1.9E-21 128.8 7.9 74 1-77 3-78 (80)
16 PF09280 XPC-binding: XPC-bind 99.7 3.7E-17 8.1E-22 123.6 5.3 54 277-330 1-58 (59)
17 cd01798 parkin_N amino-termina 99.7 1.5E-16 3.3E-21 124.0 7.7 70 3-75 1-70 (70)
18 cd01794 DC_UbP_C dendritic cel 99.7 1.5E-16 3.3E-21 124.6 7.5 70 3-75 1-70 (70)
19 cd01809 Scythe_N Ubiquitin-lik 99.7 2.9E-16 6.3E-21 122.0 9.0 72 1-75 1-72 (72)
20 cd01790 Herp_N Homocysteine-re 99.7 3E-16 6.5E-21 125.4 7.8 73 1-74 2-78 (79)
21 cd01808 hPLIC_N Ubiquitin-like 99.7 4.3E-16 9.2E-21 121.8 8.4 71 1-75 1-71 (71)
22 PF00240 ubiquitin: Ubiquitin 99.6 5.9E-16 1.3E-20 119.7 8.0 69 6-77 1-69 (69)
23 cd01813 UBP_N UBP ubiquitin pr 99.6 1.5E-15 3.2E-20 120.2 7.8 70 1-74 1-73 (74)
24 cd01796 DDI1_N DNA damage indu 99.6 2.4E-15 5.2E-20 117.9 7.3 68 3-73 1-70 (71)
25 cd01812 BAG1_N Ubiquitin-like 99.6 9.5E-15 2.1E-19 113.4 8.0 70 1-74 1-70 (71)
26 KOG0005 Ubiquitin-like protein 99.6 3.7E-15 7.9E-20 111.1 4.7 70 1-73 1-70 (70)
27 cd01800 SF3a120_C Ubiquitin-li 99.5 1.4E-14 3.1E-19 114.9 8.0 68 8-78 5-72 (76)
28 KOG0003 Ubiquitin/60s ribosoma 99.5 5.9E-15 1.3E-19 122.3 0.2 77 1-80 1-77 (128)
29 KOG0004 Ubiquitin/40S ribosoma 99.5 6.1E-14 1.3E-18 123.8 5.3 80 1-83 1-80 (156)
30 cd01763 Sumo Small ubiquitin-r 99.5 4.3E-13 9.4E-18 109.2 9.6 75 1-78 12-86 (87)
31 smart00213 UBQ Ubiquitin homol 99.4 2.5E-13 5.4E-18 102.4 7.5 64 1-68 1-64 (64)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 2.6E-13 5.7E-18 107.3 5.3 59 16-74 15-74 (75)
33 cd01814 NTGP5 Ubiquitin-like N 99.3 3.9E-12 8.4E-17 107.4 6.6 77 2-78 6-93 (113)
34 cd01769 UBL Ubiquitin-like dom 99.3 1.2E-11 2.6E-16 94.5 7.6 68 4-74 1-68 (69)
35 cd01799 Hoil1_N Ubiquitin-like 99.3 1.5E-11 3.3E-16 97.6 7.2 65 6-74 8-74 (75)
36 PF11976 Rad60-SLD: Ubiquitin- 99.2 7.7E-11 1.7E-15 91.9 7.9 71 1-74 1-72 (72)
37 cd01795 USP48_C USP ubiquitin- 99.0 7.7E-10 1.7E-14 91.3 6.8 62 12-76 16-78 (107)
38 PF00627 UBA: UBA/TS-N domain; 98.9 1.3E-09 2.7E-14 74.9 4.9 36 172-210 2-37 (37)
39 KOG0001 Ubiquitin and ubiquiti 98.9 1.2E-08 2.5E-13 77.4 9.3 72 3-77 2-73 (75)
40 PF13881 Rad60-SLD_2: Ubiquiti 98.9 1.3E-08 2.7E-13 86.8 10.0 75 2-76 4-89 (111)
41 KOG4248 Ubiquitin-like protein 98.9 3.1E-09 6.6E-14 116.5 6.7 70 2-75 4-73 (1143)
42 cd01789 Alp11_N Ubiquitin-like 98.8 1.6E-08 3.5E-13 81.9 9.0 71 2-75 3-81 (84)
43 PLN02560 enoyl-CoA reductase 98.8 1.6E-08 3.5E-13 100.4 8.3 71 1-73 1-81 (308)
44 PF00627 UBA: UBA/TS-N domain; 98.8 1.3E-08 2.9E-13 69.8 5.0 36 354-389 2-37 (37)
45 cd01788 ElonginB Ubiquitin-lik 98.7 2.7E-08 5.9E-13 84.0 7.4 73 1-76 1-81 (119)
46 cd00194 UBA Ubiquitin Associat 98.7 1.7E-08 3.8E-13 69.2 5.2 37 355-391 2-38 (38)
47 cd00194 UBA Ubiquitin Associat 98.7 2.3E-08 5.1E-13 68.6 5.0 37 173-212 2-38 (38)
48 smart00165 UBA Ubiquitin assoc 98.7 2.2E-08 4.8E-13 68.4 4.5 36 355-390 2-37 (37)
49 smart00165 UBA Ubiquitin assoc 98.7 3.3E-08 7.1E-13 67.5 4.6 37 172-211 1-37 (37)
50 cd01801 Tsc13_N Ubiquitin-like 98.6 8E-08 1.7E-12 76.4 6.8 69 2-72 2-74 (77)
51 PF14560 Ubiquitin_2: Ubiquiti 98.6 1.4E-07 3E-12 76.6 8.0 72 2-76 3-84 (87)
52 cd00196 UBQ Ubiquitin-like pro 98.4 1.4E-06 3.1E-11 62.3 7.5 67 5-74 2-68 (69)
53 PF11543 UN_NPL4: Nuclear pore 98.4 6.6E-07 1.4E-11 72.0 5.6 69 1-73 5-78 (80)
54 cd01811 OASL_repeat1 2'-5' oli 98.2 6.1E-06 1.3E-10 64.8 8.1 72 1-76 1-77 (80)
55 KOG0006 E3 ubiquitin-protein l 98.2 2.6E-06 5.6E-11 83.5 6.1 74 1-77 1-77 (446)
56 KOG1872 Ubiquitin-specific pro 98.1 5.5E-06 1.2E-10 85.1 7.7 71 3-77 6-77 (473)
57 KOG3493 Ubiquitin-like protein 97.7 1.4E-05 3.1E-10 61.0 1.9 69 2-73 3-71 (73)
58 KOG4495 RNA polymerase II tran 97.6 9.1E-05 2E-09 60.9 4.3 62 1-65 1-65 (110)
59 KOG2561 Adaptor protein NUB1, 97.6 0.0012 2.6E-08 67.9 13.1 58 15-75 54-111 (568)
60 KOG1769 Ubiquitin-like protein 97.5 0.00087 1.9E-08 55.7 9.2 72 2-76 22-93 (99)
61 TIGR00601 rad23 UV excision re 97.5 0.00015 3.2E-09 74.2 5.6 42 353-394 155-196 (378)
62 PF10302 DUF2407: DUF2407 ubiq 97.4 0.00046 1E-08 57.5 6.1 60 2-62 2-64 (97)
63 COG5417 Uncharacterized small 97.2 0.0014 3E-08 51.7 7.2 72 1-72 5-80 (81)
64 PF08817 YukD: WXG100 protein 97.2 0.00087 1.9E-08 53.4 5.6 71 2-72 4-78 (79)
65 PF00789 UBX: UBX domain; Int 97.1 0.0035 7.7E-08 49.8 8.6 69 2-73 8-81 (82)
66 KOG0010 Ubiquitin-like protein 97.0 0.0024 5.1E-08 66.5 8.6 99 289-391 372-492 (493)
67 KOG4583 Membrane-associated ER 97.0 8.8E-05 1.9E-09 73.4 -2.0 78 2-80 11-92 (391)
68 smart00166 UBX Domain present 97.0 0.0046 1E-07 49.2 8.1 68 2-72 6-78 (80)
69 cd01767 UBX UBX (ubiquitin reg 96.9 0.0076 1.6E-07 47.6 8.5 67 2-73 4-75 (77)
70 cd01770 p47_UBX p47-like ubiqu 96.8 0.0076 1.7E-07 48.3 8.2 65 2-68 6-73 (79)
71 PF02845 CUE: CUE domain; Int 96.8 0.002 4.3E-08 45.3 4.2 39 172-213 1-41 (42)
72 KOG0013 Uncharacterized conser 96.8 0.0028 6E-08 59.4 5.9 65 9-76 155-221 (231)
73 KOG1639 Steroid reductase requ 96.7 0.0033 7.1E-08 60.3 6.0 70 1-72 1-76 (297)
74 cd01772 SAKS1_UBX SAKS1-like U 96.7 0.012 2.6E-07 47.0 8.3 67 2-72 6-77 (79)
75 smart00727 STI1 Heat shock cha 96.5 0.0047 1E-07 42.9 4.3 35 280-314 7-41 (41)
76 KOG0944 Ubiquitin-specific pro 96.4 0.0018 3.9E-08 69.4 2.8 43 170-215 633-675 (763)
77 PF14555 UBA_4: UBA-like domai 96.4 0.0073 1.6E-07 42.6 5.0 40 356-395 2-42 (43)
78 cd01773 Faf1_like1_UBX Faf1 ik 96.4 0.025 5.4E-07 45.8 8.5 69 2-74 7-80 (82)
79 COG5207 UBP14 Isopeptidase T [ 96.2 0.0056 1.2E-07 64.0 5.0 43 355-397 559-602 (749)
80 PF11470 TUG-UBL1: GLUT4 regul 96.2 0.018 3.8E-07 44.6 6.4 63 7-72 3-65 (65)
81 PF13019 Telomere_Sde2: Telome 96.1 0.037 8E-07 50.2 9.1 77 1-80 1-89 (162)
82 KOG0418 Ubiquitin-protein liga 96.1 0.007 1.5E-07 55.7 4.4 48 163-213 153-200 (200)
83 KOG0944 Ubiquitin-specific pro 96.0 0.0087 1.9E-07 64.4 5.0 45 353-397 570-615 (763)
84 KOG0011 Nucleotide excision re 96.0 0.0099 2.1E-07 59.2 5.0 42 355-396 136-177 (340)
85 KOG0418 Ubiquitin-protein liga 95.9 0.01 2.2E-07 54.6 4.4 45 348-392 156-200 (200)
86 PF02845 CUE: CUE domain; Int 95.8 0.019 4.2E-07 40.2 4.5 37 356-392 3-41 (42)
87 cd01774 Faf1_like2_UBX Faf1 ik 95.8 0.065 1.4E-06 43.5 8.2 68 2-73 6-83 (85)
88 cd01771 Faf1_UBX Faf1 UBX doma 95.7 0.07 1.5E-06 42.8 8.2 68 2-73 6-78 (80)
89 smart00546 CUE Domain that may 95.4 0.039 8.4E-07 38.8 5.0 39 172-213 2-42 (43)
90 COG5227 SMT3 Ubiquitin-like pr 95.3 0.064 1.4E-06 44.0 6.5 69 3-74 27-95 (103)
91 KOG3206 Alpha-tubulin folding 95.1 0.056 1.2E-06 50.7 6.6 70 2-74 3-80 (234)
92 smart00546 CUE Domain that may 94.5 0.1 2.2E-06 36.6 5.1 37 356-392 4-42 (43)
93 PF15044 CLU_N: Mitochondrial 94.3 0.066 1.4E-06 42.6 4.2 56 17-74 1-57 (76)
94 PF14453 ThiS-like: ThiS-like 93.6 0.22 4.7E-06 37.6 5.6 55 1-74 1-55 (57)
95 PF09288 UBA_3: Fungal ubiquit 93.1 0.1 2.2E-06 39.0 3.1 23 173-198 10-32 (55)
96 PF09288 UBA_3: Fungal ubiquit 93.1 0.068 1.5E-06 39.9 2.1 37 355-391 10-51 (55)
97 KOG0012 DNA damage inducible p 92.8 0.15 3.2E-06 51.6 4.8 70 1-73 1-74 (380)
98 PF11626 Rap1_C: TRF2-interact 92.8 0.18 4E-06 40.9 4.5 36 176-214 1-36 (87)
99 PRK06437 hypothetical protein; 92.4 0.91 2E-05 35.1 7.8 59 4-74 4-62 (67)
100 PF11626 Rap1_C: TRF2-interact 91.8 0.22 4.7E-06 40.5 3.9 35 358-392 1-35 (87)
101 PF07499 RuvA_C: RuvA, C-termi 91.6 0.28 6E-06 35.3 3.8 37 172-211 3-39 (47)
102 cd00754 MoaD Ubiquitin domain 91.1 1 2.3E-05 35.0 7.0 57 12-73 17-74 (80)
103 PLN02799 Molybdopterin synthas 91.1 0.83 1.8E-05 36.2 6.5 66 1-73 2-76 (82)
104 PF09379 FERM_N: FERM N-termin 90.9 1.3 2.8E-05 34.6 7.3 67 5-73 1-73 (80)
105 PF09280 XPC-binding: XPC-bind 90.7 0.21 4.5E-06 38.0 2.4 38 279-316 16-55 (59)
106 PF06972 DUF1296: Protein of u 89.4 0.99 2.1E-05 34.3 5.1 40 172-212 5-44 (60)
107 PRK06488 sulfur carrier protei 88.7 1.9 4.1E-05 32.8 6.5 60 1-74 1-60 (65)
108 PRK08364 sulfur carrier protei 88.5 3.2 6.9E-05 32.2 7.7 50 12-73 15-64 (70)
109 PF12754 Blt1: Cell-cycle cont 88.2 0.15 3.2E-06 50.8 0.0 59 2-63 80-158 (309)
110 cd06406 PB1_P67 A PB1 domain i 88.1 2 4.4E-05 34.6 6.5 36 12-50 12-47 (80)
111 cd06409 PB1_MUG70 The MUG70 pr 85.9 2.9 6.4E-05 34.1 6.4 74 2-75 2-84 (86)
112 KOG2561 Adaptor protein NUB1, 85.6 0.91 2E-05 47.4 4.0 41 173-216 430-470 (568)
113 PF14836 Ubiquitin_3: Ubiquiti 84.6 4.4 9.5E-05 33.3 6.8 62 11-76 14-81 (88)
114 PF11547 E3_UbLigase_EDD: E3 u 83.9 2.2 4.7E-05 31.1 4.2 39 352-392 9-49 (53)
115 smart00295 B41 Band 4.1 homolo 83.4 9.5 0.00021 34.6 9.5 61 2-65 5-72 (207)
116 PF14555 UBA_4: UBA-like domai 83.2 3.2 6.9E-05 29.1 4.8 36 173-211 1-37 (43)
117 TIGR01682 moaD molybdopterin c 82.7 7 0.00015 30.7 7.3 58 9-73 13-74 (80)
118 PF02597 ThiS: ThiS family; I 82.7 3.8 8.2E-05 31.5 5.6 60 12-74 13-72 (77)
119 PF10790 DUF2604: Protein of U 82.3 6.1 0.00013 30.6 6.3 67 9-75 4-71 (76)
120 PF11620 GABP-alpha: GA-bindin 81.0 4.3 9.2E-05 33.2 5.3 61 13-76 5-65 (88)
121 cd06407 PB1_NLP A PB1 domain i 80.8 9 0.00019 30.9 7.3 70 1-74 1-80 (82)
122 KOG2086 Protein tyrosine phosp 80.2 2.4 5.3E-05 43.4 4.6 65 2-68 307-374 (380)
123 PF11069 DUF2870: Protein of u 80.0 2.3 4.9E-05 35.5 3.6 33 45-77 3-36 (98)
124 smart00666 PB1 PB1 domain. Pho 79.8 8.7 0.00019 30.0 6.8 45 2-50 3-47 (81)
125 PF10209 DUF2340: Uncharacteri 79.8 5.6 0.00012 34.6 6.0 60 16-75 21-108 (122)
126 PF08938 HBS1_N: HBS1 N-termin 78.8 1.1 2.3E-05 35.9 1.2 26 188-213 45-70 (79)
127 TIGR01687 moaD_arch MoaD famil 78.5 14 0.0003 29.4 7.8 59 11-73 16-82 (88)
128 PRK05863 sulfur carrier protei 77.6 7.8 0.00017 29.5 5.7 60 1-74 1-60 (65)
129 COG5207 UBP14 Isopeptidase T [ 76.6 3.4 7.4E-05 43.9 4.5 39 173-214 559-598 (749)
130 cd06408 PB1_NoxR The PB1 domai 75.6 12 0.00026 30.6 6.5 46 2-51 2-48 (86)
131 PF06972 DUF1296: Protein of u 75.0 10 0.00022 28.9 5.5 39 354-392 5-45 (60)
132 PF08938 HBS1_N: HBS1 N-termin 74.6 1.9 4.2E-05 34.3 1.7 45 348-392 18-70 (79)
133 smart00727 STI1 Heat shock cha 74.3 6.9 0.00015 26.8 4.3 30 289-319 4-36 (41)
134 cd01760 RBD Ubiquitin-like dom 74.3 8.5 0.00018 30.3 5.2 52 3-57 2-57 (72)
135 PRK05659 sulfur carrier protei 74.3 16 0.00034 27.5 6.7 61 1-74 1-61 (66)
136 PRK08053 sulfur carrier protei 73.3 20 0.00043 27.3 7.0 61 1-74 1-61 (66)
137 KOG2982 Uncharacterized conser 73.0 5.3 0.00012 40.3 4.7 54 17-73 354-415 (418)
138 PRK06944 sulfur carrier protei 72.4 23 0.00049 26.5 7.2 60 1-74 1-60 (65)
139 cd07922 CarBa CarBa is the A s 72.4 27 0.00058 28.3 7.8 46 301-370 11-61 (81)
140 cd00565 ThiS ThiaminS ubiquiti 72.1 14 0.00031 27.8 6.0 57 8-74 4-60 (65)
141 COG5100 NPL4 Nuclear pore prot 71.6 14 0.0003 38.4 7.2 73 1-75 1-79 (571)
142 smart00455 RBD Raf-like Ras-bi 71.5 15 0.00032 28.7 6.0 49 3-54 2-52 (70)
143 PF14732 UAE_UbL: Ubiquitin/SU 70.8 8.2 0.00018 31.4 4.6 52 19-73 7-67 (87)
144 PF07223 DUF1421: Protein of u 70.2 5 0.00011 41.1 3.9 30 165-197 314-343 (358)
145 PF07499 RuvA_C: RuvA, C-termi 69.7 4 8.6E-05 29.2 2.2 26 355-380 4-29 (47)
146 PRK06083 sulfur carrier protei 69.5 22 0.00048 28.8 6.8 57 8-74 23-79 (84)
147 PF10407 Cytokin_check_N: Cdc1 68.2 17 0.00038 28.8 5.8 63 11-76 3-71 (73)
148 PLN03196 MOC1-like protein; Pr 67.3 45 0.00097 35.6 10.5 42 172-216 196-246 (487)
149 COG2104 ThiS Sulfur transfer p 65.3 33 0.00071 26.7 6.7 63 1-74 1-63 (68)
150 TIGR01683 thiS thiamine biosyn 65.1 23 0.0005 26.6 5.8 57 8-74 3-59 (64)
151 PF00564 PB1: PB1 domain; Int 63.7 23 0.0005 27.6 5.8 43 3-49 4-47 (84)
152 cd05992 PB1 The PB1 domain is 63.4 27 0.00058 27.0 6.1 45 2-50 2-47 (81)
153 PRK07440 hypothetical protein; 63.3 38 0.00082 26.2 6.8 57 8-74 9-65 (70)
154 PRK07696 sulfur carrier protei 63.2 39 0.00084 25.9 6.8 61 1-74 1-62 (67)
155 TIGR02958 sec_mycoba_snm4 secr 62.2 46 0.001 35.2 9.3 73 2-75 4-80 (452)
156 TIGR00264 alpha-NAC-related pr 61.5 15 0.00033 31.6 4.6 39 349-390 76-115 (116)
157 PF02196 RBD: Raf-like Ras-bin 61.2 44 0.00096 26.0 6.9 56 3-61 3-60 (71)
158 PF14533 USP7_C2: Ubiquitin-sp 60.6 34 0.00075 32.2 7.4 48 12-62 35-90 (213)
159 cd01611 GABARAP Ubiquitin doma 60.2 44 0.00096 28.5 7.2 59 15-76 45-107 (112)
160 PF08337 Plexin_cytopl: Plexin 59.7 23 0.00049 38.3 6.6 65 11-76 202-290 (539)
161 smart00144 PI3K_rbd PI3-kinase 59.4 60 0.0013 27.3 7.9 74 3-76 20-105 (108)
162 cd01787 GRB7_RA RA (RAS-associ 58.9 57 0.0012 26.7 7.2 67 3-71 5-81 (85)
163 KOG1364 Predicted ubiquitin re 58.6 9.2 0.0002 38.9 3.2 66 2-69 279-349 (356)
164 PRK12332 tsf elongation factor 57.7 16 0.00035 34.3 4.5 36 174-212 6-42 (198)
165 PF11333 DUF3135: Protein of u 57.2 18 0.0004 29.3 4.2 38 282-321 2-39 (83)
166 KOG4250 TANK binding protein k 57.2 33 0.00072 38.1 7.3 64 9-77 323-388 (732)
167 PF02954 HTH_8: Bacterial regu 56.7 8.8 0.00019 26.6 2.0 24 366-389 5-28 (42)
168 PTZ00380 microtubule-associate 56.4 39 0.00084 29.4 6.3 58 15-75 45-105 (121)
169 PF08587 UBA_2: Ubiquitin asso 56.4 3.7 8.1E-05 29.6 0.0 20 176-198 6-26 (46)
170 KOG2507 Ubiquitin regulatory p 55.9 18 0.00039 37.8 4.8 73 2-77 316-393 (506)
171 TIGR00116 tsf translation elon 55.8 17 0.00037 36.2 4.5 36 174-212 6-42 (290)
172 PRK11840 bifunctional sulfur c 55.7 33 0.00072 34.7 6.6 63 1-76 1-63 (326)
173 PF08825 E2_bind: E2 binding d 55.5 16 0.00034 29.7 3.6 55 15-73 1-69 (84)
174 PF14451 Ub-Mut7C: Mut7-C ubiq 55.2 47 0.001 26.7 6.2 53 10-74 22-75 (81)
175 PRK06369 nac nascent polypepti 54.0 26 0.00056 30.2 4.8 40 349-391 74-114 (115)
176 PF12616 DUF3775: Protein of u 53.8 17 0.00037 28.9 3.4 40 175-215 20-60 (75)
177 PF13556 HTH_30: PucR C-termin 53.3 14 0.00031 27.4 2.8 23 370-392 3-25 (59)
178 PF00794 PI3K_rbd: PI3-kinase 53.3 46 0.001 27.6 6.2 75 2-76 18-103 (106)
179 PF02991 Atg8: Autophagy prote 53.2 45 0.00097 28.2 6.0 56 17-75 39-98 (104)
180 cd01768 RA RA (Ras-associating 52.3 1.1E+02 0.0024 23.9 8.8 66 10-76 12-86 (87)
181 KOG2689 Predicted ubiquitin re 52.1 33 0.00072 33.9 5.7 70 2-72 212-284 (290)
182 KOG3391 Transcriptional co-rep 51.9 15 0.00031 32.7 2.9 63 19-81 60-142 (151)
183 cd06411 PB1_p51 The PB1 domain 51.6 56 0.0012 26.3 6.0 36 11-49 7-42 (78)
184 PRK13901 ruvA Holliday junctio 51.5 21 0.00045 33.6 4.1 29 171-202 143-171 (196)
185 PRK06369 nac nascent polypepti 51.4 32 0.00069 29.7 4.9 38 173-213 77-115 (115)
186 PF15652 Tox-SHH: HNH/Endo VII 51.4 20 0.00044 30.1 3.6 31 168-201 67-97 (100)
187 PF14327 CSTF2_hinge: Hinge do 51.2 17 0.00037 29.3 3.1 30 285-314 34-63 (84)
188 PF00788 RA: Ras association ( 51.2 1E+02 0.0022 24.1 7.7 55 3-58 5-69 (93)
189 PF07462 MSP1_C: Merozoite sur 51.2 31 0.00066 37.2 5.7 9 320-328 416-424 (574)
190 KOG1071 Mitochondrial translat 50.3 26 0.00056 35.4 4.8 39 353-391 45-84 (340)
191 CHL00098 tsf elongation factor 48.5 28 0.0006 32.9 4.5 36 174-212 3-39 (200)
192 PRK09377 tsf elongation factor 48.4 26 0.00057 34.9 4.5 36 174-212 7-43 (290)
193 TIGR00084 ruvA Holliday juncti 47.6 22 0.00047 33.2 3.6 29 171-202 146-174 (191)
194 PRK11130 moaD molybdopterin sy 47.1 1.1E+02 0.0025 23.9 7.3 54 15-73 19-75 (81)
195 cd07321 Extradiol_Dioxygenase_ 46.1 1E+02 0.0022 24.4 6.8 41 305-368 13-58 (77)
196 cd06398 PB1_Joka2 The PB1 doma 45.5 1.1E+02 0.0025 25.0 7.2 65 9-76 8-88 (91)
197 PF12053 DUF3534: Domain of un 44.9 1.1E+02 0.0024 27.4 7.5 74 1-76 1-81 (145)
198 COG5272 UBI4 Ubiquitin [Posttr 44.3 6.8 0.00015 29.1 -0.2 46 349-395 7-52 (57)
199 cd01612 APG12_C Ubiquitin-like 44.3 1.7E+02 0.0037 23.7 8.2 60 14-76 19-82 (87)
200 PRK14602 ruvA Holliday junctio 43.6 28 0.0006 32.8 3.7 27 171-200 154-180 (203)
201 cd01764 Urm1 Urm1-like ubuitin 41.0 50 0.0011 27.1 4.4 54 15-73 23-88 (94)
202 cd06396 PB1_NBR1 The PB1 domai 40.7 1.2E+02 0.0025 24.6 6.3 30 8-40 7-38 (81)
203 cd06410 PB1_UP2 Uncharacterize 40.6 99 0.0021 25.7 6.2 40 5-48 17-56 (97)
204 KOG2689 Predicted ubiquitin re 40.4 42 0.00091 33.2 4.5 35 177-214 5-41 (290)
205 COG1308 EGD2 Transcription fac 40.2 67 0.0015 28.0 5.2 40 349-390 82-121 (122)
206 COG3609 Predicted transcriptio 39.6 39 0.00084 27.5 3.5 31 166-198 7-39 (89)
207 PF12436 USP7_ICP0_bdg: ICP0-b 39.6 40 0.00087 32.6 4.3 70 3-75 71-152 (249)
208 PF07462 MSP1_C: Merozoite sur 38.3 1.2E+02 0.0026 32.8 7.7 19 165-183 351-369 (574)
209 COG0632 RuvA Holliday junction 38.1 36 0.00079 32.1 3.6 35 172-209 156-191 (201)
210 TIGR00264 alpha-NAC-related pr 37.5 66 0.0014 27.8 4.7 36 173-211 79-115 (116)
211 PF08783 DWNN: DWNN domain; I 37.3 85 0.0018 24.9 5.0 33 3-35 1-35 (74)
212 PRK14606 ruvA Holliday junctio 35.7 47 0.001 30.9 3.9 28 171-201 142-169 (188)
213 PF07746 LigA: Aromatic-ring-o 35.5 1.1E+02 0.0024 25.0 5.6 40 301-365 6-50 (88)
214 PRK14604 ruvA Holliday junctio 34.9 44 0.00095 31.3 3.6 28 172-202 149-176 (195)
215 PF02017 CIDE-N: CIDE-N domain 34.9 1E+02 0.0023 24.7 5.2 63 4-75 6-71 (78)
216 PRK08769 DNA polymerase III su 34.9 70 0.0015 32.2 5.2 41 170-213 172-212 (319)
217 PF13936 HTH_38: Helix-turn-he 34.7 25 0.00054 24.6 1.5 26 348-373 3-28 (44)
218 PF02961 BAF: Barrier to autoi 33.0 74 0.0016 26.2 4.1 34 358-391 32-66 (89)
219 PRK14600 ruvA Holliday junctio 32.7 51 0.0011 30.6 3.6 27 171-200 144-170 (186)
220 PRK14603 ruvA Holliday junctio 31.7 60 0.0013 30.4 3.9 27 171-200 151-177 (197)
221 PLN02983 biotin carboxyl carri 31.7 1.5E+02 0.0033 29.3 6.7 29 53-82 115-143 (274)
222 PF06234 TmoB: Toluene-4-monoo 31.5 1.5E+02 0.0033 24.2 5.7 62 13-75 17-84 (85)
223 PRK14601 ruvA Holliday junctio 31.4 55 0.0012 30.4 3.6 26 171-199 141-166 (183)
224 PF14848 HU-DNA_bdg: DNA-bindi 31.2 1.1E+02 0.0023 26.3 5.2 37 172-214 31-69 (124)
225 PF02505 MCR_D: Methyl-coenzym 30.9 90 0.002 28.2 4.7 44 12-62 76-120 (153)
226 PF14551 MCM_N: MCM N-terminal 30.4 20 0.00043 29.7 0.4 43 285-327 18-64 (121)
227 PF02824 TGS: TGS domain; Int 30.2 1.5E+02 0.0033 22.0 5.2 59 3-73 1-59 (60)
228 PF06755 DUF1219: Protein of u 30.1 51 0.0011 28.3 2.8 28 365-392 42-69 (114)
229 PF10440 WIYLD: Ubiquitin-bind 29.8 64 0.0014 25.1 3.1 21 355-375 12-32 (65)
230 TIGR03260 met_CoM_red_D methyl 29.2 97 0.0021 27.9 4.5 43 13-62 76-118 (150)
231 KOG3439 Protein conjugation fa 29.2 1.5E+02 0.0032 25.5 5.4 39 12-53 46-84 (116)
232 COG0089 RplW Ribosomal protein 28.5 2.2E+02 0.0048 23.7 6.3 60 10-72 21-90 (94)
233 PRK07993 DNA polymerase III su 28.4 1E+02 0.0022 31.1 5.2 38 173-213 170-208 (334)
234 cd01817 RGS12_RBD Ubiquitin do 28.3 1.9E+02 0.004 23.0 5.5 47 5-54 4-52 (73)
235 PF09722 DUF2384: Protein of u 28.2 1.4E+02 0.003 21.5 4.6 21 194-214 2-22 (54)
236 PF02954 HTH_8: Bacterial regu 28.2 48 0.001 22.9 2.0 27 187-215 5-31 (42)
237 smart00266 CAD Domains present 28.0 1.7E+02 0.0036 23.4 5.2 38 21-61 19-58 (74)
238 cd07921 PCA_45_Doxase_A_like S 27.8 1.9E+02 0.004 24.7 5.8 36 307-365 25-65 (106)
239 KOG4572 Predicted DNA-binding 27.2 1.1E+02 0.0024 34.8 5.4 63 9-74 3-69 (1424)
240 cd01615 CIDE_N CIDE_N domain, 27.0 1.6E+02 0.0035 23.6 5.1 38 21-61 21-60 (78)
241 KOG4842 Protein involved in si 27.0 15 0.00033 35.9 -0.9 60 9-72 11-70 (278)
242 cd06539 CIDE_N_A CIDE_N domain 26.9 1.6E+02 0.0035 23.7 5.0 48 21-73 21-70 (78)
243 PRK01777 hypothetical protein; 26.9 2.8E+02 0.0062 22.9 6.7 70 1-75 4-76 (95)
244 PF04126 Cyclophil_like: Cyclo 26.2 38 0.00082 29.1 1.4 29 1-30 1-29 (120)
245 PF11816 DUF3337: Domain of un 25.4 2E+02 0.0044 28.9 6.7 63 15-77 252-329 (331)
246 PF07862 Nif11: Nitrogen fixat 25.3 1.4E+02 0.003 21.1 4.1 23 305-327 14-38 (49)
247 PF07319 DnaI_N: Primosomal pr 25.1 1.4E+02 0.003 24.4 4.5 52 277-328 8-64 (94)
248 PF00276 Ribosomal_L23: Riboso 24.9 1.3E+02 0.0029 24.4 4.4 41 11-54 21-62 (91)
249 COG3760 Uncharacterized conser 24.1 1E+02 0.0022 27.9 3.8 59 2-73 47-105 (164)
250 PRK09814 beta-1,6-galactofuran 24.0 84 0.0018 31.1 3.7 38 178-217 208-264 (333)
251 PRK13901 ruvA Holliday junctio 23.7 91 0.002 29.3 3.6 28 355-382 145-172 (196)
252 PF07261 DnaB_2: Replication i 23.4 32 0.0007 26.3 0.5 40 350-389 13-53 (77)
253 PF11372 DUF3173: Domain of un 22.9 98 0.0021 23.6 2.9 21 176-199 6-26 (59)
254 PF07223 DUF1421: Protein of u 22.8 57 0.0012 33.5 2.2 18 356-373 323-340 (358)
255 PRK05738 rplW 50S ribosomal pr 22.7 2.1E+02 0.0045 23.5 5.1 41 10-53 20-61 (92)
256 PF01988 VIT1: VIT family; In 22.1 1.4E+02 0.0031 27.9 4.7 40 170-213 80-119 (213)
257 PF14533 USP7_C2: Ubiquitin-sp 22.1 76 0.0016 29.9 2.8 51 10-63 132-194 (213)
258 COG3444 Phosphotransferase sys 22.0 1.5E+02 0.0032 27.1 4.5 52 314-366 82-138 (159)
259 COG2080 CoxS Aerobic-type carb 21.9 1.8E+02 0.0038 26.5 4.9 59 1-60 2-64 (156)
260 COG0632 RuvA Holliday junction 21.8 80 0.0017 29.8 2.8 31 351-381 153-183 (201)
261 PF09145 Ubiq-assoc: Ubiquitin 21.7 1.2E+02 0.0026 21.9 2.9 28 353-380 4-32 (46)
262 PF08169 RBB1NT: RBB1NT (NUC16 21.7 57 0.0012 27.3 1.6 21 194-217 75-96 (96)
263 KOG4248 Ubiquitin-like protein 21.6 41 0.00089 38.9 1.0 66 6-74 330-395 (1143)
264 PF09494 Slx4: Slx4 endonuclea 21.6 1.1E+02 0.0024 23.1 3.1 34 286-326 2-35 (64)
265 cd02667 Peptidase_C19K A subfa 21.5 1.2E+02 0.0026 29.2 4.2 49 276-327 14-63 (279)
266 PRK14109 bifunctional glutamin 21.4 5.6E+02 0.012 30.1 10.1 38 289-326 76-116 (1007)
267 TIGR01446 DnaD_dom DnaD and ph 21.4 84 0.0018 23.9 2.4 32 349-380 12-44 (73)
268 cd06397 PB1_UP1 Uncharacterize 21.3 3.2E+02 0.0069 22.2 5.7 57 2-62 2-63 (82)
269 COG0264 Tsf Translation elonga 21.2 1.4E+02 0.0031 29.9 4.5 36 174-212 7-43 (296)
270 PF11212 DUF2999: Protein of u 21.0 1.3E+02 0.0028 23.9 3.3 15 286-300 46-60 (82)
271 PRK14983 aldehyde decarbonylas 21.0 77 0.0017 30.0 2.4 37 348-387 43-79 (231)
272 KOG4147 Uncharacterized conser 20.9 1.3E+02 0.0028 25.9 3.5 59 16-74 28-112 (127)
273 PF03931 Skp1_POZ: Skp1 family 20.7 74 0.0016 23.8 1.9 32 1-32 1-32 (62)
274 PF14689 SPOB_a: Sensor_kinase 20.6 1E+02 0.0023 23.2 2.8 12 200-211 36-47 (62)
275 PF14807 AP4E_app_platf: Adapt 20.5 2.7E+02 0.0059 23.5 5.5 58 18-76 28-86 (104)
276 PF12588 PSDC: Phophatidylseri 20.5 67 0.0014 28.7 1.9 23 283-305 2-28 (141)
277 PLN03196 MOC1-like protein; Pr 20.5 2.6E+02 0.0057 29.8 6.7 33 346-378 258-292 (487)
278 PRK14604 ruvA Holliday junctio 20.4 76 0.0016 29.7 2.4 27 355-381 150-176 (195)
279 TIGR00084 ruvA Holliday juncti 20.4 1.6E+02 0.0035 27.3 4.5 26 355-380 148-173 (191)
280 cd01775 CYR1_RA Ubiquitin doma 20.2 4.8E+02 0.01 21.9 6.7 68 3-73 5-85 (97)
281 KOG0514 Ankyrin repeat protein 20.1 96 0.0021 32.2 3.1 34 351-384 316-368 (452)
282 PF14847 Ras_bdg_2: Ras-bindin 20.1 2.3E+02 0.005 23.9 5.0 34 3-36 3-36 (105)
283 PRK14605 ruvA Holliday junctio 20.1 95 0.0021 29.0 2.9 40 351-390 145-184 (194)
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=1.4e-88 Score=683.24 Aligned_cols=359 Identities=44% Similarity=0.731 Sum_probs=251.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCCCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~~~ 80 (398)
|+|+||+++|++|.|+|++++||.+||++|+.+.|++.+++++|||||+||+|+|+++|++|||+++++|+||++|+|..
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 99999999999999999999999999999999987555899999999999999999999999999999999999988765
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCccc
Q 015941 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPA-PAPAPAPVSSVSDVY 159 (398)
Q Consensus 81 ~~~~~~~~~~~~~a~~~~~sa~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 159 (398)
++..+++...+++++.++.+.++ +.+....++|+.++ . +..+.+. +++ +...+.+++. ....
T Consensus 81 ~~~~~~~~~~~~~~p~~~~~~~~----~~~~~~~~~~~~~~-----~----~~~~~~~---~~~~~~~~~~~~~~-~~~~ 143 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTPSPPA----SPASGMSAAPASAV-----E----EKSPSEE---SATATAPESPSTSV-PSSG 143 (378)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCC-----c----cccccCC---CCCCCCCCCCCccc-cccC
Confidence 33222111011010111000000 00000000000000 0 0000000 000 0000000000 0001
Q ss_pred ccccccccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCCCCCCCCCccccccCCCCCCCCCCcc
Q 015941 160 GQAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQT 239 (398)
Q Consensus 160 ~~~~s~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~ 239 (398)
..+.|+||+|++||++|++||+|| |+|+||+|||||||||||||||||++|||++++...+ ... +...
T Consensus 144 ~~~~s~l~~g~~~e~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~----~~~----~~~~- 211 (378)
T TIGR00601 144 SDAASTLVVGSERETTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEP----VQQ----TAAS- 211 (378)
T ss_pred CCcccccccchHHHHHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCcccccccc----CCC----cccc-
Confidence 246789999999999999999999 9999999999999999999999999999998652111 100 1000
Q ss_pred ccCCCCCCCCCCCCCCCCCCCcCCCCCCCC------CCCCCCchHHhhccHHHHHHHHHHHhChHHH----HHHhhhCHH
Q 015941 240 QAQQPAAPAPTSGPNANPLDLFPQGLPNMG------SNAGAGTLDFLRNSQQFQALRTMVQANPQIL----QELGKQNPH 309 (398)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~nlf~~~~~~~~------~~~~~~~l~~Lr~~P~f~~lrq~vq~nP~lL----qqi~~~nP~ 309 (398)
. + ....+.+..+ |||++++.++. .+.|+++|++||++|+|++||++||+||++| |+|+++||+
T Consensus 212 ~-----~-~~~~~~~~~~-~lf~~a~~~~~~~~~~~~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~~lLqql~~~nP~ 284 (378)
T TIGR00601 212 T-----A-AATTETPQHG-SVFEQAAQGGTEQPATEAAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLPPLLQQIGQENPQ 284 (378)
T ss_pred c-----c-cccCCCCCCc-chhhhhhcccccccccccccCCchHHHhhcCHHHHHHHHHHHHCHHHHHHHHHHHHhhCHH
Confidence 0 0 0111122222 99998864321 1124568999999999999999999999999 999999999
Q ss_pred HHHHHHHCHHHHHHHhcCCCCC--CCCCcc---ccccc-cCCc--cccCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCC
Q 015941 310 LMRLIQEHQTDFLRLINEPVEG--GEGNVL---GQLAS-AMPQ--AVTVTPEEREAIERLEAMGFDRALVLEVFFACNKN 381 (398)
Q Consensus 310 L~q~I~~n~e~Fl~~l~~~~~~--~~~~~~---~~~~~-~~~~--~~~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~n 381 (398)
|+++|++||++||+||+++.+. ++++.. ++.+. ..+. .|+||+||++||+|||+|||+|+.|||||||||||
T Consensus 285 l~q~I~~n~e~Fl~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdKN 364 (378)
T TIGR00601 285 LLQQISQHPEQFLQMLNEPVGELAGESDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFACDKN 364 (378)
T ss_pred HHHHHHHCHHHHHHHhcCcccccccccccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCCc
Confidence 9999999999999999998532 111111 11111 1112 69999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCC
Q 015941 382 EELAANYLLDHMHE 395 (398)
Q Consensus 382 e~~A~~~L~~~~~d 395 (398)
||+||||||++.+|
T Consensus 365 EelAAn~Lf~~~~~ 378 (378)
T TIGR00601 365 EELAANYLLSQNFD 378 (378)
T ss_pred HHHHHHHHHhhcCC
Confidence 99999999999876
No 2
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=1.8e-88 Score=654.45 Aligned_cols=335 Identities=58% Similarity=0.887 Sum_probs=264.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCCCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~~~ 80 (398)
|+|+||+++|.+|+|+|.+++||.++|++|+...|.+ ||+++|||||+||+|+|++++.+|+|+++++|+||++|+|..
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 999999999999999999999999999999999999998831
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccc
Q 015941 81 SSGASTVSAAPANQAQTTSSAPPTSTQPTTTSQTPAPTVAPPQSVPESAPPPAAPAPAPAPAPAPAPAPAPVSSVSDVYG 160 (398)
Q Consensus 81 ~~~~~~~~~~~~~a~~~~~sa~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (398)
.... ++.+ .+ + ...+..+.+|+. ..+.. ..+ +++ ..++..+.++
T Consensus 80 -~t~~----ap~s--~~-----~--------~~~p~~~~ap~~-s~a~~-------~s~-~~~-------~~~~~~~~~~ 123 (340)
T KOG0011|consen 80 -STQV----APQS--SA-----A--------THLPKAAEAPPS-SAAED-------ASP-ATP-------AQTSQEDTYE 123 (340)
T ss_pred -ccCC----CCCC--cc-----c--------cCCCccCCCCCc-ccccc-------CCC-Ccc-------ccccccchhh
Confidence 1110 0000 00 0 000011111100 00000 000 000 0112234466
Q ss_pred cccccccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCCCCCCCCCccccccCCCCCCCCCCccc
Q 015941 161 QAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTAVPPVARASAGGQAGNPPAQTQ 240 (398)
Q Consensus 161 ~~~s~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GIP~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (398)
.+.|+|++|+++|.+|.+||+|| |+||+|+|||||||||||||||||++|||+....+.+...+...
T Consensus 124 ~aas~Lv~G~~~e~~V~~Im~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~~~~~~~~~---------- 190 (340)
T KOG0011|consen 124 IAASTLVVGSEYEQTVQQIMEMG---YDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPEPEKSTAAA---------- 190 (340)
T ss_pred hhhhhhhccchhHHHHHHHHHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCcccCCcccC----------
Confidence 78899999999999999999999 99999999999999999999999999999987665543211100
Q ss_pred cCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCchHHhhccHHHHHHHHHHHhChHHH----HHHhhhCHHHHHHHHH
Q 015941 241 AQQPAAPAPTSGPNANPLDLFPQGLPNMGSNAGAGTLDFLRNSQQFQALRTMVQANPQIL----QELGKQNPHLMRLIQE 316 (398)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~nlf~~~~~~~~~~~~~~~l~~Lr~~P~f~~lrq~vq~nP~lL----qqi~~~nP~L~q~I~~ 316 (398)
+..++ +.+|.++|++.+.... |+++|+|||++|||++||++||+||++| |+|++.||+|+|+|++
T Consensus 191 -----~~~p~---~~~p~~~~~~~~~~~~---~~~~l~fLr~~~qf~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~ 259 (340)
T KOG0011|consen 191 -----AELPA---NAQPLDLFPQGAVEAS---GGDPLEFLRNQPQFQQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQE 259 (340)
T ss_pred -----CCCCC---CCChhhcCCccchhhh---cCCchhhhhccHHHHHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHH
Confidence 00011 2356788887654443 3489999999999999999999999999 9999999999999999
Q ss_pred CHHHHHHHhcCCCCCCCCCccccccccCC-ccccCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhccCCC
Q 015941 317 HQTDFLRLINEPVEGGEGNVLGQLASAMP-QAVTVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMHE 395 (398)
Q Consensus 317 n~e~Fl~~l~~~~~~~~~~~~~~~~~~~~-~~~~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~~~d 395 (398)
||++||+|||++.+++++++.++.+..++ +.|++|+||++||+||++|||+|..|||||||||||||+||||||+++||
T Consensus 260 nqe~Fl~mlnep~~~~~~~~~~~~~~~~~~~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~f~ 339 (340)
T KOG0011|consen 260 NQEAFLQLLNEPVEGGDGGGTGAPAAEGPGHQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHSFE 339 (340)
T ss_pred HHHHHHHHhhcccccccccccccccccCCcceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhccC
Confidence 99999999999998766666666655555 78999999999999999999999999999999999999999999999955
Q ss_pred C
Q 015941 396 F 396 (398)
Q Consensus 396 ~ 396 (398)
|
T Consensus 340 d 340 (340)
T KOG0011|consen 340 D 340 (340)
T ss_pred C
Confidence 4
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=99.77 E-value=1.7e-18 Score=136.54 Aligned_cols=73 Identities=27% Similarity=0.403 Sum_probs=71.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEec
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k 76 (398)
|+|+||+++|+++.++|++++||.+||++|+++.| +++++|||+|+||.|+|+.+|++|||+++++|+|+++.
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=99.75 E-value=7.4e-18 Score=133.22 Aligned_cols=75 Identities=55% Similarity=0.790 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVY--PASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~i--p~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+++|+++.++|++++||.+||++|++..| + ++++|||+|+|+.|+|+.+|++|||++|++|+|++++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~---i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~~ 77 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG---CDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKPK 77 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 7 999999999999999999999999999999999998764
No 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=99.74 E-value=8.2e-18 Score=134.42 Aligned_cols=74 Identities=22% Similarity=0.354 Sum_probs=70.4
Q ss_pred CEEEEEeCCCcE-EEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 1 MKVFVKTLKGTH-FEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 1 MkI~VKtl~g~~-~~ie-V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|+|+||+++|++ +.|+ +++++||.+||++|++..| +|+++|||+|+||+|+|+.+|++|||+++++|+|+++..
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 999999999997 7895 8999999999999999999 999999999999999999999999999999999999753
No 6
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.72 E-value=1.9e-17 Score=130.52 Aligned_cols=73 Identities=27% Similarity=0.369 Sum_probs=69.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+. +++.++|++++||.+||.+|+++.| +|+++|+|+|+||.|+|+++|++|+|+++++||++++.++
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~G 73 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEG---IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLG 73 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhC---CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence 89999984 7899999999999999999999999 9999999999999999999999999999999999998764
No 7
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.72 E-value=1.7e-17 Score=130.99 Aligned_cols=71 Identities=18% Similarity=0.328 Sum_probs=68.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+||++.|+.+.++|++++||.+||++|+...| +++++|||||+|++|+|+++|++|||++|++|||..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999874
No 8
>PTZ00044 ubiquitin; Provisional
Probab=99.72 E-value=2.8e-17 Score=129.71 Aligned_cols=75 Identities=28% Similarity=0.435 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+++|+++.++|++++||.+||.+|++..| +|+++|||+|+|+.|+|+.+|++|+|+++++|||+++.+.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~g 75 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG---IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRG 75 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
No 9
>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=99.70 E-value=4.3e-17 Score=136.96 Aligned_cols=75 Identities=33% Similarity=0.546 Sum_probs=72.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+++|+++.|+|++++||.+||++|+++.| +|+++|||+|+||.|+|+.+|++|+|+++++|+|+++.++
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g---ip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~G 102 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEG---IPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRG 102 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998754
No 10
>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=99.70 E-value=5.5e-17 Score=129.52 Aligned_cols=73 Identities=23% Similarity=0.407 Sum_probs=70.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|+|+||+++|+.+.|+|+++.||.+||++|+++.+ +++++|||+|+||+|+|+ +|++|||++|++|+||....
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~---~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~ 74 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK---VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVE 74 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC---CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecc
Confidence 89999999999999999999999999999999998 999999999999999999 99999999999999998764
No 11
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.69 E-value=1.7e-16 Score=161.89 Aligned_cols=75 Identities=29% Similarity=0.444 Sum_probs=70.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKV 79 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~~ 79 (398)
++|+||+.++ ++.|.|..+.||.+||++|...++ +++++++|||+||+|+|+++|..|||++|.+||||++....
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~---a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~ 90 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFG---APPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPR 90 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcC---CChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCC
Confidence 5799999988 899999999999999999999998 89999999999999999999999999999999999875543
No 12
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.69 E-value=1.4e-16 Score=125.10 Aligned_cols=75 Identities=36% Similarity=0.545 Sum_probs=72.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+++|+++.++|+++.||.+||++|+...| +|++.|||+|+|+.|.|+++|++|+|++|++|+|+++.+.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~g 75 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRG 75 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
No 13
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.69 E-value=9.4e-17 Score=126.60 Aligned_cols=73 Identities=22% Similarity=0.262 Sum_probs=70.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+||++.|+++.|+|++++||.+||++|+.+.| +|+++|+|+|+||.|+|+.+|++|||+++++|+|+++.++
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~g 73 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER---VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRG 73 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999988653
No 14
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.68 E-value=1.5e-16 Score=124.85 Aligned_cols=75 Identities=37% Similarity=0.605 Sum_probs=72.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+||+++|+++.++|++++||.+||++|+...| +|+++|+|+|+|+.|+|+++|++|||+++++|+|+++.++
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~g 75 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccC
Confidence 89999999999999999999999999999999999 9999999999999999999999999999999999998653
No 15
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.68 E-value=8.6e-17 Score=128.83 Aligned_cols=74 Identities=28% Similarity=0.401 Sum_probs=71.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL--If~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|+|+||+++|+++.++|+++.||.+||++|+...| +++++||| +|+|++|+|+++|++|||++|++|+|++++-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~---i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG---VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC---CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 78999999999999999999999999999999999 99999999 9999999999999999999999999999863
No 16
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=99.68 E-value=3.7e-17 Score=123.58 Aligned_cols=54 Identities=61% Similarity=1.062 Sum_probs=49.6
Q ss_pred hHHhhccHHHHHHHHHHHhChHHH----HHHhhhCHHHHHHHHHCHHHHHHHhcCCCC
Q 015941 277 LDFLRNSQQFQALRTMVQANPQIL----QELGKQNPHLMRLIQEHQTDFLRLINEPVE 330 (398)
Q Consensus 277 l~~Lr~~P~f~~lrq~vq~nP~lL----qqi~~~nP~L~q~I~~n~e~Fl~~l~~~~~ 330 (398)
|++||++|+|++||++|++||++| ++|+++||+|+++|++||++|++||+++.+
T Consensus 1 L~~Lr~~Pqf~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~ 58 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNEPAE 58 (59)
T ss_dssp CGGGTTSHHHHHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHSTS-
T ss_pred ChHHHcChHHHHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcCCCC
Confidence 578999999999999999999988 999999999999999999999999998753
No 17
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.67 E-value=1.5e-16 Score=123.97 Aligned_cols=70 Identities=30% Similarity=0.546 Sum_probs=67.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
|+||++.|+++.++|++++||.+||++|+++.| +++++|+|+|+||.|+|+.+|++|||+++++|||+.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---i~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQG---VPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHC---CCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 689999999999999999999999999999999 9999999999999999999999999999999999864
No 18
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.67 E-value=1.5e-16 Score=124.56 Aligned_cols=70 Identities=27% Similarity=0.458 Sum_probs=67.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
+.||.++|+++.++|++++||.+||.+|++..| +|+++|||+|+||+|+|+.+|++|+|+++++|||++.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~~ 70 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIVN 70 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEeC
Confidence 468999999999999999999999999999999 9999999999999999999999999999999999973
No 19
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.67 E-value=2.9e-16 Score=122.02 Aligned_cols=72 Identities=36% Similarity=0.459 Sum_probs=69.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
|+|+||+++|+++.++|++++||.+||++|+...| ++++.|+|+|+|+.|+|+.+|++|||++|++|+|+.+
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 20
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=99.65 E-value=3e-16 Score=125.44 Aligned_cols=73 Identities=21% Similarity=0.197 Sum_probs=64.8
Q ss_pred CEEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc--cCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTH--FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENK--VAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~--~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~g--Ik~~s~I~v~v 74 (398)
|.|+||+.++++ |.+++++++||.+||++|+...+. .+++++|||||+||+|+|+.+|++|+ |+++.+|||++
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~-~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPS-KPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCC-CCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 579999999998 555668999999999999998752 15689999999999999999999996 99999999986
No 21
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.65 E-value=4.3e-16 Score=121.82 Aligned_cols=71 Identities=32% Similarity=0.428 Sum_probs=67.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
|+|+||+++|+ +.|+|++++||.+||++|++..| ++.++|||+|+||+|.|+++|++|||+++++|||+++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~---i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK---ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC---CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 58999999999999999999999 9999999999999999999999999999999999874
No 22
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.64 E-value=5.9e-16 Score=119.70 Aligned_cols=69 Identities=38% Similarity=0.603 Sum_probs=66.2
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|+++|+.|.|+|++++||.+||++|+...+ +|++.|+|+|+|++|+|+.+|++|||++|++|+|+++++
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 789999999999999999999999999999 999999999999999999999999999999999998753
No 23
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.61 E-value=1.5e-15 Score=120.22 Aligned_cols=70 Identities=29% Similarity=0.414 Sum_probs=67.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf---~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+|| ++|++|.|+|++++||.+||++|++.+| +|+++|||+| +||.|.|+.+|++|+|++|++|+||.
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tg---vp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTG---VLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHC---CCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 689999 7999999999999999999999999999 9999999996 99999999999999999999999985
No 24
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.59 E-value=2.4e-15 Score=117.89 Aligned_cols=68 Identities=34% Similarity=0.435 Sum_probs=64.5
Q ss_pred EEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CcccccccCCCcEEEEE
Q 015941 3 VFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDV-TTLEENKVAENSFVVVM 73 (398)
Q Consensus 3 I~VKtl-~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~-~tL~d~gIk~~s~I~v~ 73 (398)
|+||+. +|+++.|+|++++||.+||.+|+.+.| +|+++|||+|+||.|+|+ .+|++|||++|++||+-
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG---IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC---CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 689999 999999999999999999999999999 999999999999999987 68999999999999873
No 25
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.56 E-value=9.5e-15 Score=113.40 Aligned_cols=70 Identities=29% Similarity=0.421 Sum_probs=67.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+||+. |+.+.++|++++||.+||.+|+..+| +++++|||+|+|+.|.|+.+|++|||++|++|+||.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG---VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC---CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 99999999999999999999999999 999999999999999999999999999999999985
No 26
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.7e-15 Score=111.09 Aligned_cols=70 Identities=36% Similarity=0.548 Sum_probs=68.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
|.|.||+++|+.+.|+++++++|..+|++|+++.| +|+.+|||||.||.+.|+++-.+|++.-|++||++
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 27
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.55 E-value=1.4e-14 Score=114.86 Aligned_cols=68 Identities=26% Similarity=0.396 Sum_probs=65.2
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 8 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
++|+++.|+|++++||.+||.+|+...| +|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++.+.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~g 72 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETG---MPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERG 72 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHC---CCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCC
Confidence 5799999999999999999999999999 9999999999999999999999999999999999998755
No 28
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=5.9e-15 Score=122.27 Aligned_cols=77 Identities=36% Similarity=0.568 Sum_probs=74.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCCCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~~~ 80 (398)
|+++++++.|++++++|++++||..||.+|....| +|+++|+|||+||+|+|..||++|||...++||++.+.++..
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~G---i~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~ 77 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccC---CCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCC
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999999988753
No 29
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=6.1e-14 Score=123.83 Aligned_cols=80 Identities=34% Similarity=0.529 Sum_probs=75.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCCCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSKVS 80 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~~~ 80 (398)
|+|+|+++.++++.++|..++||..+|.+|++..| ||+++|||||.|+.|+|..+|+||+|+.-++|+++++.++..
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg---Ip~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA 77 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC---CCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999999987655
Q ss_pred CCC
Q 015941 81 SSG 83 (398)
Q Consensus 81 ~~~ 83 (398)
...
T Consensus 78 kkr 80 (156)
T KOG0004|consen 78 KKR 80 (156)
T ss_pred ccc
Confidence 433
No 30
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.45 E-value=4.3e-13 Score=109.21 Aligned_cols=75 Identities=16% Similarity=0.265 Sum_probs=71.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecCC
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
|+|+|++.+|+.+.+.|.+++||..||.+++++.| +++++|||+|+|+.|.|+.|+.+|+|.++++|+|+++.++
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~g---i~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~G 86 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQG---LSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTG 86 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhC---CCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEeccc
Confidence 68999999999999999999999999999999999 9999999999999999999999999999999999998754
No 31
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.45 E-value=2.5e-13 Score=102.42 Aligned_cols=64 Identities=42% Similarity=0.649 Sum_probs=61.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCc
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS 68 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s 68 (398)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| ++++.|+|+|+|+.|.|+++|++|||++|+
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 32
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.41 E-value=2.6e-13 Score=107.31 Aligned_cols=59 Identities=25% Similarity=0.249 Sum_probs=50.8
Q ss_pred EeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 16 EVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 16 eV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
+|+ .++||.+||++|+++.+...+++++|||||+||+|+|+++|++|||++|++|||+.
T Consensus 15 ~~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 15 DVSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred CcCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 344 46899999999999964221359999999999999999999999999999999985
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=99.30 E-value=3.9e-12 Score=107.42 Aligned_cols=77 Identities=17% Similarity=0.236 Sum_probs=62.9
Q ss_pred EEEEEeCCCcEE-EEEeCCCCCHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCcccccc------cCCCcEE
Q 015941 2 KVFVKTLKGTHF-EIEVKPEDKVSDVKKNIETVQGS--DVYP--ASQQMLIHQGKVLKDVTTLEENK------VAENSFV 70 (398)
Q Consensus 2 kI~VKtl~g~~~-~ieV~~~~TV~dLK~~I~~~~g~--~~ip--~~~QkLIf~GK~L~D~~tL~d~g------Ik~~s~I 70 (398)
.|.||..+|..+ ...+.+++||.+||++|+...+. ..+| +++|||||+||+|+|++||++|+ +....++
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 577787788554 56778999999999999976642 1144 99999999999999999999999 7777899
Q ss_pred EEEEecCC
Q 015941 71 VVMLTKSK 78 (398)
Q Consensus 71 ~v~v~k~~ 78 (398)
||+++.+.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99987543
No 34
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.28 E-value=1.2e-11 Score=94.47 Aligned_cols=68 Identities=43% Similarity=0.663 Sum_probs=64.5
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 4 FVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 4 ~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
+||..+|+.+.+.+.++.||.+||++|+..+| ++++.|+|+|+|+.|+|+.+|.+|+|++++.|+|+.
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~---~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEG---VPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHC---cChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 47888899999999999999999999999999 999999999999999999999999999999999875
No 35
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.25 E-value=1.5e-11 Score=97.56 Aligned_cols=65 Identities=18% Similarity=0.274 Sum_probs=59.0
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCcccccccC-CCcEEEEEE
Q 015941 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLK-DVTTLEENKVA-ENSFVVVML 74 (398)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~-D~~tL~d~gIk-~~s~I~v~v 74 (398)
|.-.|.++.|+|++++||.+||.+|+.+.| +|++.||| |.|+.|. |+.+|++|||+ +|++|++.+
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~~g---ip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLDYG---FPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHHHC---cCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 444688999999999999999999999999 99999999 9999985 67899999998 889999875
No 36
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=99.18 E-value=7.7e-11 Score=91.88 Aligned_cols=71 Identities=24% Similarity=0.391 Sum_probs=65.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+|++.+|+.+.+.|.++.+|..|+.+++++.+ ++. ..++|+|+|+.|.++.|+++|||++|++|+|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~---i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKG---IPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHT---TTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC---CCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999 889 999999999999999999999999999999975
No 37
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.01 E-value=7.7e-10 Score=91.30 Aligned_cols=62 Identities=21% Similarity=0.238 Sum_probs=57.3
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC-CCcccccccCCCcEEEEEEec
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD-VTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D-~~tL~d~gIk~~s~I~v~v~k 76 (398)
...++|++++||.+||.+|...++ +++.+|||+|+|+.|.| .++|++|||..+++|.|.+..
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~---V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFS---VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhc---CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 467889999999999999999999 99999999999999976 579999999999999999864
No 38
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=98.94 E-value=1.3e-09 Score=74.89 Aligned_cols=36 Identities=50% Similarity=0.723 Sum_probs=33.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHH
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYL 210 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL 210 (398)
.++.|+.|++|| |+|++|++||+++.||.++||+||
T Consensus 2 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMG---FSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHT---S-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHcCCCHHHHHHhC
Confidence 478999999999 999999999999999999999998
No 39
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.89 E-value=1.2e-08 Score=77.39 Aligned_cols=72 Identities=39% Similarity=0.585 Sum_probs=68.4
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
++++++.|+.+.+.+....+|..+|.+|....| ++..+|+|+|.|+.|.|+.+|.+|+|..++.++++.+.+
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 999999999999999999999999999999999998764
No 40
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.89 E-value=1.3e-08 Score=86.84 Aligned_cols=75 Identities=20% Similarity=0.284 Sum_probs=55.7
Q ss_pred EEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCcccccccCCCc------EE
Q 015941 2 KVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSD----VYPASQQMLIHQGKVLKDVTTLEENKVAENS------FV 70 (398)
Q Consensus 2 kI~VKtl~g~-~~~ieV~~~~TV~dLK~~I~~~~g~~----~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s------~I 70 (398)
.|+++..+|+ +-.+.+++++||.+||++|......+ ...+..+||||.||+|+|+++|++|++..++ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 5677778998 77889999999999999999876433 1235578999999999999999999998776 46
Q ss_pred EEEEec
Q 015941 71 VVMLTK 76 (398)
Q Consensus 71 ~v~v~k 76 (398)
||+++.
T Consensus 84 Hlvvrp 89 (111)
T PF13881_consen 84 HLVVRP 89 (111)
T ss_dssp EEEE-S
T ss_pred EEEecC
Confidence 666653
No 41
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=3.1e-09 Score=116.46 Aligned_cols=70 Identities=26% Similarity=0.400 Sum_probs=67.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
.|+||||+.++.+|.|...+||++||.+|..+.+ |+.+.|||||.||+|.|++++.+|+| +|.+|||+-|
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n---i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 4899999999999999999999999999999999 99999999999999999999999999 9999999987
No 42
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=98.85 E-value=1.6e-08 Score=81.90 Aligned_cols=71 Identities=25% Similarity=0.316 Sum_probs=59.3
Q ss_pred EEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQGK-----VL-KDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~-g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-If~GK-----~L-~D~~tL~d~gIk~~s~I~v~ 73 (398)
+|.|+.-. ....+..++++.||.+||.+|+..+| +++..||| +|.|+ .| +|+++|++||+++|..|||+
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G---~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG---TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC---CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 56676533 33455669999999999999999999 99999999 58888 46 67789999999999999998
Q ss_pred Ee
Q 015941 74 LT 75 (398)
Q Consensus 74 v~ 75 (398)
-.
T Consensus 80 D~ 81 (84)
T cd01789 80 DV 81 (84)
T ss_pred eC
Confidence 64
No 43
>PLN02560 enoyl-CoA reductase
Probab=98.78 E-value=1.6e-08 Score=100.43 Aligned_cols=71 Identities=32% Similarity=0.427 Sum_probs=62.2
Q ss_pred CEEEEEeCCCcEE---EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCcccccccCCCcEE
Q 015941 1 MKVFVKTLKGTHF---EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G----KVLKDVTTLEENKVAENSFV 70 (398)
Q Consensus 1 MkI~VKtl~g~~~---~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~---G----K~L~D~~tL~d~gIk~~s~I 70 (398)
|+|+||..+|+.+ +|+|+++.||.+||++|+++.+. +++++|||++. | +.|+|+++|++|||+++++|
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 8999999889887 79999999999999999999772 48999999982 3 48899999999999999987
Q ss_pred EEE
Q 015941 71 VVM 73 (398)
Q Consensus 71 ~v~ 73 (398)
++-
T Consensus 79 y~k 81 (308)
T PLN02560 79 VFK 81 (308)
T ss_pred EEE
Confidence 653
No 44
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=98.76 E-value=1.3e-08 Score=69.78 Aligned_cols=36 Identities=39% Similarity=0.641 Sum_probs=33.2
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHH
Q 015941 354 EREAIERLEAMGFDRALVLEVFFACNKNEELAANYL 389 (398)
Q Consensus 354 e~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L 389 (398)
+.+.|++|++|||+++.|++|+.+|++|.+.|++||
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 457899999999999999999999999999999998
No 45
>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=98.74 E-value=2.7e-08 Score=84.05 Aligned_cols=73 Identities=21% Similarity=0.276 Sum_probs=63.0
Q ss_pred CEEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccccc-------CCCcEEEE
Q 015941 1 MKVFVKTLKGT-HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKV-------AENSFVVV 72 (398)
Q Consensus 1 MkI~VKtl~g~-~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gI-------k~~s~I~v 72 (398)
|-++++.+..| ++.+++.++.||.+||++|+.... .|+++|||+..+.+|+|++||+|||+ ....+|-+
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 56666655554 578899999999999999999998 89999999977899999999999999 66788888
Q ss_pred EEec
Q 015941 73 MLTK 76 (398)
Q Consensus 73 ~v~k 76 (398)
.+|+
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 8875
No 46
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.74 E-value=1.7e-08 Score=69.24 Aligned_cols=37 Identities=38% Similarity=0.532 Sum_probs=35.0
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhc
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLLD 391 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~ 391 (398)
.+.|++|++|||+++.|++|+..|++|.+.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 3579999999999999999999999999999999985
No 47
>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=98.71 E-value=2.3e-08 Score=68.60 Aligned_cols=37 Identities=51% Similarity=0.788 Sum_probs=35.2
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 173 e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
++.|+.|++|| |+|++|++||+++.||.++|++||+.
T Consensus 2 ~~~v~~L~~mG---f~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMG---FSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 57899999999 99999999999999999999999974
No 48
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.70 E-value=2.2e-08 Score=68.36 Aligned_cols=36 Identities=47% Similarity=0.629 Sum_probs=34.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHh
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLL 390 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~ 390 (398)
.+.|++|++|||+++.|++|+..|++|.+.|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 467999999999999999999999999999999997
No 49
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.66 E-value=3.3e-08 Score=67.53 Aligned_cols=37 Identities=51% Similarity=0.791 Sum_probs=34.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHH
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~ 211 (398)
+++.|+.|++|| |++++|.+||+...||.++|++||+
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 50
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=98.64 E-value=8e-08 Score=76.35 Aligned_cols=69 Identities=23% Similarity=0.253 Sum_probs=55.1
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCcEEEE
Q 015941 2 KVFVKTLK-GTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~-g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkL--If~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
+|.++..+ .....++++ ++.||.+||+.|+...+. +++++||| ++.|++|.|+.+|.+|||++|++|+|
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 56666655 333334544 789999999999988652 67899888 58999999999999999999998875
No 51
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.62 E-value=1.4e-07 Score=76.58 Aligned_cols=72 Identities=24% Similarity=0.320 Sum_probs=57.7
Q ss_pred EEEEEeCCC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----C---eec-CCCCcccccccCCCcEEE
Q 015941 2 KVFVKTLKG--THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----G---KVL-KDVTTLEENKVAENSFVV 71 (398)
Q Consensus 2 kI~VKtl~g--~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~----G---K~L-~D~~tL~d~gIk~~s~I~ 71 (398)
+|+|..... +.++..++.+.||.+||.+|+..+| ++++.|+|.|. + ..| +|+.+|.+||+++|..||
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 567776554 4788999999999999999999999 99999999765 2 224 567899999999999999
Q ss_pred EEEec
Q 015941 72 VMLTK 76 (398)
Q Consensus 72 v~v~k 76 (398)
|+=..
T Consensus 80 V~D~~ 84 (87)
T PF14560_consen 80 VVDTN 84 (87)
T ss_dssp EEE-T
T ss_pred EEeCC
Confidence 98654
No 52
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.40 E-value=1.4e-06 Score=62.28 Aligned_cols=67 Identities=31% Similarity=0.457 Sum_probs=60.6
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+..++..+.+.+....||.+||++|..+.| +++..++|+++|+.+.+...+.+|++.+++.|+++.
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 889999999999999999888999999999999874
No 53
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.37 E-value=6.6e-07 Score=71.97 Aligned_cols=69 Identities=28% Similarity=0.359 Sum_probs=43.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---Ceec--CCCCcccccccCCCcEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---GKVL--KDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~---GK~L--~D~~tL~d~gIk~~s~I~v~ 73 (398)
|-|.||+.+| .+.|+|++++||.+||++|.+..+ ++...|.|..+ ...| .++++|+++||++||.|+|-
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 5688888776 788999999999999999999999 88888888532 2344 46789999999999998763
No 54
>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=98.24 E-value=6.1e-06 Score=64.82 Aligned_cols=72 Identities=18% Similarity=0.293 Sum_probs=62.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCcccccccCCCcEEEEEEe
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---G--KVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~---G--K~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
++|+||-+.+..+.+.|+|..+|..||.+|....+ + ...|||.|. | ..|.+.++|.+|||-.+-.|.|+-+
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 459999983 3 4578999999999998888888765
Q ss_pred c
Q 015941 76 K 76 (398)
Q Consensus 76 k 76 (398)
-
T Consensus 77 ~ 77 (80)
T cd01811 77 F 77 (80)
T ss_pred C
Confidence 3
No 55
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=2.6e-06 Score=83.47 Aligned_cols=74 Identities=27% Similarity=0.394 Sum_probs=64.8
Q ss_pred CEEEEEeC---CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 1 MKVFVKTL---KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 1 MkI~VKtl---~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|.|.|+.. ....+.|+|+.+.+|.+||+.++.+.| +|+++.|+||.||.|.|+.++..|.+.-.+.+|+|.-++
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 67777754 234588999999999999999999999 999999999999999999999999998889999885444
No 56
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=5.5e-06 Score=85.12 Aligned_cols=71 Identities=23% Similarity=0.372 Sum_probs=65.9
Q ss_pred EEEEeCCCcEEEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEecC
Q 015941 3 VFVKTLKGTHFEIE-VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 3 I~VKtl~g~~~~ie-V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k~ 77 (398)
|.|| +.|+.+.++ ++.++|+..||.+|...+| ++|++||++++|+.|.|+-.+..++||+|.+|+||.+.-
T Consensus 6 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 6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTG---VPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred Eeee-ecCccccceeccCCCchHHHHHHHHHhcC---CCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 5666 889999998 9999999999999999999 999999999999999999999999999999999998643
No 57
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=1.4e-05 Score=61.04 Aligned_cols=69 Identities=19% Similarity=0.308 Sum_probs=60.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
++.+...-|++..|...+++||+|+|+.|+.++| ..++...|---+.+++|.-+|++|.|++|-.+.+.
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 5667777799999999999999999999999999 77888877666678899999999999999877664
No 58
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.56 E-value=9.1e-05 Score=60.93 Aligned_cols=62 Identities=24% Similarity=0.379 Sum_probs=50.3
Q ss_pred CEEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC-eecCCCCcccccccC
Q 015941 1 MKVFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG-KVLKDVTTLEENKVA 65 (398)
Q Consensus 1 MkI~VKtl~-g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf-~G-K~L~D~~tL~d~gIk 65 (398)
|.++|+... ..++.++.+++.||.+||.+++.... -|+..|||+. .- ..|+|.++|+|||..
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhcccc
Confidence 445555444 34678899999999999999999988 7999999976 33 678999999999874
No 59
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.56 E-value=0.0012 Score=67.94 Aligned_cols=58 Identities=21% Similarity=0.166 Sum_probs=48.5
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
++.+...|=.+|...|.++.| ++-.-.|.|.+||+|.-.+||.+-|++.+..+.|++.
T Consensus 54 ~k~sL~i~Gselqa~iakklg---i~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 54 KKCSLHITGSELQALIAKKLG---IKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhcccccccHHHHHHHHHHcC---CchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 344455677889999999999 8888889999999999999999999998776665554
No 60
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00087 Score=55.67 Aligned_cols=72 Identities=14% Similarity=0.234 Sum_probs=64.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEec
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k 76 (398)
+|.|+.-++....+.|..+.....|++..++..| +.....|++|+|+.+.+..|=.+++..++|.|.++...
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 4566665667778899999999999999999999 88999999999999999999999999999999998654
No 61
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.48 E-value=0.00015 Score=74.23 Aligned_cols=42 Identities=31% Similarity=0.460 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhccCC
Q 015941 353 EEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMH 394 (398)
Q Consensus 353 ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~~~ 394 (398)
+-...|++|++|||+|++|+.|+.|+-.|.+.|++||+...-
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP 196 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIP 196 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCC
Confidence 444669999999999999999999999999999999998754
No 62
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=97.35 E-value=0.00046 Score=57.52 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=46.3
Q ss_pred EEEEEeCCC-cEEEEEeC--CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 015941 2 KVFVKTLKG-THFEIEVK--PEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (398)
Q Consensus 2 kI~VKtl~g-~~~~ieV~--~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~ 62 (398)
.|+||.-++ ..+.++|. .+.||..||..|.+..+.. ..-..+||||+||+|.|...|...
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~-~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPE-PSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCC-CccccEEeeecCcccCccchhhhh
Confidence 366776553 34677777 7899999999999998422 556688999999999998877654
No 63
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.24 E-value=0.0014 Score=51.67 Aligned_cols=72 Identities=10% Similarity=0.232 Sum_probs=57.9
Q ss_pred CEEE--EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCcccccccCCCcEEEE
Q 015941 1 MKVF--VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA--SQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 1 MkI~--VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~--~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
|+|+ ++..+|++|.+.++...+|+.|-..+.+....+..+. ..+|..-++++|.++..|.+|+|.+||.+.+
T Consensus 5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 3455 4677899999999999999999988887665321222 3568889999999999999999999998875
No 64
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.17 E-value=0.00087 Score=53.42 Aligned_cols=71 Identities=18% Similarity=0.271 Sum_probs=49.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCcccccccCCCcEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQMLI-HQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~---~QkLI-f~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
+|+|...+|+.+.+.+..+.+|.+|...|.+..+....... ..+|. -+|..|+++.+|.++||.+|+.|++
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 56777655688999999999999999999998773212222 35666 6899999999999999999999986
No 65
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.10 E-value=0.0035 Score=49.84 Aligned_cols=69 Identities=22% Similarity=0.285 Sum_probs=58.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLI--HQGKVLKDV--TTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLI--f~GK~L~D~--~tL~d~gIk~~s~I~v~ 73 (398)
+|.||..+|+.+...+..++||.+|...|..... .+... .+|+ |-.+.|.++ ++|+++|+..+.+|+|-
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 6889999999999999999999999999998876 33443 7786 678888654 69999999999988763
No 66
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.02 E-value=0.0024 Score=66.54 Aligned_cols=99 Identities=32% Similarity=0.463 Sum_probs=64.3
Q ss_pred HHHHHHhChHHHHHHhhhCHHHHHHHHHCHHHHHHHhcCCCC---CCCCC--cccccc--------------ccCCcccc
Q 015941 289 LRTMVQANPQILQELGKQNPHLMRLIQEHQTDFLRLINEPVE---GGEGN--VLGQLA--------------SAMPQAVT 349 (398)
Q Consensus 289 lrq~vq~nP~lLqqi~~~nP~L~q~I~~n~e~Fl~~l~~~~~---~~~~~--~~~~~~--------------~~~~~~~~ 349 (398)
||+ .+||+.+..+ .||..++.|.+=++.|-.+..+... +..|. .....+ ......-.
T Consensus 372 ~~~--mq~p~~~~~~--~np~a~~ai~qiqq~~~~~~~~a~~l~~~~s~~~~~~n~~p~~~~~~~~~~~~~~~~~~n~~~ 447 (493)
T KOG0010|consen 372 LRQ--MQNPDVLRAM--SNPRAMQAIRQIQQGLQTLAREAPGLVPGQSGASGPINGSPTLLMQLFGSLMLQGLRGSNQQT 447 (493)
T ss_pred ccc--ccCchHhhhh--cChHHHHHHHHHHHHHHHHHhhccccccccccccCCCCCCchhhhhhhhhhhhhhccccCcCC
Confidence 454 2366666433 5788888887777766555433221 00000 000000 00112345
Q ss_pred CCHHHHHH--HHHHHHcCC-ChhHHHHHHHHhCCCHHHHHHHHhc
Q 015941 350 VTPEEREA--IERLEAMGF-DRALVLEVFFACNKNEELAANYLLD 391 (398)
Q Consensus 350 lt~ee~~a--i~rl~~lGf-~~~~~~~a~~ac~~ne~~A~~~L~~ 391 (398)
+.+|++.+ +++|.+||| +|+..++|+++..+|.+.|++.||.
T Consensus 448 ~~pe~r~q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 448 VPPEERYQTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred CCchHHHHHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 78888888 999999998 9999999999999999999999984
No 67
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=8.8e-05 Score=73.45 Aligned_cols=78 Identities=21% Similarity=0.224 Sum_probs=58.1
Q ss_pred EEEEEeCCCc--EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCC--CcEEEEEEecC
Q 015941 2 KVFVKTLKGT--HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAE--NSFVVVMLTKS 77 (398)
Q Consensus 2 kI~VKtl~g~--~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~--~s~I~v~v~k~ 77 (398)
.++||..+.+ ...|..+..+||++||..++..+..+ --..+|||||+||.|.|...|.|+=+|. ..++||++..+
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 4667766654 35666778899999999999887543 2356899999999999999999986653 34677777654
Q ss_pred CCC
Q 015941 78 KVS 80 (398)
Q Consensus 78 ~~~ 80 (398)
...
T Consensus 90 ~v~ 92 (391)
T KOG4583|consen 90 EVV 92 (391)
T ss_pred CCC
Confidence 433
No 68
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.97 E-value=0.0046 Score=49.25 Aligned_cols=68 Identities=13% Similarity=0.135 Sum_probs=55.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCcEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~D---~~tL~d~gIk~~s~I~v 72 (398)
+|.||..+|+.+...+..++||.+|...|....+ ......+|+ |..|.|.+ +++|.++|+..+.+|+|
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 6889999999999999999999999999966555 445567775 67888864 47999999988887765
No 69
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=96.86 E-value=0.0076 Score=47.59 Aligned_cols=67 Identities=28% Similarity=0.392 Sum_probs=54.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~D---~~tL~d~gIk~~s~I~v~ 73 (398)
+|.||..+|+.+...+..++||.+|..-|..... .....+|+ |-.|.|.| +.+|.++|+. .+.+.+.
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 67788865 7899999999 5555543
No 70
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.81 E-value=0.0076 Score=48.27 Aligned_cols=65 Identities=22% Similarity=0.305 Sum_probs=53.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCCc
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENS 68 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~D-~~tL~d~gIk~~s 68 (398)
+|.||..+|+.+...+..++||.+|...|....+. .......|+ |-.|.|.| +.||+|.|+.+..
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~ 73 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLNAV 73 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcCcE
Confidence 68899999999999999999999999999987542 223566776 77898866 7899999998633
No 71
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=96.81 E-value=0.002 Score=45.27 Aligned_cols=39 Identities=33% Similarity=0.401 Sum_probs=35.0
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 172 LEATVQQILDM--GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 172 ~e~~I~~i~~M--G~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
+++.|+.|.+| . |+++.++++|++.-+|.|+||++|+.|
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 36789999999 5 999999999999999999999999865
No 72
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.75 E-value=0.0028 Score=59.38 Aligned_cols=65 Identities=25% Similarity=0.395 Sum_probs=55.6
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCc--EEEEEEec
Q 015941 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENS--FVVVMLTK 76 (398)
Q Consensus 9 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s--~I~v~v~k 76 (398)
.++.|.+.+...+||.++|.++....+ +.+-.|+++|+|++|.|...|.+|+|..|. +|.++|..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq 221 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQ 221 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEEEEecc
Confidence 456688888889999999999999999 668899999999999999999999999994 44444443
No 73
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.69 E-value=0.0033 Score=60.33 Aligned_cols=70 Identities=17% Similarity=0.212 Sum_probs=54.0
Q ss_pred CEEEEEeCCCc-EEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE----EeCCeecCCCCcccccccCCCcEEEE
Q 015941 1 MKVFVKTLKGT-HFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQML----IHQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 1 MkI~VKtl~g~-~~~-ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL----If~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
|+|+++..++. .++ .+.+...||.|++++|..+..+ +.+..+|+ --+||.|.|+.+|++|+..++.+|.|
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k--~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLK--ITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhc--cCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 88999888763 333 6778889999999888877653 55544444 34799999999999999999976654
No 74
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.68 E-value=0.012 Score=47.00 Aligned_cols=67 Identities=19% Similarity=0.358 Sum_probs=55.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCcEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD---VTTLEENKVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~D---~~tL~d~gIk~~s~I~v 72 (398)
+|.||..+|+.+...+..++||.+|...|....+ . ....+|+ |-.|.+.+ +++|.++|+....+|+|
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~---~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG---N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC---C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 6889999999999999999999999999986644 1 2557776 78899964 57999999998887766
No 75
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=96.49 E-value=0.0047 Score=42.95 Aligned_cols=35 Identities=34% Similarity=0.546 Sum_probs=30.3
Q ss_pred hhccHHHHHHHHHHHhChHHHHHHhhhCHHHHHHH
Q 015941 280 LRNSQQFQALRTMVQANPQILQELGKQNPHLMRLI 314 (398)
Q Consensus 280 Lr~~P~f~~lrq~vq~nP~lLqqi~~~nP~L~q~I 314 (398)
+..+|+|+++++-+++||++++++-+.||++++.|
T Consensus 7 ~l~~P~~~~~l~~~~~nP~~~~~~~~~nP~~~~~i 41 (41)
T smart00727 7 RLQNPQVQSLLQDMQQNPDMLAQMLQENPQLLQLI 41 (41)
T ss_pred HHcCHHHHHHHHHHHHCHHHHHHHHHhCHHhHhhC
Confidence 33499999999999999999988877799998764
No 76
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0018 Score=69.44 Aligned_cols=43 Identities=40% Similarity=0.652 Sum_probs=40.1
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCCC
Q 015941 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIP 215 (398)
Q Consensus 170 ~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GIP 215 (398)
+..|..|..|++|| |.|.|++.||++..||.+|||||+++-+-
T Consensus 633 ~~~e~~v~si~smG---f~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 633 EVDEESVASIVSMG---FSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred CCChhHheeeeeec---CcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 45689999999999 99999999999999999999999999855
No 77
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=96.42 E-value=0.0073 Score=42.65 Aligned_cols=40 Identities=25% Similarity=0.298 Sum_probs=33.3
Q ss_pred HHHHHHHHc-CCChhHHHHHHHHhCCCHHHHHHHHhccCCC
Q 015941 356 EAIERLEAM-GFDRALVLEVFFACNKNEELAANYLLDHMHE 395 (398)
Q Consensus 356 ~ai~rl~~l-Gf~~~~~~~a~~ac~~ne~~A~~~L~~~~~d 395 (398)
+.|.+++++ |.++..+++-+.+|+||.+.|++..|++..+
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~ 42 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA 42 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence 568888887 9999999999999999999999999987543
No 78
>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=96.38 E-value=0.025 Score=45.77 Aligned_cols=69 Identities=19% Similarity=0.338 Sum_probs=59.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCcccccccCCCcEEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK---DVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~---D~~tL~d~gIk~~s~I~v~v 74 (398)
+|.||..+|+.+.-.+..+.++.+|-..|.. .| ++.+..+|+ |--|.|. .+.+|.++|+....+|+|--
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g---~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG---YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC---CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 6899999999999999999999999999988 56 678899997 7788884 25799999999999888753
No 79
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0056 Score=64.02 Aligned_cols=43 Identities=26% Similarity=0.392 Sum_probs=38.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCC-CHHHHHHHHhccCCCCC
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNK-NEELAANYLLDHMHEFE 397 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~-ne~~A~~~L~~~~~d~~ 397 (398)
+-+|++|++|||+...+.+|+++.+. |-|-|-||||+++.|-|
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPd 602 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPD 602 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcc
Confidence 44699999999999999999999865 89999999999988754
No 80
>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=96.20 E-value=0.018 Score=44.63 Aligned_cols=63 Identities=17% Similarity=0.210 Sum_probs=46.5
Q ss_pred eCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEE
Q 015941 7 TLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 7 tl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
..+++.+.|.|.++.++.++-+..+.++| +..++-.|.|++|.|+-+..+.-.|+-+|..+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~---l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFG---LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT-----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcC---CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 35788999999999999999999999999 8889999999999999999999999999998864
No 81
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=96.14 E-value=0.037 Score=50.25 Aligned_cols=77 Identities=18% Similarity=0.237 Sum_probs=55.5
Q ss_pred CEEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe-EEEe-CCeec--CCCCcccccccCCCc----
Q 015941 1 MKVFVKTLKG----THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQ-MLIH-QGKVL--KDVTTLEENKVAENS---- 68 (398)
Q Consensus 1 MkI~VKtl~g----~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Q-kLIf-~GK~L--~D~~tL~d~gIk~~s---- 68 (398)
|+|+|+++.| .++.+.+..+.||.+|+.+|....+ ++...+ .|.+ .++.| .++..++.+.-...+
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~---~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~ 77 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP---IPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFI 77 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC---CCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCce
Confidence 7899999999 5889999999999999999999998 666663 4444 34444 456667776544432
Q ss_pred EEEEEEecCCCC
Q 015941 69 FVVVMLTKSKVS 80 (398)
Q Consensus 69 ~I~v~v~k~~~~ 80 (398)
+|+|+++..+..
T Consensus 78 ~l~l~~rl~GGK 89 (162)
T PF13019_consen 78 TLRLSLRLRGGK 89 (162)
T ss_pred EEEEEEeccCCC
Confidence 456666655543
No 82
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.007 Score=55.71 Aligned_cols=48 Identities=25% Similarity=0.290 Sum_probs=44.6
Q ss_pred cccccCCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 163 ASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 163 ~s~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
...+..+..+.+.|.+|.+|| |+|+.++.+|+-.-.|-.+|-|+|++|
T Consensus 153 ~~~~~~~~~~~~~v~~l~~mG---f~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 153 GGRLPDDPWDKKKVDSLIEMG---FSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCCCCchhHHHHHHHHHhc---ccHHHHHHHhhccccchhhhhHhhccC
Confidence 344788899999999999999 999999999999999999999999987
No 83
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.0087 Score=64.36 Aligned_cols=45 Identities=29% Similarity=0.553 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHcCCChhHHHHHHHHh-CCCHHHHHHHHhccCCCCC
Q 015941 353 EEREAIERLEAMGFDRALVLEVFFAC-NKNEELAANYLLDHMHEFE 397 (398)
Q Consensus 353 ee~~ai~rl~~lGf~~~~~~~a~~ac-~~ne~~A~~~L~~~~~d~~ 397 (398)
-++.+|.+|++|||+.+.|.+|++.. +.+-|.|-||||+++.|.|
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd 615 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPD 615 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcc
Confidence 36778999999999999999999998 8899999999999998865
No 84
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=95.96 E-value=0.0099 Score=59.20 Aligned_cols=42 Identities=31% Similarity=0.462 Sum_probs=37.8
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhccCCCC
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMHEF 396 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~~~d~ 396 (398)
...|.+|++|||+|++|+.|+.|.=+|.+.|++||+...-++
T Consensus 136 e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~~ 177 (340)
T KOG0011|consen 136 EQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPED 177 (340)
T ss_pred HHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCccc
Confidence 456999999999999999999999999999999999765543
No 85
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.01 Score=54.61 Aligned_cols=45 Identities=22% Similarity=0.287 Sum_probs=40.5
Q ss_pred ccCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 348 VTVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 348 ~~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
....+.+...|.+|++|||+|.+++.++...+||-+.|.+.||++
T Consensus 156 ~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 156 LPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 345567788999999999999999999999999999999999874
No 86
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=95.77 E-value=0.019 Score=40.18 Aligned_cols=37 Identities=32% Similarity=0.475 Sum_probs=33.1
Q ss_pred HHHHHHHHc--CCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 356 EAIERLEAM--GFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 356 ~ai~rl~~l--Gf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
+.|++|.+| .++++.+..+|.+|++|.+.|.+.||+.
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 568999999 7999999999999999999999999974
No 87
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.76 E-value=0.065 Score=43.52 Aligned_cols=68 Identities=16% Similarity=0.166 Sum_probs=55.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecC--------CCCcccccccCCCcEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLK--------DVTTLEENKVAENSFVV 71 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf--~GK~L~--------D~~tL~d~gIk~~s~I~ 71 (398)
+|.||..+|+.+.-.+..++||.+|..-|.. .+ ..++...|++ --|.|. .+.||++.||....+|.
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~---~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~ 81 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK---ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF 81 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC---CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence 6889999999999999999999999999964 34 4567888885 458885 26799999999877776
Q ss_pred EE
Q 015941 72 VM 73 (398)
Q Consensus 72 v~ 73 (398)
|-
T Consensus 82 V~ 83 (85)
T cd01774 82 VQ 83 (85)
T ss_pred Ee
Confidence 53
No 88
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.73 E-value=0.07 Score=42.85 Aligned_cols=68 Identities=22% Similarity=0.274 Sum_probs=57.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC--C-CCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLK--D-VTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~--D-~~tL~d~gIk~~s~I~v~ 73 (398)
+|.||..+|+.+.-.+..++++.+|..-|... | ++....+|+ |--|.|. | +.+|.+.|+....+|+|-
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 68899999999999999999999999999764 6 667788886 7788885 3 579999999988888763
No 89
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.42 E-value=0.039 Score=38.76 Aligned_cols=39 Identities=26% Similarity=0.406 Sum_probs=35.7
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 172 LEATVQQILDM--GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 172 ~e~~I~~i~~M--G~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
.++.|..|.+| . ++++.|++.|++.-+|.|+|++.|+.|
T Consensus 2 ~~~~v~~L~~mFP~---l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPN---LDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46789999999 5 899999999999999999999999976
No 90
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=95.31 E-value=0.064 Score=43.99 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=58.8
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|.|-..+|..+.+.|..+.+...|.+..+...| -..+..|++|+|+-++-++|-.|++..+++.|.++.
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 344445677888899999999999999999999 457899999999999999999999999998876553
No 91
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.056 Score=50.73 Aligned_cols=70 Identities=19% Similarity=0.208 Sum_probs=53.8
Q ss_pred EEEEEeCCC-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eecCC-CCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKG-THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML-IHQG-----KVLKD-VTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g-~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL-If~G-----K~L~D-~~tL~d~gIk~~s~I~v~ 73 (398)
+|.|.+-.. ..+...+..+.||.+||.|++-.+| .+++.++| +|.| ..|.| +..|..|+..+|-.|||+
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 455543322 2245567789999999999999999 89999998 5765 34654 679999999999999988
Q ss_pred E
Q 015941 74 L 74 (398)
Q Consensus 74 v 74 (398)
=
T Consensus 80 D 80 (234)
T KOG3206|consen 80 D 80 (234)
T ss_pred e
Confidence 5
No 92
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=94.49 E-value=0.1 Score=36.62 Aligned_cols=37 Identities=35% Similarity=0.442 Sum_probs=33.3
Q ss_pred HHHHHHHHc--CCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 356 EAIERLEAM--GFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 356 ~ai~rl~~l--Gf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
+.|++|.+| .+++..+...+.+|++|.+.|.+.||+.
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 568999999 5689999999999999999999999964
No 93
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=94.26 E-value=0.066 Score=42.59 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=46.4
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc-ccCCCcEEEEEE
Q 015941 17 VKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN-KVAENSFVVVML 74 (398)
Q Consensus 17 V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~-gIk~~s~I~v~v 74 (398)
|.++++|.+|++.|...... .......|.++|+.|+|...|+++ |++++..|.|+.
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 56789999999999877542 456677899999999998889888 689999888874
No 94
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=93.63 E-value=0.22 Score=37.62 Aligned_cols=55 Identities=22% Similarity=0.304 Sum_probs=40.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+|. |+ .+++....|+.+||.++... .=.+||+|-..+++. -+++||.|+++-
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~---------~DI~I~NGF~~~~d~-----~L~e~D~v~~Ik 55 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKPD---------ADIVILNGFPTKEDI-----ELKEGDEVFLIK 55 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCCC---------CCEEEEcCcccCCcc-----ccCCCCEEEEEe
Confidence 666663 54 46777888999999876332 226799999888754 567899998874
No 95
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.08 E-value=0.1 Score=39.02 Aligned_cols=23 Identities=35% Similarity=0.679 Sum_probs=19.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHH
Q 015941 173 EATVQQILDMGGGSWDRETVIRALRA 198 (398)
Q Consensus 173 e~~I~~i~~MG~~~f~r~qv~~ALrA 198 (398)
...|+++++|| |+|+.|+.|||-
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 96
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.06 E-value=0.068 Score=39.95 Aligned_cols=37 Identities=27% Similarity=0.526 Sum_probs=25.5
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhC-----CCHHHHHHHHhc
Q 015941 355 REAIERLEAMGFDRALVLEVFFACN-----KNEELAANYLLD 391 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~-----~ne~~A~~~L~~ 391 (398)
.+.|+|++.|||+++.||++|..-+ .+.+...|..++
T Consensus 10 ~~lVd~F~~mGF~~dkVvevlrrlgik~~n~~dn~t~~~ilE 51 (55)
T PF09288_consen 10 KDLVDQFENMGFERDKVVEVLRRLGIKSMNGVDNETENKILE 51 (55)
T ss_dssp HHHHHHHHHHT--HHHHHHHHHHS--SS--SS--HHHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCccchhHHHHHH
Confidence 5679999999999999999998653 345666676654
No 97
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=92.83 E-value=0.15 Score=51.56 Aligned_cols=70 Identities=14% Similarity=0.125 Sum_probs=60.1
Q ss_pred CEEEEEeC--CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC--CcccccccCCCcEEEEE
Q 015941 1 MKVFVKTL--KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDV--TTLEENKVAENSFVVVM 73 (398)
Q Consensus 1 MkI~VKtl--~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~--~tL~d~gIk~~s~I~v~ 73 (398)
|.++|.+. ..++|.++|..+.....|+..+....| +..+..-|||++++|.++ ..|..||++.+++|.+-
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g---~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTG---IVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhC---cccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 67777655 567889999999999999999999999 899999999999999765 68999999999887543
No 98
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=92.75 E-value=0.18 Score=40.93 Aligned_cols=36 Identities=28% Similarity=0.482 Sum_probs=31.5
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCC
Q 015941 176 VQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGI 214 (398)
Q Consensus 176 I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GI 214 (398)
|+.+.+.| |.++.|.+||++.-.+|..|..|+++++
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 56778899 9999999999999999999999999873
No 99
>PRK06437 hypothetical protein; Provisional
Probab=92.43 E-value=0.91 Score=35.06 Aligned_cols=59 Identities=20% Similarity=0.354 Sum_probs=44.9
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 4 FVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 4 ~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
+|+--.++...++++...||.+|-+.+ + ++.....+..+|+++. .++-|++||.|.++-
T Consensus 4 ~~~v~g~~~~~~~i~~~~tv~dLL~~L----g---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 4 MIRVKGHINKTIEIDHELTVNDIIKDL----G---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred eEEecCCcceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 344334556778888888999887654 6 7788888899999997 566788999998874
No 100
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=91.84 E-value=0.22 Score=40.51 Aligned_cols=35 Identities=29% Similarity=0.637 Sum_probs=30.9
Q ss_pred HHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 358 IERLEAMGFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 358 i~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
|+++.++||++..|++|+.+|-.|..+|..|++..
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 67789999999999999999999999999988865
No 101
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=91.65 E-value=0.28 Score=35.28 Aligned_cols=37 Identities=22% Similarity=0.463 Sum_probs=30.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHH
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLY 211 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~ 211 (398)
.++.+.-|+.+| |.+.++.+|++....+|+.-+|.++
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 578899999999 9999999999998867766677765
No 102
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=91.13 E-value=1 Score=35.04 Aligned_cols=57 Identities=11% Similarity=0.142 Sum_probs=40.9
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGS-DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~-~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
...++++...||.+|.+.+...++. .........+..+|+... .+.-|++||.|.++
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 4667887789999999999887541 001123456667998887 34568899999987
No 103
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=91.11 E-value=0.83 Score=36.20 Aligned_cols=66 Identities=11% Similarity=0.166 Sum_probs=45.2
Q ss_pred CEEEEEeCC------C-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCcccccccCCCcEEE
Q 015941 1 MKVFVKTLK------G-THFEIEVKPEDKVSDVKKNIETVQGSDVYPA--SQQMLIHQGKVLKDVTTLEENKVAENSFVV 71 (398)
Q Consensus 1 MkI~VKtl~------g-~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~--~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~ 71 (398)
|+|+|+... | ....+++....||.+|++.|...... +.. ....+..+|+...+ ++-|++||.|.
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 778887552 4 45677888889999999999776420 111 12345678888653 34578899998
Q ss_pred EE
Q 015941 72 VM 73 (398)
Q Consensus 72 v~ 73 (398)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 87
No 104
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=90.87 E-value=1.3 Score=34.58 Aligned_cols=67 Identities=21% Similarity=0.177 Sum_probs=49.5
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCcccccccCCCcEEEEE
Q 015941 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QG--KVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf----~G--K~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
|+.++|...+++|+.+.|+.+|=..|+.+.+. ...+-.-|.| +| .-|+.+++|.++..+.+....+.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l--~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~ 73 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGL--KEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLY 73 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTT--SSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCC--CCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEE
Confidence 67789999999999999999999999999983 2344556777 23 33778889999877733333333
No 105
>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=90.68 E-value=0.21 Score=37.95 Aligned_cols=38 Identities=29% Similarity=0.543 Sum_probs=29.3
Q ss_pred HhhccHHHH--HHHHHHHhChHHHHHHhhhCHHHHHHHHH
Q 015941 279 FLRNSQQFQ--ALRTMVQANPQILQELGKQNPHLMRLIQE 316 (398)
Q Consensus 279 ~Lr~~P~f~--~lrq~vq~nP~lLqqi~~~nP~L~q~I~~ 316 (398)
.+++||++. -|.++-++||++++.|.++--+|+++|.+
T Consensus 16 ~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~ 55 (59)
T PF09280_consen 16 LVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNE 55 (59)
T ss_dssp HHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHS
T ss_pred HHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcC
Confidence 355589865 68899999999999997776677887765
No 106
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=89.45 E-value=0.99 Score=34.25 Aligned_cols=40 Identities=30% Similarity=0.388 Sum_probs=35.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
.-++|++|-|.-++ +..+++-..|+-++++||.||+-||+
T Consensus 5 ~rk~VQ~iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 5 SRKTVQSIKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 45889999998544 89999999999999999999999986
No 107
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=88.69 E-value=1.9 Score=32.76 Aligned_cols=60 Identities=13% Similarity=0.258 Sum_probs=42.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+.+ + ..||.+|...+ + +......+-++|+++. .....+.-+++||.|.++-
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 56655 5777666 3 35899988765 4 5555566778999886 3345567789999998874
No 108
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=88.49 E-value=3.2 Score=32.17 Aligned_cols=50 Identities=26% Similarity=0.457 Sum_probs=38.9
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
...++++...||.+|.+.+ + ++.....+..+|+++.. +.-|++||.|.++
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 5677888889999998765 5 66666777889999854 5557889988876
No 109
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=88.15 E-value=0.15 Score=50.75 Aligned_cols=59 Identities=25% Similarity=0.396 Sum_probs=0.0
Q ss_pred EEEEEeCCCcEEEEEeC---C--CCCHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCcccc
Q 015941 2 KVFVKTLKGTHFEIEVK---P--EDKVSDVKKNIET----------VQGSDVYPASQQM-----LIHQGKVLKDVTTLEE 61 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~---~--~~TV~dLK~~I~~----------~~g~~~ip~~~Qk-----LIf~GK~L~D~~tL~d 61 (398)
.|++|.+.+-.+.|.+. + +.+|.+||..++. +.+ +|.+++| |+|+.|.+.|.++|.+
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 46677776665555433 2 5789999999999 777 8999999 9999999999999887
Q ss_pred cc
Q 015941 62 NK 63 (398)
Q Consensus 62 ~g 63 (398)
+.
T Consensus 157 ~l 158 (309)
T PF12754_consen 157 VL 158 (309)
T ss_dssp --
T ss_pred HH
Confidence 74
No 110
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=88.11 E-value=2 Score=34.61 Aligned_cols=36 Identities=17% Similarity=0.162 Sum_probs=33.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G 50 (398)
++.|.|.+..+..+|+.+|.++.+ ++.+..+|.|+-
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkd 47 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKS 47 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEecc
Confidence 899999999999999999999999 889999999964
No 111
>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=85.92 E-value=2.9 Score=34.15 Aligned_cols=74 Identities=18% Similarity=0.199 Sum_probs=49.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----Ceec-CCCCccccc----ccCCCcEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ----GKVL-KDVTTLEEN----KVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~----GK~L-~D~~tL~d~----gIk~~s~I~v 72 (398)
.+++|+.+|+.+.+.+.++..+.+|+..|..+.|.+........|.|- -++| .-+.-|.+| ......+|.+
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~iar~~g~~~v~L 81 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSDSDLVAAVLVARSAGLKKLDL 81 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEeccchHHHHHHHHHHcCCCEEEE
Confidence 467889999999999999999999999999999933222256777772 2333 333334444 2233445665
Q ss_pred EEe
Q 015941 73 MLT 75 (398)
Q Consensus 73 ~v~ 75 (398)
.+.
T Consensus 82 ~v~ 84 (86)
T cd06409 82 HLH 84 (86)
T ss_pred EEe
Confidence 553
No 112
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=85.59 E-value=0.91 Score=47.37 Aligned_cols=41 Identities=22% Similarity=0.385 Sum_probs=37.9
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCCCC
Q 015941 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPE 216 (398)
Q Consensus 173 e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GIP~ 216 (398)
...|.+|+.|| |++-..+.||++.-||-|.|.++|+--++.
T Consensus 430 ~~~la~Lv~mG---F~e~~A~~ALe~~gnn~~~a~~~L~~s~~n 470 (568)
T KOG2561|consen 430 GISLAELVSMG---FEEGKARSALEAGGNNEDTAQRLLSASVAN 470 (568)
T ss_pred hhhHHHHHHhc---cccchHHHHHHhcCCcHHHHHHHHHHhCCC
Confidence 35799999999 999999999999999999999999988764
No 113
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=84.60 E-value=4.4 Score=33.30 Aligned_cols=62 Identities=13% Similarity=0.198 Sum_probs=42.2
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--e--CCe-ecCC-CCcccccccCCCcEEEEEEec
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--H--QGK-VLKD-VTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f--~GK-~L~D-~~tL~d~gIk~~s~I~v~v~k 76 (398)
..++..++..+||..+++.+.+.+. + ...-||- | ++. .|.+ +.||.|.||.+|..|++=.+.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~---i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFN---I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT-----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhC---C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 3567788999999999999999998 7 6667873 3 232 3655 579999999999988776654
No 114
>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=83.88 E-value=2.2 Score=31.08 Aligned_cols=39 Identities=28% Similarity=0.440 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHH--cCCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 352 PEEREAIERLEA--MGFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 352 ~ee~~ai~rl~~--lGf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
|||. |++... -|=+|+..|+-+...+-|.++|+|-|++.
T Consensus 9 Pedl--I~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 9 PEDL--INQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp -HHH--HHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHH--HHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 4444 555444 38999999999999999999999999987
No 115
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=83.44 E-value=9.5 Score=34.56 Aligned_cols=61 Identities=21% Similarity=0.204 Sum_probs=45.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEe--C-C---eecCCCCcccccccC
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIH--Q-G---KVLKDVTTLEENKVA 65 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLIf--~-G---K~L~D~~tL~d~gIk 65 (398)
.|.|..++|....+.++.+.||.+|...|+.+.| +.. ...-|.+ . + .-|+...+|.+...+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 5788899999999999999999999999999999 532 2233433 1 2 346667777777655
No 116
>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=83.17 E-value=3.2 Score=29.06 Aligned_cols=36 Identities=25% Similarity=0.403 Sum_probs=29.9
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHH
Q 015941 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLY 211 (398)
Q Consensus 173 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~ 211 (398)
++.|.+.|+. | -+++.++.-|+.+-+|.++||..-+
T Consensus 1 ~e~i~~F~~iTg---~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 1 DEKIAQFMSITG---ADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CHHHHHHHHHHC---cCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4678888886 7 7999999999999999999997655
No 117
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=82.74 E-value=7 Score=30.72 Aligned_cols=58 Identities=19% Similarity=0.277 Sum_probs=41.6
Q ss_pred CCcE-EEEEeCCC-CCHHHHHHHHHHHhCCCCCC--CCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 9 KGTH-FEIEVKPE-DKVSDVKKNIETVQGSDVYP--ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 9 ~g~~-~~ieV~~~-~TV~dLK~~I~~~~g~~~ip--~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
.|+. ..+++... .||.+|+..+..+++. +- .....+..+|+...+ +.-|++||.|.++
T Consensus 13 ~g~~~~~~~~~~~~~tv~~L~~~L~~~~p~--l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 13 AGTDEETLELPDESTTVGELKEHLAKEGPE--LAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred hCCCeEEEECCCCCcCHHHHHHHHHHhCch--hhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 3443 57888876 8999999999888641 11 123456678888775 4578899999887
No 118
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=82.68 E-value=3.8 Score=31.50 Aligned_cols=60 Identities=15% Similarity=0.150 Sum_probs=46.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
...+.+....||.+|.+.+..++..- .......+..+|+.+.+ ...+.-+++||.|.++-
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~-~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~p 72 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPEL-ALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILP 72 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGG-HTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhcccc-ccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEEC
Confidence 56788889999999999998886410 12367788899999988 36667788999999873
No 119
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=82.33 E-value=6.1 Score=30.64 Aligned_cols=67 Identities=16% Similarity=0.209 Sum_probs=52.2
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 9 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI-f~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
+|+...++.+.+..+.-+..+--+..|...-|++...|- -+|.+|+-++.++|||+.++-++.+.++
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 677788888888887777777777766433567766664 4788999899999999999988887764
No 120
>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=81.03 E-value=4.3 Score=33.16 Aligned_cols=61 Identities=18% Similarity=0.150 Sum_probs=42.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEec
Q 015941 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 13 ~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k 76 (398)
+...++-..++..||+.++.+.+ +..+...+......|+.+++|-+-||+-...|.+.+--
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~---~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLG---ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH----S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhC---CCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 44566667899999999999999 77888888888878999999999999988888877653
No 121
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=80.83 E-value=9 Score=30.87 Aligned_cols=70 Identities=16% Similarity=0.139 Sum_probs=46.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCC----ee-cCCCCcccc----cccCCCcEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQG----KV-LKDVTTLEE----NKVAENSFV 70 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkLIf~G----K~-L~D~~tL~d----~gIk~~s~I 70 (398)
|+|++. .+|..+.+.+.++.++.+|+.+|.++.+ +.. ....|-|.. .+ |..+.-|.+ |.....++|
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v 76 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTI 76 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeE
Confidence 445554 3667888999999999999999999988 543 466776632 11 333333444 344455667
Q ss_pred EEEE
Q 015941 71 VVML 74 (398)
Q Consensus 71 ~v~v 74 (398)
.+.+
T Consensus 77 ~l~v 80 (82)
T cd06407 77 RLLV 80 (82)
T ss_pred EEEe
Confidence 6665
No 122
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=80.18 E-value=2.4 Score=43.40 Aligned_cols=65 Identities=23% Similarity=0.354 Sum_probs=52.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCCc
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQGKVLKD-VTTLEENKVAENS 68 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~GK~L~D-~~tL~d~gIk~~s 68 (398)
.|-||.-+|+.+...++.+.||.||+..|.....- .+...+-|+ |--|.|.| +.||++.||.+.-
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~--~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsv 374 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPG--DSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSV 374 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCC--CcCCceeeeecCCCcccCCcchhHHhccchhhh
Confidence 47889889999999999999999999999988652 334456665 66799976 6799999998644
No 123
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=80.02 E-value=2.3 Score=35.54 Aligned_cols=33 Identities=27% Similarity=0.309 Sum_probs=23.0
Q ss_pred EEEeCCeecCCCCccccc-ccCCCcEEEEEEecC
Q 015941 45 MLIHQGKVLKDVTTLEEN-KVAENSFVVVMLTKS 77 (398)
Q Consensus 45 kLIf~GK~L~D~~tL~d~-gIk~~s~I~v~v~k~ 77 (398)
.|-|.||.|..+++|++| |-.+...|+|-+.++
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~ 36 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKR 36 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccC
Confidence 477999999999999999 333344555444443
No 124
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=79.78 E-value=8.7 Score=29.97 Aligned_cols=45 Identities=16% Similarity=0.178 Sum_probs=36.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G 50 (398)
+|.++. ++..+.+.|....|..+|+.+|..+++ +.....+|-|..
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 455554 667888999999999999999999998 655678887753
No 125
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=79.76 E-value=5.6 Score=34.57 Aligned_cols=60 Identities=17% Similarity=0.174 Sum_probs=43.1
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-------CCCCCCeEEEeC-----------------Ceec---CCCCcccccccCCC
Q 015941 16 EVKP-EDKVSDVKKNIETVQGSD-------VYPASQQMLIHQ-----------------GKVL---KDVTTLEENKVAEN 67 (398)
Q Consensus 16 eV~~-~~TV~dLK~~I~~~~g~~-------~ip~~~QkLIf~-----------------GK~L---~D~~tL~d~gIk~~ 67 (398)
.|+. +.||.+|++.|.+..... .+..+..||++. ..+| +++++|.+|||.+.
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE 100 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE 100 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence 4776 899999999998775321 133455666642 2467 67889999999998
Q ss_pred cEEEEEEe
Q 015941 68 SFVVVMLT 75 (398)
Q Consensus 68 s~I~v~v~ 75 (398)
.-|-+...
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 88887754
No 126
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=78.77 E-value=1.1 Score=35.86 Aligned_cols=26 Identities=35% Similarity=0.484 Sum_probs=23.2
Q ss_pred CHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 188 DRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 188 ~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
++.+++.||.-.|+|+++||.||++-
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 89999999999999999999999987
No 127
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=78.54 E-value=14 Score=29.41 Aligned_cols=59 Identities=12% Similarity=0.264 Sum_probs=40.1
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCC---CCC-----CCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSD---VYP-----ASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~---~ip-----~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
....+++. ..||.+|.+.|.+++..- .+. .....+..+|+...++.. .-|++||.|.++
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 34677876 889999999998885410 010 123556678887765432 568899999887
No 128
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=77.60 E-value=7.8 Score=29.50 Aligned_cols=60 Identities=17% Similarity=0.255 Sum_probs=42.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+.+ ....||.+|-.. .+ ++....-+.++|+++..+. ...+ +++||.|-++-
T Consensus 1 m~i~v---NG~~~~~--~~~~tl~~ll~~----l~---~~~~~vav~~N~~iv~r~~-~~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVV---NEEQVEV--DEQTTVAALLDS----LG---FPEKGIAVAVDWSVLPRSD-WATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhH-hhhh-cCCCCEEEEEe
Confidence 56655 5766554 567788887654 46 7788889999999886433 2345 89999998874
No 129
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=76.61 E-value=3.4 Score=43.94 Aligned_cols=39 Identities=31% Similarity=0.601 Sum_probs=34.7
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHhc-ChHHHHHHHHcCC
Q 015941 173 EATVQQILDMGGGSWDRETVIRALRAAYN-NPERAVEYLYSGI 214 (398)
Q Consensus 173 e~~I~~i~~MG~~~f~r~qv~~ALrAafn-NPdRAvEYL~~GI 214 (398)
...|.+|++|| |+.+.+.|||-+.-| +-+-|+.||.--+
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 999999999998766 6889999999664
No 130
>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=75.64 E-value=12 Score=30.65 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=35.3
Q ss_pred EEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 015941 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGK 51 (398)
Q Consensus 2 kI~VKtl-~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK 51 (398)
+|+||.. .|..+.+.|.++.+..+|..+|.++++ +. ...+|-|...
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 677899999999999999999999999 53 4556656543
No 131
>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=74.98 E-value=10 Score=28.88 Aligned_cols=39 Identities=18% Similarity=0.433 Sum_probs=33.5
Q ss_pred HHHHHHHHHHc-C-CChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 354 EREAIERLEAM-G-FDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 354 e~~ai~rl~~l-G-f~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
-+.-|+-|++. | ++++++.-.|.-|+-|.+.|++.|+++
T Consensus 5 ~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 5 SRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 35567788876 4 699999999999999999999999975
No 132
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=74.64 E-value=1.9 Score=34.32 Aligned_cols=45 Identities=20% Similarity=0.384 Sum_probs=34.3
Q ss_pred ccCCHHHHHHHHH----HH-HcC--C-ChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 348 VTVTPEEREAIER----LE-AMG--F-DRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 348 ~~lt~ee~~ai~r----l~-~lG--f-~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
..||++|++.+.. ++ .|| . ++.++++|++.|.-|.+-|++||++.
T Consensus 18 ~~Ls~ed~~~L~~~l~~vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~ 70 (79)
T PF08938_consen 18 DELSPEDQAQLYSCLPQVREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLSK 70 (79)
T ss_dssp HH-TCHHHHHHCHHCCCHHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHC
T ss_pred ccCCHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence 4688888887544 33 356 5 89999999999999999999999975
No 133
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=74.34 E-value=6.9 Score=26.80 Aligned_cols=30 Identities=27% Similarity=0.475 Sum_probs=17.2
Q ss_pred HHHHHHhChHHHHHHh--hhCHHHHHHHHH-CHH
Q 015941 289 LRTMVQANPQILQELG--KQNPHLMRLIQE-HQT 319 (398)
Q Consensus 289 lrq~vq~nP~lLqqi~--~~nP~L~q~I~~-n~e 319 (398)
++++++ ||.+.+-+. .+||++++.+-+ ||+
T Consensus 4 ~~~~l~-~P~~~~~l~~~~~nP~~~~~~~~~nP~ 36 (41)
T smart00727 4 MALRLQ-NPQVQSLLQDMQQNPDMLAQMLQENPQ 36 (41)
T ss_pred HHHHHc-CHHHHHHHHHHHHCHHHHHHHHHhCHH
Confidence 444555 787772222 557776666555 665
No 134
>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=74.26 E-value=8.5 Score=30.32 Aligned_cols=52 Identities=21% Similarity=0.105 Sum_probs=41.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC--C--eecCCCC
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ--G--KVLKDVT 57 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~--G--K~L~D~~ 57 (398)
+.|...+|+.-.+.|.+..||.++-.++.++.| +.++...|.+. + +.+..+.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~~~~~~~~~~~~ 57 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLGLDEKKPLDLDT 57 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEecCCCcCCcCchh
Confidence 467778999999999999999999999999999 77777666544 4 4454443
No 135
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=74.25 E-value=16 Score=27.51 Aligned_cols=61 Identities=13% Similarity=0.251 Sum_probs=42.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+ ++....||.+|-.. .+ ++.....+.++|+++.-. ...+.-+++||.|-++-
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~lL~~----l~---~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQL---NGEPR--ELPDGESVAALLAR----EG---LAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVH 61 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cC---CCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEE
Confidence 55555 57654 55667898887754 45 777778888999888633 23444588999988764
No 136
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=73.28 E-value=20 Score=27.26 Aligned_cols=61 Identities=7% Similarity=0.206 Sum_probs=41.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+. +....||.+|.+.+ + +......+-.+++++.. ....++-+++||.|.++-
T Consensus 1 m~i~v---Ng~~~~--~~~~~tl~~ll~~l----~---~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILF---NDQPMQ--CAAGQTVHELLEQL----N---QLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEE---CCeEEE--cCCCCCHHHHHHHc----C---CCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEE
Confidence 56665 576654 46677999888653 4 44556777899999852 234455688999988774
No 137
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.04 E-value=5.3 Score=40.29 Aligned_cols=54 Identities=17% Similarity=0.142 Sum_probs=43.9
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeec-----CCCCcccccccCCCcEEEEE
Q 015941 17 VKPEDKVSDVKKNIETVQGSDVYPASQQMLIH---QGKVL-----KDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 17 V~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf---~GK~L-----~D~~tL~d~gIk~~s~I~v~ 73 (398)
|+-..||.|||+++..+.| +.+.++||+| .||.- .-++.|-.|+|.+||.+.|-
T Consensus 354 I~~~~TV~D~~~~Ld~~VG---vk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 354 ICMTRTVLDFMKILDPKVG---VKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred EEeehHHHHHHHHhccccc---cccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 4445699999999999999 8899999987 55543 33678999999999988764
No 138
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=72.44 E-value=23 Score=26.47 Aligned_cols=60 Identities=10% Similarity=0.130 Sum_probs=39.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+ ++....||.+|.+.+ + +. ....+.++|+++..+. ..+.-+++||.|.++-
T Consensus 1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~---~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQL---NQQTL--SLPDGATVADALAAY----G---AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEE---CCEEE--ECCCCCcHHHHHHhh----C---CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 55555 46654 556678999988765 3 32 3456678998875322 3334488899998874
No 139
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=72.39 E-value=27 Score=28.26 Aligned_cols=46 Identities=30% Similarity=0.512 Sum_probs=32.4
Q ss_pred HHHhhhCHHHHHHHHHCHHHHHHHhcCCCCCCCCCccccccccCCccccCCHHHHHHH-----HHHHHcCCChhH
Q 015941 301 QELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAI-----ERLEAMGFDRAL 370 (398)
Q Consensus 301 qqi~~~nP~L~q~I~~n~e~Fl~~l~~~~~~~~~~~~~~~~~~~~~~~~lt~ee~~ai-----~rl~~lGf~~~~ 370 (398)
++| .++|.+++...++|+.|+. ...||+||+++| ..|..+|-..-.
T Consensus 11 ~~L-~~dp~~rerF~~DPea~~~-----------------------~~gLt~eE~~aL~~~D~~~L~~lGvhp~L 61 (81)
T cd07922 11 QEL-FKDPGLIERFQDDPSAVFE-----------------------EYGLTPAERAALREGTFGALTSIGVHPIL 61 (81)
T ss_pred HHH-hcCHHHHHHHHHCHHHHHH-----------------------HcCCCHHHHHHHHccCHHHHHHcCCCHHH
Confidence 555 4579999999999999843 235799999996 345566654433
No 140
>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=72.08 E-value=14 Score=27.80 Aligned_cols=57 Identities=9% Similarity=0.242 Sum_probs=40.8
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 8 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
++|+.+ +++...||.+|.+++ + ++.+...+.++|+++..+ ...++-|++||.|.++-
T Consensus 4 iNg~~~--~~~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 4 VNGEPR--EVEEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT 60 (65)
T ss_pred ECCeEE--EcCCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 456554 456678999998765 4 566778888999998543 33445688999998773
No 141
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=71.59 E-value=14 Score=38.43 Aligned_cols=73 Identities=15% Similarity=0.233 Sum_probs=57.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CCee--cCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QGKV--LKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf----~GK~--L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|-+.+|...| ...++|+++++.+.|-.+|-.-...+ +.+++..++- .|.+ +..+.++.|+|+++|+.|+|-.
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 7788887666 46789999999999998887766433 7777877764 3443 3457899999999999999887
Q ss_pred e
Q 015941 75 T 75 (398)
Q Consensus 75 ~ 75 (398)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 3
No 142
>smart00455 RBD Raf-like Ras-binding domain.
Probab=71.50 E-value=15 Score=28.67 Aligned_cols=49 Identities=18% Similarity=0.202 Sum_probs=41.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G--K~L~ 54 (398)
+.|-..+|+...+.+.+..||.++-.+|.++.| +.++...|...| |.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~---l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRG---LNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccee
Confidence 356667899999999999999999999999999 888888887754 4554
No 143
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=70.76 E-value=8.2 Score=31.39 Aligned_cols=52 Identities=12% Similarity=0.100 Sum_probs=28.2
Q ss_pred CCCCHHHHHHHHHH-HhCCCCCCC-C---CeEEEeCCee----cCCCCcccccccCCCcEEEEE
Q 015941 19 PEDKVSDVKKNIET-VQGSDVYPA-S---QQMLIHQGKV----LKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 19 ~~~TV~dLK~~I~~-~~g~~~ip~-~---~QkLIf~GK~----L~D~~tL~d~gIk~~s~I~v~ 73 (398)
...|+.+|-++|-+ +.| +-. . .-++||.... -..+++|+++||++|++|.|.
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg---~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLG---MNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp TT-BHHHHHHHCCCCCS-----SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hhCcHHHHHHHHHHhccC---CCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 36799999988754 444 211 1 3345554332 122578999999999998764
No 144
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=70.20 E-value=5 Score=41.09 Aligned_cols=30 Identities=17% Similarity=0.360 Sum_probs=24.5
Q ss_pred cccCCcchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 015941 165 NLVAGSNLEATVQQILDMGGGSWDRETVIRALR 197 (398)
Q Consensus 165 ~l~~g~~~e~~I~~i~~MG~~~f~r~qv~~ALr 197 (398)
.++..--++++|+.++.|| |.||+|+.-.|
T Consensus 314 ~~~~~~p~ddvidKv~~MG---f~rDqV~a~v~ 343 (358)
T PF07223_consen 314 QSGNRHPYDDVIDKVASMG---FRRDQVRATVR 343 (358)
T ss_pred cccccCcHHHHHHHHHHcC---CcHHHHHHHHH
Confidence 3455566899999999999 99999987444
No 145
>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=69.73 E-value=4 Score=29.23 Aligned_cols=26 Identities=19% Similarity=0.314 Sum_probs=21.4
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCC
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNK 380 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ 380 (398)
.+++.-|..|||++.++.+|.-....
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~~~ 29 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKLLE 29 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 46799999999999999999887753
No 146
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=69.50 E-value=22 Score=28.79 Aligned_cols=57 Identities=5% Similarity=0.161 Sum_probs=40.3
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 8 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
++|+.+ +++...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|.++-
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 356654 44567788887664 35 6666777789999984 3456677799999998874
No 147
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=68.24 E-value=17 Score=28.76 Aligned_cols=63 Identities=21% Similarity=0.221 Sum_probs=40.7
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCcccccccCCCcEEEEEEec
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH------QGKVLKDVTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf------~GK~L~D~~tL~d~gIk~~s~I~v~v~k 76 (398)
++|-+=.+++.||.+|+..|..++.+ +.|....|.- .|--|+.+.+++|. +..++.|.|+++.
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 45656678999999999999999864 3344334321 23334445555554 3467888888753
No 148
>PLN03196 MOC1-like protein; Provisional
Probab=67.32 E-value=45 Score=35.61 Aligned_cols=42 Identities=26% Similarity=0.428 Sum_probs=32.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHH-----H---hcChHHHHHHHHc-CCCC
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRA-----A---YNNPERAVEYLYS-GIPE 216 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrA-----a---fnNPdRAvEYL~~-GIP~ 216 (398)
+...|.-+.++| +.++++.+.++. . -+|-..-|+||.. |++.
T Consensus 196 l~p~v~fL~~lG---vs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~ 246 (487)
T PLN03196 196 MSTSVAYLVSIG---VAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPR 246 (487)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCH
Confidence 456788999999 999999888762 2 3566788999986 5553
No 149
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=65.35 E-value=33 Score=26.73 Aligned_cols=63 Identities=16% Similarity=0.298 Sum_probs=43.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|.++|. ++|+. +++....||.+|-+. .+ ++.+..-+.++|.++..+ ...+.-++++|.|.++-
T Consensus 1 ~~m~i~-~ng~~--~e~~~~~tv~dLL~~----l~---~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~ 63 (68)
T COG2104 1 MPMTIQ-LNGKE--VEIAEGTTVADLLAQ----LG---LNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVR 63 (68)
T ss_pred CcEEEE-ECCEE--EEcCCCCcHHHHHHH----hC---CCCceEEEEECCEEccch-hhhhccccCCCEEEEEE
Confidence 445555 34655 555666899998765 45 777778888999998643 23455678888887763
No 150
>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=65.15 E-value=23 Score=26.62 Aligned_cols=57 Identities=11% Similarity=0.260 Sum_probs=39.9
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 8 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
++|+.+. +....||.+|.+.+ + ++++...+.++|+++..+ ...++-|++||.|.++-
T Consensus 3 iNg~~~~--~~~~~tv~~ll~~l----~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPVE--VEDGLTLAALLESL----G---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEEE--cCCCCcHHHHHHHc----C---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 4666544 46677999988764 4 566677778999988432 23455689999988774
No 151
>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=63.73 E-value=23 Score=27.57 Aligned_cols=43 Identities=19% Similarity=0.187 Sum_probs=33.5
Q ss_pred EEEEeCCCcEEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC
Q 015941 3 VFVKTLKGTHFE-IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ 49 (398)
Q Consensus 3 I~VKtl~g~~~~-ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~ 49 (398)
|.++. ++..+. +.+..+.|..+|+.+|...++ .+....+|-|.
T Consensus 4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~ 47 (84)
T PF00564_consen 4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYK 47 (84)
T ss_dssp EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEE
T ss_pred EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEee
Confidence 44443 444555 899999999999999999999 66678888884
No 152
>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=63.41 E-value=27 Score=26.95 Aligned_cols=45 Identities=22% Similarity=0.131 Sum_probs=33.4
Q ss_pred EEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 015941 2 KVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIHQG 50 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G 50 (398)
+|.++. +|..+.+.+. .+.|..+|+.+|..+.+ +.....+|-|..
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFG---LDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhC---CCCCcEEEEeeC
Confidence 455553 3567778887 89999999999999998 544566666643
No 153
>PRK07440 hypothetical protein; Provisional
Probab=63.27 E-value=38 Score=26.24 Aligned_cols=57 Identities=12% Similarity=0.243 Sum_probs=40.2
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 8 LKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 8 l~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
++|+. +++....||.+|-+. .+ +.+...-+-++|+++.- ....++-+++||.|.++-
T Consensus 9 vNG~~--~~~~~~~tl~~lL~~----l~---~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 9 VNGET--RTCSSGTSLPDLLQQ----LG---FNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVT 65 (70)
T ss_pred ECCEE--EEcCCCCCHHHHHHH----cC---CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 46765 455667899887753 45 66777777899999863 234556688999988774
No 154
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=63.15 E-value=39 Score=25.90 Aligned_cols=61 Identities=11% Similarity=0.224 Sum_probs=41.1
Q ss_pred CEEEEEeCCCcEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVKPE-DKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~-~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
|+|+| +|+.+. +... .||.+|-+. .+ +.+...-+-++|+++.-+ ...++-|++||.|.++-
T Consensus 1 m~I~v---NG~~~~--~~~~~~tv~~lL~~----l~---~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKI---NGNQIE--VPESVKTVAELLTH----LE---LDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEE---CCEEEE--cCCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 55655 577654 4444 578877653 45 666777778999998642 35556689999988774
No 155
>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=62.16 E-value=46 Score=35.17 Aligned_cols=73 Identities=15% Similarity=0.206 Sum_probs=54.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCC---CCCCCeEEE-eCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDV---YPASQQMLI-HQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~---ip~~~QkLI-f~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
+|+|...+ +...+-+..+..|.+|--.|-+..+.+. .....-.|. -+|..|+-+.+|.+.||.||+.+++.-+
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 57777543 4577778888999999999988877421 112233443 4788999999999999999999998743
No 156
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=61.47 E-value=15 Score=31.64 Aligned_cols=39 Identities=13% Similarity=0.098 Sum_probs=30.6
Q ss_pred cCCHHHHHHHHHHHH-cCCChhHHHHHHHHhCCCHHHHHHHHh
Q 015941 349 TVTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYLL 390 (398)
Q Consensus 349 ~lt~ee~~ai~rl~~-lGf~~~~~~~a~~ac~~ne~~A~~~L~ 390 (398)
.++++|.+ -+.+ -|-+++.|++||..|++|.-.|.-+|-
T Consensus 76 ~i~~eDI~---lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 76 EITEDDIE---LVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCCHHHHH---HHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 35555544 4444 489999999999999999999988874
No 157
>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=61.25 E-value=44 Score=25.96 Aligned_cols=56 Identities=14% Similarity=0.068 Sum_probs=40.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccc
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEE 61 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf--~GK~L~D~~tL~d 61 (398)
+.|.-.+|+...+.|.+..||.++-.++.++.| +.+....+.. ..|.|.-++....
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~ 60 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSS 60 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceee
Confidence 456677899999999999999999999999999 7777665543 4456665555443
No 158
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=60.58 E-value=34 Score=32.23 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=31.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCccccc
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPAS---QQML--IHQGKV---LKDVTTLEEN 62 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~---~QkL--If~GK~---L~D~~tL~d~ 62 (398)
.+.+-|..+.||.||..++..+.+ ++.+ ..|| ++++|+ |..+..|.++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~---~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVG---FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT-------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcC---CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 477889999999999999999988 5443 4555 578876 5677888876
No 159
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=60.21 E-value=44 Score=28.53 Aligned_cols=59 Identities=12% Similarity=0.113 Sum_probs=41.5
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCccccc--ccC-CCcEEEEEEec
Q 015941 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVLKDVTTLEEN--KVA-ENSFVVVMLTK 76 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLIf~GK~L~D~~tL~d~--gIk-~~s~I~v~v~k 76 (398)
+-|..+.||.+|...|..... +.+++ .-|..++....-+.+|+++ .-+ ++.+|+|..+.
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 65665 3444466555667777665 223 47788887754
No 160
>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=59.73 E-value=23 Score=38.31 Aligned_cols=65 Identities=25% Similarity=0.340 Sum_probs=42.0
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCCeEEEe--C--Ce-ecCCC-------------CcccccccCC
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYP------ASQQMLIH--Q--GK-VLKDV-------------TTLEENKVAE 66 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip------~~~QkLIf--~--GK-~L~D~-------------~tL~d~gIk~ 66 (398)
..+.+.|-.-|||.++|+||-+..=++ .| +++.-|-+ + |+ +|+|. .||..|+|.+
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 457888888999999999998765322 33 23334433 2 33 56653 2589999999
Q ss_pred CcEEEEEEec
Q 015941 67 NSFVVVMLTK 76 (398)
Q Consensus 67 ~s~I~v~v~k 76 (398)
|++|.++.+.
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 161
>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=59.43 E-value=60 Score=27.29 Aligned_cols=74 Identities=19% Similarity=0.097 Sum_probs=45.6
Q ss_pred EEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHh--CCCC-CCCC-CeEEEeCCee--cCCCCccccc-----ccCCCcEE
Q 015941 3 VFVKTLK-GTHFEIEVKPEDKVSDVKKNIETVQ--GSDV-YPAS-QQMLIHQGKV--LKDVTTLEEN-----KVAENSFV 70 (398)
Q Consensus 3 I~VKtl~-g~~~~ieV~~~~TV~dLK~~I~~~~--g~~~-ip~~-~QkLIf~GK~--L~D~~tL~d~-----gIk~~s~I 70 (398)
|.|+..+ ...+++.++.++|+.+|.+.+-.+. ..+. -+.+ +..|--.|+. |..+..|.+| .++.+..+
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 3568999999999999999887762 1111 1122 3444344532 5555666665 36778888
Q ss_pred EEEEec
Q 015941 71 VVMLTK 76 (398)
Q Consensus 71 ~v~v~k 76 (398)
+|++..
T Consensus 100 ~L~L~~ 105 (108)
T smart00144 100 HLVLMT 105 (108)
T ss_pred eEEEEe
Confidence 888754
No 162
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=58.91 E-value=57 Score=26.67 Aligned_cols=67 Identities=19% Similarity=0.179 Sum_probs=45.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCcc----cccccCCCcEEE
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI------HQGKVLKDVTTL----EENKVAENSFVV 71 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI------f~GK~L~D~~tL----~d~gIk~~s~I~ 71 (398)
|.|...+|....|.|+...|+.++-+.+..+.++. +...--|+ +=-|.|+|...| ...++..+..|+
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~--~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l~ 81 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ--DDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLF 81 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC--CCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEE
Confidence 45556689999999999999999999999998842 22233332 124677887654 444564444443
No 163
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=58.64 E-value=9.2 Score=38.86 Aligned_cols=66 Identities=14% Similarity=0.050 Sum_probs=52.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecCC--CCcccccccCCCcE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG---KVLKD--VTTLEENKVAENSF 69 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G---K~L~D--~~tL~d~gIk~~s~ 69 (398)
.|.||..+|+.+...+-.+++|..|-..+...... .+-+..||+++- |.|.+ +.||.++||.+..+
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 47899999988777778899999988887776643 667788999876 66643 67999999998664
No 164
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=57.67 E-value=16 Score=34.33 Aligned_cols=36 Identities=25% Similarity=0.341 Sum_probs=32.1
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 174 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
..|.+|-++ | ..=-+|..||..+-+|-|.|++||--
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 568888886 7 88899999999999999999999974
No 165
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=57.21 E-value=18 Score=29.29 Aligned_cols=38 Identities=16% Similarity=0.464 Sum_probs=27.7
Q ss_pred ccHHHHHHHHHHHhChHHHHHHhhhCHHHHHHHHHCHHHH
Q 015941 282 NSQQFQALRTMVQANPQILQELGKQNPHLMRLIQEHQTDF 321 (398)
Q Consensus 282 ~~P~f~~lrq~vq~nP~lLqqi~~~nP~L~q~I~~n~e~F 321 (398)
.-|.|..|+.+.+.||+.+.++.+. ..-++|.+-++.+
T Consensus 2 ~lp~FD~L~~LA~~dPe~fe~lr~~--~~ee~I~~a~~~~ 39 (83)
T PF11333_consen 2 ELPDFDELKELAQNDPEAFEQLRQE--LIEEMIESAPEEM 39 (83)
T ss_pred CCCCHHHHHHHHHhCHHHHHHHHHH--HHHHHHHhCCHHH
Confidence 3578999999999999999666553 4445666655544
No 166
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=57.20 E-value=33 Score=38.11 Aligned_cols=64 Identities=16% Similarity=0.223 Sum_probs=46.0
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCC--cccccccCCCcEEEEEEecC
Q 015941 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVT--TLEENKVAENSFVVVMLTKS 77 (398)
Q Consensus 9 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~--tL~d~gIk~~s~I~v~v~k~ 77 (398)
+...+.+-|+++.|+..|+.+|...+| +|.+.|-|+|.|......+ +..--| -.+-|+|+....
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h~~~~~Q~~~dg--~~~~l~l~~~~~ 388 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSHLEDSAQCIPDG--LDSPLYLVSDQD 388 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccccCcccccCCCC--CCCceEEEecCC
Confidence 456678889999999999999999999 9999999999976543322 211112 234566665443
No 167
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=56.72 E-value=8.8 Score=26.61 Aligned_cols=24 Identities=29% Similarity=0.505 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHhCCCHHHHHHHH
Q 015941 366 FDRALVLEVFFACNKNEELAANYL 389 (398)
Q Consensus 366 f~~~~~~~a~~ac~~ne~~A~~~L 389 (398)
|.+..+.+|+..|++|...||..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 346778899999999999999987
No 168
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=56.42 E-value=39 Score=29.43 Aligned_cols=58 Identities=14% Similarity=0.265 Sum_probs=43.7
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc---cCCCcEEEEEEe
Q 015941 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENK---VAENSFVVVMLT 75 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~g---Ik~~s~I~v~v~ 75 (398)
+-|..+.||.+|...|..+.+ +.+++.-|..++.++.-+.+++++- -.++.+|+|..+
T Consensus 45 llVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 368899999999999999998 7788754555676667777887761 235668887764
No 169
>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=56.37 E-value=3.7 Score=29.65 Aligned_cols=20 Identities=30% Similarity=0.700 Sum_probs=13.0
Q ss_pred HHHHHH-cCCCCCCHHHHHHHHHH
Q 015941 176 VQQILD-MGGGSWDRETVIRALRA 198 (398)
Q Consensus 176 I~~i~~-MG~~~f~r~qv~~ALrA 198 (398)
|..|-. || |+|++|..||+.
T Consensus 6 v~~Ls~tMG---Y~kdeI~eaL~~ 26 (46)
T PF08587_consen 6 VSKLSKTMG---YDKDEIYEALES 26 (46)
T ss_dssp HHHHHCTT------HHHHHHHCCS
T ss_pred HHHHHHHhC---CCHHHHHHHHHc
Confidence 444443 99 999999999996
No 170
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=55.89 E-value=18 Score=37.84 Aligned_cols=73 Identities=16% Similarity=0.162 Sum_probs=58.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCcccccccCCCcEEEEEEec
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKD---VTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkL--If~GK~L~D---~~tL~d~gIk~~s~I~v~v~k 76 (398)
+|.||..+|..|+-.+..+.-+..+|..|....+ +.....-| -|-.|+..| +++|.++.+.+...|+|+-++
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 5788989999998888888888999999987776 66666666 588898854 579999999998877777544
Q ss_pred C
Q 015941 77 S 77 (398)
Q Consensus 77 ~ 77 (398)
+
T Consensus 393 r 393 (506)
T KOG2507|consen 393 R 393 (506)
T ss_pred C
Confidence 3
No 171
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=55.80 E-value=17 Score=36.24 Aligned_cols=36 Identities=22% Similarity=0.249 Sum_probs=32.2
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 174 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
..|.+|-++ | +.=-+|..||..+-+|-|+|++||--
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 468888886 7 88899999999999999999999973
No 172
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=55.66 E-value=33 Score=34.74 Aligned_cols=63 Identities=8% Similarity=0.119 Sum_probs=45.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEec
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~k 76 (398)
|+|+| +|+. +++....||.+|-+. .+ ++.+...+.++|+++. .....++-|++||.|.++---
T Consensus 1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVp-r~~w~~t~LkeGD~IEII~~V 63 (326)
T PRK11840 1 MRIRL---NGEP--RQVPAGLTIAALLAE----LG---LAPKKVAVERNLEIVP-RSEYGQVALEEGDELEIVHFV 63 (326)
T ss_pred CEEEE---CCEE--EecCCCCcHHHHHHH----cC---CCCCeEEEEECCEECC-HHHcCccccCCCCEEEEEEEe
Confidence 56655 5765 445667788887754 45 7788888899999995 234566679999999888543
No 173
>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=55.53 E-value=16 Score=29.67 Aligned_cols=55 Identities=20% Similarity=0.264 Sum_probs=37.6
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--------C------CCCcccccccCCCcEEEEE
Q 015941 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL--------K------DVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L--------~------D~~tL~d~gIk~~s~I~v~ 73 (398)
|+|++++|+.+|-+.+++... +....=-|-.+||.| + =+++|.++ +.+|+.|+|.
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 678999999999999998743 333333333444332 1 26789999 9999988874
No 174
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=55.17 E-value=47 Score=26.72 Aligned_cols=53 Identities=23% Similarity=0.300 Sum_probs=41.0
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCcccccccCCCcEEEEEE
Q 015941 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 10 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf-~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
+..+.+.++...||+++-+ ..| +|..+..+|+ +|+...= +|-+++|+.|.|.-
T Consensus 22 ~~~~~~~~~~~~tvkd~IE----sLG---VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIE----SLG---VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHH----HcC---CChHHeEEEEECCEECCC-----cccCCCCCEEEEEe
Confidence 4567888999999988764 468 9999998875 8877654 36788999998873
No 175
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=54.05 E-value=26 Score=30.23 Aligned_cols=40 Identities=15% Similarity=0.093 Sum_probs=31.8
Q ss_pred cCCHHHHHHHHHHHH-cCCChhHHHHHHHHhCCCHHHHHHHHhc
Q 015941 349 TVTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYLLD 391 (398)
Q Consensus 349 ~lt~ee~~ai~rl~~-lGf~~~~~~~a~~ac~~ne~~A~~~L~~ 391 (398)
.++++|.+. +++ -|-+++.|++||..|++|.-.|.-+|-+
T Consensus 74 ~i~~edI~l---v~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 74 EIPEEDIEL---VAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCHHHHHH---HHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 456666544 443 5899999999999999999999988753
No 176
>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=53.80 E-value=17 Score=28.95 Aligned_cols=40 Identities=25% Similarity=0.494 Sum_probs=31.5
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHhcC-hHHHHHHHHcCCC
Q 015941 175 TVQQILDMGGGSWDRETVIRALRAAYNN-PERAVEYLYSGIP 215 (398)
Q Consensus 175 ~I~~i~~MG~~~f~r~qv~~ALrAafnN-PdRAvEYL~~GIP 215 (398)
-+--||=+|+|.|+-++-..|++-|-.+ -.+.++||+ |.|
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 4556788999999999999999888555 457889997 444
No 177
>PF13556 HTH_30: PucR C-terminal helix-turn-helix domain; PDB: 3ONQ_B.
Probab=53.35 E-value=14 Score=27.40 Aligned_cols=23 Identities=26% Similarity=0.209 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCHHHHHHHHhcc
Q 015941 370 LVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 370 ~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
+.+++|+.|++|...||.-||=+
T Consensus 3 ~TL~~yl~~~~n~~~tA~~L~iH 25 (59)
T PF13556_consen 3 ETLRAYLENNGNISKTARALHIH 25 (59)
T ss_dssp -HHHHHHHTTT-HHHHHHHHTS-
T ss_pred hHHHHHHHcCCCHHHHHHHHCCC
Confidence 46899999999999999999743
No 178
>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=53.27 E-value=46 Score=27.55 Aligned_cols=75 Identities=15% Similarity=0.090 Sum_probs=44.4
Q ss_pred EEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHh--CCCCCCCC-CeEEEeCCe--ecCCCCccccc-----ccCCCcEE
Q 015941 2 KVFVKTL-KGTHFEIEVKPEDKVSDVKKNIETVQ--GSDVYPAS-QQMLIHQGK--VLKDVTTLEEN-----KVAENSFV 70 (398)
Q Consensus 2 kI~VKtl-~g~~~~ieV~~~~TV~dLK~~I~~~~--g~~~ip~~-~QkLIf~GK--~L~D~~tL~d~-----gIk~~s~I 70 (398)
+|.|... .+..+++.|+.+.|+.+|...+..+. +....... +..|--.|+ -|..+..|.+| .++.+..+
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 45679999999999999998888772 21001111 344433443 36677778777 36677778
Q ss_pred EEEEec
Q 015941 71 VVMLTK 76 (398)
Q Consensus 71 ~v~v~k 76 (398)
+|++..
T Consensus 98 ~L~Lv~ 103 (106)
T PF00794_consen 98 HLVLVH 103 (106)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 777654
No 179
>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=53.19 E-value=45 Score=28.16 Aligned_cols=56 Identities=16% Similarity=0.147 Sum_probs=40.8
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCccccc---ccCCCcEEEEEEe
Q 015941 17 VKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVLKDVTTLEEN---KVAENSFVVVMLT 75 (398)
Q Consensus 17 V~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLIf~GK~L~D~~tL~d~---gIk~~s~I~v~v~ 75 (398)
|..+.||.+|...|..+.. +.+++ .-|+.++..+..+.+|+++ .-.++.+|+|...
T Consensus 39 vp~~~tv~qf~~~ir~rl~---l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys 98 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQ---LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYS 98 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT-----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEE
T ss_pred EcCCCchhhHHHHhhhhhc---CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEec
Confidence 6788999999999999987 55553 5566688777888888776 2246778888764
No 180
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=52.34 E-value=1.1e+02 Score=23.91 Aligned_cols=66 Identities=20% Similarity=0.201 Sum_probs=41.0
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCCC-Ccccc--cccCCCcEEEEEEec
Q 015941 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI--HQG----KVLKDV-TTLEE--NKVAENSFVVVMLTK 76 (398)
Q Consensus 10 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI--f~G----K~L~D~-~tL~d--~gIk~~s~I~v~v~k 76 (398)
+...+|.|+.++|..+|-..+..+++.+. .+....|+ +.+ +.|.|+ ..|.- .....+....+++++
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl~~~~~~~~~~~~~~F~lr~ 86 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPLQIQLNAPRQREDLRFLLRK 86 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChHHHHHhcCCCCCcEEEEEec
Confidence 55578999999999999999999999431 35555554 222 466664 44431 222333444555443
No 181
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=52.06 E-value=33 Score=33.90 Aligned_cols=70 Identities=7% Similarity=0.184 Sum_probs=52.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC---CCcccccccCCCcEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD---VTTLEENKVAENSFVVV 72 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D---~~tL~d~gIk~~s~I~v 72 (398)
.|-||..+|+++...+....|+..|...|.-..+.+ ..|-.+.--|-.+.+.+ .++|..+++...++|++
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 478898899999999999999999999999998833 21222322355666643 46899999988776654
No 182
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=51.94 E-value=15 Score=32.68 Aligned_cols=63 Identities=14% Similarity=0.206 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHhCCC--CCCCCCeEEEe-----------------CC-eecCCCCcccccccCCCcEEEEEEecCC
Q 015941 19 PEDKVSDVKKNIETVQGSD--VYPASQQMLIH-----------------QG-KVLKDVTTLEENKVAENSFVVVMLTKSK 78 (398)
Q Consensus 19 ~~~TV~dLK~~I~~~~g~~--~ip~~~QkLIf-----------------~G-K~L~D~~tL~d~gIk~~s~I~v~v~k~~ 78 (398)
-+.|+.+|-..|.+....- .--.=++.+|| .| |-.+|+++|..++++-||+|.|.++.++
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 3578899888887642100 00001223333 23 3457899999999999999999998766
Q ss_pred CCC
Q 015941 79 VSS 81 (398)
Q Consensus 79 ~~~ 81 (398)
..+
T Consensus 140 ~~~ 142 (151)
T KOG3391|consen 140 RRP 142 (151)
T ss_pred cCC
Confidence 443
No 183
>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=51.62 E-value=56 Score=26.29 Aligned_cols=36 Identities=11% Similarity=0.073 Sum_probs=32.1
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ 49 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~ 49 (398)
-++.|.|.+..+..+|..+|.++.. .+++..+|.|.
T Consensus 7 fTVai~v~~g~~y~~L~~~ls~kL~---l~~~~~~LSY~ 42 (78)
T cd06411 7 FTVALRAPRGADVSSLRALLSQALP---QQAQRGQLSYR 42 (78)
T ss_pred EEEEEEccCCCCHHHHHHHHHHHhc---CChhhcEEEec
Confidence 3566788899999999999999999 88999999995
No 184
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=51.50 E-value=21 Score=33.64 Aligned_cols=29 Identities=28% Similarity=0.424 Sum_probs=25.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHhcC
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN 202 (398)
..+++|.-|+++| |.|.++.+|++...++
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 9999999999986663
No 185
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=51.41 E-value=32 Score=29.68 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=33.7
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 173 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
++.|.-+|+- | -.|+.+++||+.+-++.-.|+-||..+
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 5778888884 7 899999999999999999999999753
No 186
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=51.37 E-value=20 Score=30.07 Aligned_cols=31 Identities=23% Similarity=0.457 Sum_probs=27.9
Q ss_pred CCcchHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Q 015941 168 AGSNLEATVQQILDMGGGSWDRETVIRALRAAYN 201 (398)
Q Consensus 168 ~g~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 201 (398)
.-.|+..++.+|.+-| |+++....+||++|+
T Consensus 67 ~~~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Yk 97 (100)
T PF15652_consen 67 LQEEFNNSYREMFDAG---VSKECRKKALKAQYK 97 (100)
T ss_pred HHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHh
Confidence 3467888999999999 999999999999886
No 187
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=51.22 E-value=17 Score=29.29 Aligned_cols=30 Identities=27% Similarity=0.490 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhChHHHHHHhhhCHHHHHHH
Q 015941 285 QFQALRTMVQANPQILQELGKQNPHLMRLI 314 (398)
Q Consensus 285 ~f~~lrq~vq~nP~lLqqi~~~nP~L~q~I 314 (398)
-+.+|+.++++||+...+|-..||+|.-.+
T Consensus 34 ll~~mK~l~~~~p~~ar~lL~~nPqLa~Al 63 (84)
T PF14327_consen 34 LLSQMKQLAQQNPEQARQLLQQNPQLAYAL 63 (84)
T ss_dssp HHHHHHHHHC----HHHHHHHS-THHHHHH
T ss_pred HHHHHHHHHHhCHHHHHHHHHHCcHHHHHH
Confidence 356899999999999988889999998765
No 188
>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=51.20 E-value=1e+02 Score=24.09 Aligned_cols=55 Identities=20% Similarity=0.134 Sum_probs=37.6
Q ss_pred EEEEeCCCc----EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-e---CC--eecCCCCc
Q 015941 3 VFVKTLKGT----HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLI-H---QG--KVLKDVTT 58 (398)
Q Consensus 3 I~VKtl~g~----~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLI-f---~G--K~L~D~~t 58 (398)
|.|-..++. ...|.|..+.|+.+|-..+..+++.. -.+....|+ + .| +.|.|+..
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 445555555 77899999999999999999999921 134455663 2 23 56776543
No 189
>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=51.19 E-value=31 Score=37.17 Aligned_cols=9 Identities=33% Similarity=0.586 Sum_probs=6.0
Q ss_pred HHHHHhcCC
Q 015941 320 DFLRLINEP 328 (398)
Q Consensus 320 ~Fl~~l~~~ 328 (398)
.||..|+-.
T Consensus 416 yFL~VLnsD 424 (574)
T PF07462_consen 416 YFLDVLNSD 424 (574)
T ss_pred HHHHHHhhh
Confidence 677777654
No 190
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=50.28 E-value=26 Score=35.35 Aligned_cols=39 Identities=15% Similarity=0.270 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHc-CCChhHHHHHHHHhCCCHHHHHHHHhc
Q 015941 353 EEREAIERLEAM-GFDRALVLEVFFACNKNEELAANYLLD 391 (398)
Q Consensus 353 ee~~ai~rl~~l-Gf~~~~~~~a~~ac~~ne~~A~~~L~~ 391 (398)
..+++|.+|.+- |++-..|.+|+.-|+||..+|..||=+
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k 84 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHK 84 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHH
Confidence 467889999875 999999999999999999999999964
No 191
>CHL00098 tsf elongation factor Ts
Probab=48.50 E-value=28 Score=32.86 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=31.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 174 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
..|.+|-++ | ..=-+|..||..+-+|-|.|++||--
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 467778776 7 88889999999999999999999975
No 192
>PRK09377 tsf elongation factor Ts; Provisional
Probab=48.37 E-value=26 Score=34.91 Aligned_cols=36 Identities=28% Similarity=0.343 Sum_probs=32.3
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 174 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
..|.+|-++ | +.=-+|..||..+-+|-|.|++||-.
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 568888886 7 88899999999999999999999974
No 193
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=47.59 E-value=22 Score=33.18 Aligned_cols=29 Identities=14% Similarity=0.385 Sum_probs=25.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHhcC
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN 202 (398)
..++.+..|+.+| |.+.++.+|++....+
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~~~ 174 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIKNK 174 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhhc
Confidence 3578999999999 9999999999998754
No 194
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=47.08 E-value=1.1e+02 Score=23.91 Aligned_cols=54 Identities=6% Similarity=0.114 Sum_probs=32.4
Q ss_pred EEeCC-CCCHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 15 IEVKP-EDKVSDVKKNIETVQGS--DVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 15 ieV~~-~~TV~dLK~~I~~~~g~--~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
++++. ..||.+|++.|..++.. ........++..+++...+ +.-|++||.|.++
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 47999999999887531 0011223344446654433 3358899999887
No 195
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=46.07 E-value=1e+02 Score=24.41 Aligned_cols=41 Identities=22% Similarity=0.346 Sum_probs=30.0
Q ss_pred hhCHHHHHHHHHCHHHHHHHhcCCCCCCCCCccccccccCCccccCCHHHHHHH-----HHHHHcCCCh
Q 015941 305 KQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAI-----ERLEAMGFDR 368 (398)
Q Consensus 305 ~~nP~L~q~I~~n~e~Fl~~l~~~~~~~~~~~~~~~~~~~~~~~~lt~ee~~ai-----~rl~~lGf~~ 368 (398)
..+|++++...+||+.++.- ..||+||++|| .+|..+|=..
T Consensus 13 ~~~~~~re~f~~dp~a~~~~-----------------------~~Lt~eE~~al~~rD~~~L~~lG~~~ 58 (77)
T cd07321 13 LVKPEVKERFKADPEAVLAE-----------------------YGLTPEEKAALLARDVGALYVLGVNP 58 (77)
T ss_pred hcCHHHHHHHHhCHHHHHHH-----------------------cCCCHHHHHHHHcCCHHHHHHcCCCH
Confidence 45789999999999988532 35799999995 4566666433
No 196
>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=45.47 E-value=1.1e+02 Score=25.02 Aligned_cols=65 Identities=15% Similarity=0.171 Sum_probs=42.3
Q ss_pred CCcEEEEEeC-----CCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeC---Cee--cCCCCccccc-----ccCCCcEEEE
Q 015941 9 KGTHFEIEVK-----PEDKVSDVKKNIETVQGSDVYPA-SQQMLIHQ---GKV--LKDVTTLEEN-----KVAENSFVVV 72 (398)
Q Consensus 9 ~g~~~~ieV~-----~~~TV~dLK~~I~~~~g~~~ip~-~~QkLIf~---GK~--L~D~~tL~d~-----gIk~~s~I~v 72 (398)
+|....+.+. ++.+..+|+.+|.+.++ ++. ....|-|. |.. |.++.-|.++ +-....+|.+
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~~lrl 84 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLNPLRI 84 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCceEEE
Confidence 4555555555 47899999999999998 766 56777774 322 3444444433 3335778877
Q ss_pred EEec
Q 015941 73 MLTK 76 (398)
Q Consensus 73 ~v~k 76 (398)
.++.
T Consensus 85 ~v~~ 88 (91)
T cd06398 85 DVTV 88 (91)
T ss_pred EEEE
Confidence 7753
No 197
>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=44.91 E-value=1.1e+02 Score=27.42 Aligned_cols=74 Identities=16% Similarity=0.078 Sum_probs=38.0
Q ss_pred CEEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCC-CCCCCCe----EEE-eCCeecCCCCcccccccCCCcEEEEE
Q 015941 1 MKVFVKTLKGTHFEIEVK-PEDKVSDVKKNIETVQGSD-VYPASQQ----MLI-HQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~-~ip~~~Q----kLI-f~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
|||+|+.- ...+.|-+. .+.||.+|-++--.++.+- ...++.. +|- -.|-+|+.+..|.+. +.+.+.|+.+
T Consensus 1 mkvtV~fg-~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAv 78 (145)
T PF12053_consen 1 MKVTVCFG-RTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAV 78 (145)
T ss_dssp -EEEEEET-TEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEE
T ss_pred CeEEEEeC-CeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhhee
Confidence 89999963 334555554 5689999876655544210 0222322 233 256688878888775 4567777777
Q ss_pred Eec
Q 015941 74 LTK 76 (398)
Q Consensus 74 v~k 76 (398)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 654
No 198
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=44.28 E-value=6.8 Score=29.14 Aligned_cols=46 Identities=11% Similarity=-0.060 Sum_probs=39.0
Q ss_pred cCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHhccCCC
Q 015941 349 TVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLLDHMHE 395 (398)
Q Consensus 349 ~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~~~~~d 395 (398)
.++.+......+++..|+.+.. .+++..|.+.++++..+.+.+.+.
T Consensus 7 ~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 52 (57)
T COG5272 7 KATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMDCERNLEA 52 (57)
T ss_pred ccccccccccchHHHHhhccch-hhhhhhccChhhhhcccccccccc
Confidence 4566666677788999999999 999999999999999998877654
No 199
>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=44.26 E-value=1.7e+02 Score=23.72 Aligned_cols=60 Identities=12% Similarity=0.066 Sum_probs=40.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeec-CCCCccccc--ccCCCcEEEEEEec
Q 015941 14 EIEVKPEDKVSDVKKNIETVQGSDVYPASQ-QMLIHQGKVL-KDVTTLEEN--KVAENSFVVVMLTK 76 (398)
Q Consensus 14 ~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~-QkLIf~GK~L-~D~~tL~d~--gIk~~s~I~v~v~k 76 (398)
.+-|+.+.||.+|...|..+.+ +.+++ .-|..+...+ ..+.+++++ .-+++.+|+|..+.
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 65555 3343444323 345666554 22678888887653
No 200
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=43.63 E-value=28 Score=32.78 Aligned_cols=27 Identities=11% Similarity=0.324 Sum_probs=24.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 200 (398)
..++++.-|+.+| |.|.++.+|++...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3678999999999 99999999999885
No 201
>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=41.05 E-value=50 Score=27.14 Aligned_cols=54 Identities=20% Similarity=0.228 Sum_probs=33.0
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC------eecCCCCc---c--cccccCCCcEEEEE
Q 015941 15 IEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH-QG------KVLKDVTT---L--EENKVAENSFVVVM 73 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf-~G------K~L~D~~t---L--~d~gIk~~s~I~v~ 73 (398)
++++...||.+|-..|...+. ..+-+|+. +| .+|-++.. + .++-+++||.|.++
T Consensus 23 ~~~~~~~tV~dll~~L~~~~~-----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNLL-----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhCc-----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 344456799999999988753 33333333 22 22333322 3 35679999999887
No 202
>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=40.68 E-value=1.2e+02 Score=24.63 Aligned_cols=30 Identities=13% Similarity=0.159 Sum_probs=25.7
Q ss_pred CCCcEEEEEeCC--CCCHHHHHHHHHHHhCCCCCC
Q 015941 8 LKGTHFEIEVKP--EDKVSDVKKNIETVQGSDVYP 40 (398)
Q Consensus 8 l~g~~~~ieV~~--~~TV~dLK~~I~~~~g~~~ip 40 (398)
.+|.+..+.+++ +.+..+|++.|...++ ++
T Consensus 7 y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~---l~ 38 (81)
T cd06396 7 YNGESQSFLVSDSENTTWASVEAMVKVSFG---LN 38 (81)
T ss_pred ECCeEEEEEecCCCCCCHHHHHHHHHHHhC---CC
Confidence 467788888888 7799999999999998 66
No 203
>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=40.65 E-value=99 Score=25.72 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=32.0
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 015941 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH 48 (398)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf 48 (398)
++...|.+..+.|+.+.|..+|+.++.+..+ +... ..|-|
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 4556788889999999999999999999998 5544 44433
No 204
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=40.45 E-value=42 Score=33.18 Aligned_cols=35 Identities=23% Similarity=0.356 Sum_probs=28.8
Q ss_pred HHHHHcCCCCCCHHHHHHHHHHH-hcChHHHHHHH-HcCC
Q 015941 177 QQILDMGGGSWDRETVIRALRAA-YNNPERAVEYL-YSGI 214 (398)
Q Consensus 177 ~~i~~MG~~~f~r~qv~~ALrAa-fnNPdRAvEYL-~~GI 214 (398)
+.+|+|| |++.-+.+||--- .-+-+-|++|| +.+.
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 9999999999765 45678899999 6553
No 205
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=40.19 E-value=67 Score=28.00 Aligned_cols=40 Identities=15% Similarity=0.205 Sum_probs=31.6
Q ss_pred cCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHh
Q 015941 349 TVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLL 390 (398)
Q Consensus 349 ~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~ 390 (398)
.++++|.+-| ...-|-+|+++++|+..|++|.-.|+-.|-
T Consensus 82 ~i~eeDIkLV--~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 82 DISEEDIKLV--MEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCCHHHHHHH--HHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 4777776544 223599999999999999999998887663
No 206
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=39.61 E-value=39 Score=27.55 Aligned_cols=31 Identities=29% Similarity=0.508 Sum_probs=25.3
Q ss_pred ccCCcchHHHHHHHHHcCCCCC-CHHHHHH-HHHH
Q 015941 166 LVAGSNLEATVQQILDMGGGSW-DRETVIR-ALRA 198 (398)
Q Consensus 166 l~~g~~~e~~I~~i~~MG~~~f-~r~qv~~-ALrA 198 (398)
+-.+..+..-|+++++.| -| .|++|+| |||.
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 446788999999999998 56 9999988 5654
No 207
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=39.59 E-value=40 Score=32.57 Aligned_cols=70 Identities=19% Similarity=0.362 Sum_probs=45.4
Q ss_pred EEEEeCC--CcEE----EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CCee--cCCCCcccccccCCCcEE
Q 015941 3 VFVKTLK--GTHF----EIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH----QGKV--LKDVTTLEENKVAENSFV 70 (398)
Q Consensus 3 I~VKtl~--g~~~----~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf----~GK~--L~D~~tL~d~gIk~~s~I 70 (398)
|+||..+ .+++ .+-|+.+.+|.+|-..|.+..| +|.+.--++| .+++ |+.+.++....|.+||.|
T Consensus 71 lFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi 147 (249)
T PF12436_consen 71 LFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDII 147 (249)
T ss_dssp EEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEE
T ss_pred EEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEE
Confidence 5666543 2333 3568889999999999999999 8887665555 3444 677899999999999988
Q ss_pred EEEEe
Q 015941 71 VVMLT 75 (398)
Q Consensus 71 ~v~v~ 75 (398)
++=..
T Consensus 148 ~fQ~~ 152 (249)
T PF12436_consen 148 CFQRA 152 (249)
T ss_dssp EEEE-
T ss_pred EEEec
Confidence 87654
No 208
>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=38.30 E-value=1.2e+02 Score=32.85 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=9.4
Q ss_pred cccCCcchHHHHHHHHHcC
Q 015941 165 NLVAGSNLEATVQQILDMG 183 (398)
Q Consensus 165 ~l~~g~~~e~~I~~i~~MG 183 (398)
...+|+.-.....+|+.=|
T Consensus 351 QV~tGeae~~~~e~Iv~~~ 369 (574)
T PF07462_consen 351 QVTTGEAENAQPENIVPEG 369 (574)
T ss_pred cceeccccccchhhhhcCc
Confidence 3455555444455555544
No 209
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=38.06 E-value=36 Score=32.11 Aligned_cols=35 Identities=23% Similarity=0.559 Sum_probs=27.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcC-hHHHHHH
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNN-PERAVEY 209 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN-PdRAvEY 209 (398)
.+.+|.-|+.|| |.+.|+.+|+....-+ |+--++-
T Consensus 156 ~~~~v~AL~~LG---y~~~e~~~av~~v~~~~~~~~~~~ 191 (201)
T COG0632 156 LEEAVEALVALG---YKEKEIKKAVKKVLKENPDADVEE 191 (201)
T ss_pred hhHHHHHHHHcC---CCHHHHHHHHHHHHhcCCCCCHHH
Confidence 455699999999 9999999999988775 4444433
No 210
>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=37.46 E-value=66 Score=27.82 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=32.2
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHH
Q 015941 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLY 211 (398)
Q Consensus 173 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~ 211 (398)
++-|.-+++- | -+|+.+++||+.+.++.-.|+-||.
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 5678888884 7 8999999999999999999999985
No 211
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=37.30 E-value=85 Score=24.93 Aligned_cols=33 Identities=21% Similarity=0.113 Sum_probs=22.4
Q ss_pred EEEEeCCCcE-EEEEeC-CCCCHHHHHHHHHHHhC
Q 015941 3 VFVKTLKGTH-FEIEVK-PEDKVSDVKKNIETVQG 35 (398)
Q Consensus 3 I~VKtl~g~~-~~ieV~-~~~TV~dLK~~I~~~~g 35 (398)
|+.|....+. ..|.++ ...+|.+||..|..+.+
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 3445554443 456776 46799999999988766
No 212
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=35.74 E-value=47 Score=30.92 Aligned_cols=28 Identities=11% Similarity=0.409 Sum_probs=25.1
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAYN 201 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAafn 201 (398)
..++.+.-|+.+| |.+.++.+|++....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 4678999999999 999999999998854
No 213
>PF07746 LigA: Aromatic-ring-opening dioxygenase LigAB, LigA subunit; InterPro: IPR011986 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A (IPR004183 from INTERPRO) and B (IPR004183 from INTERPRO). LigAB is a protocatechuate 4,5-dioxygenase (1.13.11.8 from EC) that belongs to the extradiol class III enzyme family. The LigA subunit of this enzyme is multi-helical, containing a compact array of 6 short helices [].; PDB: 1BOU_A 1B4U_A.
Probab=35.46 E-value=1.1e+02 Score=25.04 Aligned_cols=40 Identities=28% Similarity=0.330 Sum_probs=27.6
Q ss_pred HHHhhhCHHHHHHHHHCHHHHHHHhcCCCCCCCCCccccccccCCccccCCHHHHHH-----HHHHHHcC
Q 015941 301 QELGKQNPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREA-----IERLEAMG 365 (398)
Q Consensus 301 qqi~~~nP~L~q~I~~n~e~Fl~~l~~~~~~~~~~~~~~~~~~~~~~~~lt~ee~~a-----i~rl~~lG 365 (398)
.+| .+|++++...++|++++. ...||+||+++ +.+|..+|
T Consensus 6 ~~L--~~~~~r~~F~~D~~a~~~-----------------------~~~Lt~eer~av~~rD~~~L~~~G 50 (88)
T PF07746_consen 6 WSL--NDPENRERFLADPEAYLD-----------------------EYGLTEEERQAVLDRDWLALIALG 50 (88)
T ss_dssp HGG--GSHHHHHHHHH-HHHHHH-----------------------CCT--HHHHHHHHCT-HHHHHHTT
T ss_pred HHH--cCHHHHHHHHHCHHHHHH-----------------------HcCCCHHHHHHHHcCCHHHHHHCC
Confidence 445 678888888888888743 23578999999 56688888
No 214
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=34.95 E-value=44 Score=31.30 Aligned_cols=28 Identities=11% Similarity=0.214 Sum_probs=24.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHhcC
Q 015941 172 LEATVQQILDMGGGSWDRETVIRALRAAYNN 202 (398)
Q Consensus 172 ~e~~I~~i~~MG~~~f~r~qv~~ALrAafnN 202 (398)
.++.+.-|+.+| |.|.++.+|++....+
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i~~~ 176 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAALPSD 176 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhhc
Confidence 578999999999 9999999999987543
No 215
>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=34.94 E-value=1e+02 Score=24.72 Aligned_cols=63 Identities=11% Similarity=0.206 Sum_probs=38.9
Q ss_pred EEEeCCC-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCcEEEEEEe
Q 015941 4 FVKTLKG-THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 4 ~VKtl~g-~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf--~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
.|++.+. .++=|-. .++.+|+.|...+.+ ++.+..+|+. .|-+++|+.-+.. +.+ .++.|++.
T Consensus 6 kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~t--Lp~-nT~lm~L~ 71 (78)
T PF02017_consen 6 KVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQT--LPD-NTVLMLLE 71 (78)
T ss_dssp EEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCC--SSS-SEEEEEEE
T ss_pred EEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhh--CCC-CCEEEEEC
Confidence 4555442 2344444 489999999999999 8777777765 6777776644333 333 44444443
No 216
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=34.87 E-value=70 Score=32.24 Aligned_cols=41 Identities=22% Similarity=0.280 Sum_probs=35.0
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 170 ~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
...++.++-|.+-| .+.+++..+++.+-++|.+|++|+..+
T Consensus 172 ~~~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~~ 212 (319)
T PRK08769 172 PPAHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRED 212 (319)
T ss_pred cCHHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 33467788888888 999999999999999999999999654
No 217
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=34.72 E-value=25 Score=24.65 Aligned_cols=26 Identities=35% Similarity=0.459 Sum_probs=11.0
Q ss_pred ccCCHHHHHHHHHHHHcCCChhHHHH
Q 015941 348 VTVTPEEREAIERLEAMGFDRALVLE 373 (398)
Q Consensus 348 ~~lt~ee~~ai~rl~~lGf~~~~~~~ 373 (398)
-+||.+|+..|++|.+.|++....-.
T Consensus 3 ~~Lt~~eR~~I~~l~~~G~s~~~IA~ 28 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQGMSIREIAK 28 (44)
T ss_dssp ---------HHHHHHCS---HHHHHH
T ss_pred cchhhhHHHHHHHHHHcCCCHHHHHH
Confidence 36899999999999999987766443
No 218
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=32.97 E-value=74 Score=26.25 Aligned_cols=34 Identities=44% Similarity=0.667 Sum_probs=25.6
Q ss_pred HHHHHHcCCChhHHH-HHHHHhCCCHHHHHHHHhc
Q 015941 358 IERLEAMGFDRALVL-EVFFACNKNEELAANYLLD 391 (398)
Q Consensus 358 i~rl~~lGf~~~~~~-~a~~ac~~ne~~A~~~L~~ 391 (398)
=.||.+.||++.-++ -=|+-..|||++=.+||-+
T Consensus 32 g~~L~~~GfdKAy~vLGqfLll~kde~~F~~WLk~ 66 (89)
T PF02961_consen 32 GKRLEEKGFDKAYVVLGQFLLLKKDEELFQDWLKD 66 (89)
T ss_dssp HHHHHHTT--BHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHCCCcHHHHHhhhhhhccCcHHHHHHHHHH
Confidence 469999999997665 5699999999998888864
No 219
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=32.67 E-value=51 Score=30.63 Aligned_cols=27 Identities=7% Similarity=0.352 Sum_probs=24.3
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 200 (398)
..++.+.-|+.+| |.|.++.+|++...
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 220
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=31.73 E-value=60 Score=30.42 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=24.4
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAAY 200 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAaf 200 (398)
..++++.-|+.+| |.+.++.+|++...
T Consensus 151 ~~~ea~~AL~~LG---y~~~ea~~al~~i~ 177 (197)
T PRK14603 151 AAEDAVLALLALG---FREAQVRSVVAELL 177 (197)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 3678999999999 99999999999875
No 221
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=31.71 E-value=1.5e+02 Score=29.33 Aligned_cols=29 Identities=14% Similarity=0.193 Sum_probs=19.2
Q ss_pred cCCCCcccccccCCCcEEEEEEecCCCCCC
Q 015941 53 LKDVTTLEENKVAENSFVVVMLTKSKVSSS 82 (398)
Q Consensus 53 L~D~~tL~d~gIk~~s~I~v~v~k~~~~~~ 82 (398)
|-|++.|-++.+|..+ +.+++||+..-+.
T Consensus 115 lv~~~di~e~~lk~~~-~e~~irkkeal~~ 143 (274)
T PLN02983 115 LVDSRDIVELQLKQLD-CELVIRKKEALPQ 143 (274)
T ss_pred hhccccceeeeccccc-eEEEEecccccCC
Confidence 5577777788887665 4556777665543
No 222
>PF06234 TmoB: Toluene-4-monooxygenase system protein B (TmoB); InterPro: IPR009355 This family consists of several Toluene-4-monooxygenase system protein B (TmoB) sequences. Pseudomonas mendocina KR1 metabolises toluene as a carbon source. The initial step of the pathway is hydroxylation of toluene to form p-cresol by a multicomponent toluene-4-monooxygenase (T4MO) system [].; PDB: 3N1Y_C 3RNG_C 3RNA_C 3RN9_C 3RNC_C 3N1X_C 3RNE_C 3RNF_C 3N1Z_C 3N20_C ....
Probab=31.53 E-value=1.5e+02 Score=24.21 Aligned_cols=62 Identities=18% Similarity=0.229 Sum_probs=42.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHh-CCCCCCC--C-CeEEEeCC--eecCCCCcccccccCCCcEEEEEEe
Q 015941 13 FEIEVKPEDKVSDVKKNIETVQ-GSDVYPA--S-QQMLIHQG--KVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 13 ~~ieV~~~~TV~dLK~~I~~~~-g~~~ip~--~-~QkLIf~G--K~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
.-+-|+..+|+.++-++++... |.. +++ + ..++-+.| ..|..+.++.+-||+.-+.|.++..
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrR-V~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRR-VAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTS-S---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhccee-cCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence 4568999999999999998643 432 322 2 34566888 8999999999999999999988753
No 223
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=31.43 E-value=55 Score=30.38 Aligned_cols=26 Identities=19% Similarity=0.548 Sum_probs=23.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHH
Q 015941 171 NLEATVQQILDMGGGSWDRETVIRALRAA 199 (398)
Q Consensus 171 ~~e~~I~~i~~MG~~~f~r~qv~~ALrAa 199 (398)
..++++.-|+++| |.|.++.+|++..
T Consensus 141 ~~~ea~~AL~~LG---y~~~ea~~a~~~~ 166 (183)
T PRK14601 141 DKSEALAALLTLG---FKQEKIIKVLASC 166 (183)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHhc
Confidence 3578999999999 9999999999976
No 224
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=31.17 E-value=1.1e+02 Score=26.34 Aligned_cols=37 Identities=24% Similarity=0.324 Sum_probs=30.8
Q ss_pred hHHHHHHHHH--cCCCCCCHHHHHHHHHHHhcChHHHHHHHHcCC
Q 015941 172 LEATVQQILD--MGGGSWDRETVIRALRAAYNNPERAVEYLYSGI 214 (398)
Q Consensus 172 ~e~~I~~i~~--MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~GI 214 (398)
+++.+++|.. .+ |.|++|+.+|.+-+ +..++||++|-
T Consensus 31 l~~Ia~~i~~~~s~---~t~~di~~vl~~~~---~~~~~~l~~G~ 69 (124)
T PF14848_consen 31 LEDIAEEIAKEGST---LTRADIEAVLNALK---DEMIEALMNGY 69 (124)
T ss_pred HHHHHHHHHHhCCC---CCHHHHHHHHHHHH---HHHHHHHhCCC
Confidence 5677788874 67 99999999999865 57889999994
No 225
>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=30.85 E-value=90 Score=28.24 Aligned_cols=44 Identities=20% Similarity=0.370 Sum_probs=29.2
Q ss_pred EEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 015941 12 HFEIEVKP-EDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (398)
Q Consensus 12 ~~~ieV~~-~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~ 62 (398)
.+.++++. .+.+..+++...+.+. ++. . |+-|+-++...|+.||
T Consensus 76 ri~lele~~~~~ie~I~~iCee~lp---f~y---~-i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 76 RIILELEDEEDVIEKIREICEEVLP---FGY---D-IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEecCcHHHHHHHHHHHHHhCC---Cce---E-eeeeEEeccCCchhhh
Confidence 35567777 5666666655544433 222 2 4579999999999998
No 226
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=30.44 E-value=20 Score=29.75 Aligned_cols=43 Identities=30% Similarity=0.501 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhChHHH----HHHhhhCHHHHHHHHHCHHHHHHHhcC
Q 015941 285 QFQALRTMVQANPQIL----QELGKQNPHLMRLIQEHQTDFLRLINE 327 (398)
Q Consensus 285 ~f~~lrq~vq~nP~lL----qqi~~~nP~L~q~I~~n~e~Fl~~l~~ 327 (398)
-..+|+++++.+-.-| ..|..-+|+|+..|..||..|+.++.+
T Consensus 18 Y~~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~ 64 (121)
T PF14551_consen 18 YMDQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEE 64 (121)
T ss_dssp CHHHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHH
T ss_pred HHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3568888888876666 889899999999999999988877644
No 227
>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=30.18 E-value=1.5e+02 Score=22.01 Aligned_cols=59 Identities=15% Similarity=0.151 Sum_probs=38.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
|+|.+.+|+... +....|+.|+=..|....++ .-.--..+|+...-+. -|+++++|.++
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 567778888755 67778999999999988762 1112245776655443 45667777664
No 228
>PF06755 DUF1219: Protein of unknown function (DUF1219); InterPro: IPR009610 This family consists of several hypothetical proteins which seem to be specific to the enterobacteria Escherichia coli and Shigella flexneri. Family members are often known as YeeV proteins and are around 125 residues in length. The function of this family is unknown.
Probab=30.09 E-value=51 Score=28.26 Aligned_cols=28 Identities=18% Similarity=0.318 Sum_probs=25.4
Q ss_pred CCChhHHHHHHHHhCCCHHHHHHHHhcc
Q 015941 365 GFDRALVLEVFFACNKNEELAANYLLDH 392 (398)
Q Consensus 365 Gf~~~~~~~a~~ac~~ne~~A~~~L~~~ 392 (398)
.|..+.||+.++-|+-..-.|+|||.+.
T Consensus 42 ~f~de~vI~~hidaGIs~~~AVN~LVeK 69 (114)
T PF06755_consen 42 PFSDETVIQEHIDAGISPADAVNFLVEK 69 (114)
T ss_pred ccchHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 4889999999999999999999999875
No 229
>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=29.82 E-value=64 Score=25.07 Aligned_cols=21 Identities=24% Similarity=0.536 Sum_probs=0.0
Q ss_pred HHHHHHHHHcCCChhHHHHHH
Q 015941 355 REAIERLEAMGFDRALVLEVF 375 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~ 375 (398)
.+|+..+..|||++.+|...+
T Consensus 12 daA~dam~~lG~~~~~v~~vl 32 (65)
T PF10440_consen 12 DAALDAMRQLGFSKKQVRPVL 32 (65)
T ss_pred HHHHHHHHHcCCCHHHHHHHH
No 230
>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=29.21 E-value=97 Score=27.94 Aligned_cols=43 Identities=19% Similarity=0.326 Sum_probs=29.0
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 015941 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62 (398)
Q Consensus 13 ~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~ 62 (398)
+-|++...+.|..+++...+.+. ++. -+..||-+.+..|+.||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~p---F~y----~i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLP---FGY----EVRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCC---Cce----EeeeeeEeecCCchhhh
Confidence 45666666677777765555433 221 15679999999999998
No 231
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=29.16 E-value=1.5e+02 Score=25.53 Aligned_cols=39 Identities=10% Similarity=0.211 Sum_probs=31.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec
Q 015941 12 HFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL 53 (398)
Q Consensus 12 ~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L 53 (398)
+-.+.|++++|+..+-..|.+..+ ++..++-++|=..-.
T Consensus 46 ~~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sF 84 (116)
T KOG3439|consen 46 KSKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSF 84 (116)
T ss_pred cceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCcc
Confidence 345678999999999999999998 888888888854443
No 232
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=28.52 E-value=2.2e+02 Score=23.69 Aligned_cols=60 Identities=17% Similarity=0.238 Sum_probs=43.0
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee---------cCCCCcccccccCCCcEEEE
Q 015941 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM-LIHQGKV---------LKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 10 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Qk-LIf~GK~---------L~D~~tL~d~gIk~~s~I~v 72 (398)
..++.+.|+++.|=.++|..|++.+| +.+.... |+..|+. +..+..-...-+..|..|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 46799999999999999999999999 7777664 3455531 34445555555666666544
No 233
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=28.39 E-value=1e+02 Score=31.14 Aligned_cols=38 Identities=16% Similarity=0.230 Sum_probs=31.3
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 173 EATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 173 e~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
+...+-|.+- | .+.+++..++|.|-++|.||.+||..|
T Consensus 170 ~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 170 QYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred HHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 4555566664 7 999999999999999999999999654
No 234
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=28.28 E-value=1.9e+02 Score=23.05 Aligned_cols=47 Identities=19% Similarity=0.251 Sum_probs=37.4
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 015941 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQG--KVLK 54 (398)
Q Consensus 5 VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~G--K~L~ 54 (398)
|--.+|..-.+.+.+..||.++-.++.++.| +.++...++.-| |.|.
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRg---l~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRG---INYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcC---CChhHEEEEEecCCcccc
Confidence 4456888889999999999999999999999 777777665544 4453
No 235
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=28.23 E-value=1.4e+02 Score=21.49 Aligned_cols=21 Identities=10% Similarity=0.297 Sum_probs=16.7
Q ss_pred HHHHHHhcChHHHHHHHHcCC
Q 015941 194 RALRAAYNNPERAVEYLYSGI 214 (398)
Q Consensus 194 ~ALrAafnNPdRAvEYL~~GI 214 (398)
++++.-|.|+++|..||-+-+
T Consensus 2 ~~a~~vfgd~~~a~~Wl~~p~ 22 (54)
T PF09722_consen 2 KQAEEVFGDEDKARRWLRTPN 22 (54)
T ss_pred hHHHHHHCCHHHHHHHHHChH
Confidence 456777999999999997443
No 236
>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=28.19 E-value=48 Score=22.86 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHHhcChHHHHHHHHcCCC
Q 015941 187 WDRETVIRALRAAYNNPERAVEYLYSGIP 215 (398)
Q Consensus 187 f~r~qv~~ALrAafnNPdRAvEYL~~GIP 215 (398)
|+|+-+..||+.+-+|..+|.+.| ||+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L--gis 31 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL--GIS 31 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH--TS-
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH--CCC
Confidence 788999999999999999999998 553
No 237
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=28.04 E-value=1.7e+02 Score=23.38 Aligned_cols=38 Identities=13% Similarity=0.291 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccc
Q 015941 21 DKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEE 61 (398)
Q Consensus 21 ~TV~dLK~~I~~~~g~~~ip~~~QkLIf--~GK~L~D~~tL~d 61 (398)
.+..+|+.|...+.+ ++....+|+. .|-+++|+.-+..
T Consensus 19 ~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~t 58 (74)
T smart00266 19 SSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQT 58 (74)
T ss_pred CCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhc
Confidence 379999999999999 7766677653 7888877654443
No 238
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=27.75 E-value=1.9e+02 Score=24.69 Aligned_cols=36 Identities=17% Similarity=0.297 Sum_probs=25.3
Q ss_pred CHHHHHHHHHCHHHHHHHhcCCCCCCCCCccccccccCCccccCCHHHHHHH-----HHHHHcC
Q 015941 307 NPHLMRLIQEHQTDFLRLINEPVEGGEGNVLGQLASAMPQAVTVTPEEREAI-----ERLEAMG 365 (398)
Q Consensus 307 nP~L~q~I~~n~e~Fl~~l~~~~~~~~~~~~~~~~~~~~~~~~lt~ee~~ai-----~rl~~lG 365 (398)
.|++++...+||+++++- ..||+||++|| .+|.++|
T Consensus 25 ~a~~Re~F~aD~eAy~~~-----------------------~gLTeEe~~AV~~rD~~~Li~lG 65 (106)
T cd07921 25 KAENREAFKADEEAYCDK-----------------------FGLTEEQKQAVLDRDWLRLLELG 65 (106)
T ss_pred CHHHHHHHHhCHHHHHHH-----------------------cCCCHHHHHHHHhCCHHHHHHhc
Confidence 688888888888887432 24688888884 4566666
No 239
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=27.15 E-value=1.1e+02 Score=34.82 Aligned_cols=63 Identities=13% Similarity=0.280 Sum_probs=46.6
Q ss_pred CCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCcccccc-c-CCCcEEEEEE
Q 015941 9 KGTHFEIEVK-PEDKVSDVKKNIETVQGSDVYPASQQMLIH-QGKVLKDVTTLEENK-V-AENSFVVVML 74 (398)
Q Consensus 9 ~g~~~~ieV~-~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf-~GK~L~D~~tL~d~g-I-k~~s~I~v~v 74 (398)
.|+.++++.+ ...|+.+||..|..+.| +....+.|+- +|..+.-++.|..|. . .+.+-|++..
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~---~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFn 69 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVG---HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFN 69 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhc---hhhceeeeeecCCcCcccccchhhhccccCCCCceEEee
Confidence 4777777776 45799999999999999 7777777764 567788788888886 2 3444555553
No 240
>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=27.03 E-value=1.6e+02 Score=23.63 Aligned_cols=38 Identities=11% Similarity=0.201 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccc
Q 015941 21 DKVSDVKKNIETVQGSDVYPASQQMLIH--QGKVLKDVTTLEE 61 (398)
Q Consensus 21 ~TV~dLK~~I~~~~g~~~ip~~~QkLIf--~GK~L~D~~tL~d 61 (398)
.+..+|+.|..++.+ ++....+|+. .|-+++|+.-+..
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~t 60 (78)
T cd01615 21 SSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQT 60 (78)
T ss_pred CCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhc
Confidence 379999999999999 7656666653 7888877654443
No 241
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=26.95 E-value=15 Score=35.86 Aligned_cols=60 Identities=17% Similarity=0.317 Sum_probs=44.4
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEE
Q 015941 9 KGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVV 72 (398)
Q Consensus 9 ~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v 72 (398)
.|..+.++++..++|.|.+..+.+..+ +.+...||++.+ .|++...|.++=.++..+.++
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~---vss~~~kll~~~-llk~iahl~~p~mkEh~f~vt 70 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAV---VSSKPNKLLALN-LLKEIAHLVSPLMKEHHFKVT 70 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeee---eccchHHHHhhh-hhhhhhhhhhhhhccccceeE
Confidence 578899999999999999999999888 778888888876 455544555554444444433
No 242
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=26.88 E-value=1.6e+02 Score=23.66 Aligned_cols=48 Identities=10% Similarity=0.192 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCcEEEEE
Q 015941 21 DKVSDVKKNIETVQGSDVYPASQQML--IHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 21 ~TV~dLK~~I~~~~g~~~ip~~~QkL--If~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
.+..+|+.|..+..+ ++....+| --.|-+++|+.-+.. +.++..++++
T Consensus 21 ~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~--LpdnT~lm~L 70 (78)
T cd06539 21 SSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQT--LGDNTHFMVL 70 (78)
T ss_pred cCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhh--CCCCCEEEEE
Confidence 379999999999999 76555555 447888877654443 3444444443
No 243
>PRK01777 hypothetical protein; Validated
Probab=26.86 E-value=2.8e+02 Score=22.88 Aligned_cols=70 Identities=7% Similarity=-0.019 Sum_probs=39.3
Q ss_pred CEEEEEeC-C--CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEEe
Q 015941 1 MKVFVKTL-K--GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVMLT 75 (398)
Q Consensus 1 MkI~VKtl-~--g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v~ 75 (398)
|+|.|..- . ...+.++|....||.++-....-......+.....++.-+||...-+ .-+++||.|-++-.
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~d-----~~L~dGDRVeIyrP 76 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKLT-----DVLRDGDRVEIYRP 76 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCCC-----CcCCCCCEEEEecC
Confidence 45666532 2 23367788999999998766421111000111223454566665443 35788999998843
No 244
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=26.18 E-value=38 Score=29.12 Aligned_cols=29 Identities=17% Similarity=0.313 Sum_probs=23.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHH
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNI 30 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I 30 (398)
|+|.|+. +++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~i-~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITI-GGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEE-TTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEE-CCEEEEEEECCCHHHHHHHHhC
Confidence 7899984 5889999999998888888765
No 245
>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=25.42 E-value=2e+02 Score=28.94 Aligned_cols=63 Identities=16% Similarity=0.182 Sum_probs=44.9
Q ss_pred EEeCCCCCHHHHHHHHHHHh----CCC--------CCCCCCeEEEeCCeecCCCCcccccc---cCCCcEEEEEEecC
Q 015941 15 IEVKPEDKVSDVKKNIETVQ----GSD--------VYPASQQMLIHQGKVLKDVTTLEENK---VAENSFVVVMLTKS 77 (398)
Q Consensus 15 ieV~~~~TV~dLK~~I~~~~----g~~--------~ip~~~QkLIf~GK~L~D~~tL~d~g---Ik~~s~I~v~v~k~ 77 (398)
|....-.-|..|+..|.++. ... ..+.+...|+++|.+|..+.||+.+. -|.++-|+|..|.+
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 44445567888899998887 100 03556778999999999999887764 36677777776654
No 246
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=25.26 E-value=1.4e+02 Score=21.11 Aligned_cols=23 Identities=22% Similarity=0.450 Sum_probs=15.9
Q ss_pred hhCHHHHHHHHH--CHHHHHHHhcC
Q 015941 305 KQNPHLMRLIQE--HQTDFLRLINE 327 (398)
Q Consensus 305 ~~nP~L~q~I~~--n~e~Fl~~l~~ 327 (398)
+++|+|++.+.+ |+++|+.+..+
T Consensus 14 ~~d~~l~~~l~~~~~~~e~~~lA~~ 38 (49)
T PF07862_consen 14 KSDPELREQLKACQNPEEVVALARE 38 (49)
T ss_pred hcCHHHHHHHHhcCCHHHHHHHHHH
Confidence 455666666654 88999888754
No 247
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=25.06 E-value=1.4e+02 Score=24.42 Aligned_cols=52 Identities=21% Similarity=0.445 Sum_probs=31.2
Q ss_pred hHHhhccHHH----HHHHHHHHhChHHHHHHhhhCHHHHH-HHHHCHHHHHHHhcCC
Q 015941 277 LDFLRNSQQF----QALRTMVQANPQILQELGKQNPHLMR-LIQEHQTDFLRLINEP 328 (398)
Q Consensus 277 l~~Lr~~P~f----~~lrq~vq~nP~lLqqi~~~nP~L~q-~I~~n~e~Fl~~l~~~ 328 (398)
|..|...+.| ++|++.|.++|+.-+-|.++.|+|-+ .|..+---|...+.+-
T Consensus 8 l~~~~~~~~~~~~~~~l~~~vl~dp~V~~Fl~~h~~eLt~~~i~rsl~kLyEy~~e~ 64 (94)
T PF07319_consen 8 LKQLMKRRNFEERYEQLKQEVLSDPEVQAFLQEHQPELTQEMIERSLSKLYEYVSER 64 (94)
T ss_dssp ----S---HHHHHHHHHHHHHTT-HHHHHHHHHSTTT--HHHHHHTHHHHHHHHHS-
T ss_pred HHHHHhcccHHHHHHHHHHHHHcCHHHHHHHHHhHHhcCHHHHHHHHHHHHHHHHHH
Confidence 4445555555 79999999999998888777788865 4566666777776654
No 248
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=24.88 E-value=1.3e+02 Score=24.42 Aligned_cols=41 Identities=22% Similarity=0.416 Sum_probs=34.7
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCeecC
Q 015941 11 THFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM-LIHQGKVLK 54 (398)
Q Consensus 11 ~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Qk-LIf~GK~L~ 54 (398)
..+.+.|+.+.|=.++|..|+..+| +.+...+ +++.||.-.
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 7777665 467887654
No 249
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=24.13 E-value=1e+02 Score=27.89 Aligned_cols=59 Identities=27% Similarity=0.308 Sum_probs=39.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEE
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVM 73 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~ 73 (398)
.+++|..+++.|-|.|+.. ++-||| +|.+..| .. ||.|.- -++.++-+|+..|++-.+-
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk-~ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fg 105 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLK-SIHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFG 105 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHH-HHHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEee
Confidence 4788988898788888754 567888 5677777 22 777764 2344555688877754443
No 250
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=23.96 E-value=84 Score=31.09 Aligned_cols=38 Identities=34% Similarity=0.528 Sum_probs=29.2
Q ss_pred HHHHcCCCCCCHHHHHHHHHH-------------------HhcChHHHHHHHHcCCCCC
Q 015941 178 QILDMGGGSWDRETVIRALRA-------------------AYNNPERAVEYLYSGIPEQ 217 (398)
Q Consensus 178 ~i~~MG~~~f~r~qv~~ALrA-------------------afnNPdRAvEYL~~GIP~~ 217 (398)
++.=+| .++++++.+.|+. -||+|....+||-.|+|--
T Consensus 208 ~V~f~G--~~~~eel~~~l~~~~gLv~~~~~~~~~~~~y~~~~~P~K~~~ymA~G~PVI 264 (333)
T PRK09814 208 NISYKG--WFDPEELPNELSKGFGLVWDGDTNDGEYGEYYKYNNPHKLSLYLAAGLPVI 264 (333)
T ss_pred CeEEec--CCCHHHHHHHHhcCcCeEEcCCCCCccchhhhhccchHHHHHHHHCCCCEE
Confidence 333356 2388888888876 3899999999999999954
No 251
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.65 E-value=91 Score=29.35 Aligned_cols=28 Identities=29% Similarity=0.336 Sum_probs=23.2
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCCCH
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNKNE 382 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ne 382 (398)
.+++.-|..|||++.++..|+-.+--++
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~~~ 172 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIMLLD 172 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhcch
Confidence 5789999999999999999987764433
No 252
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=23.37 E-value=32 Score=26.26 Aligned_cols=40 Identities=28% Similarity=0.390 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHHHH-cCCChhHHHHHHHHhCCCHHHHHHHH
Q 015941 350 VTPEEREAIERLEA-MGFDRALVLEVFFACNKNEELAANYL 389 (398)
Q Consensus 350 lt~ee~~ai~rl~~-lGf~~~~~~~a~~ac~~ne~~A~~~L 389 (398)
+|+-|++.|..+.+ .||+.+.++.|+--|-.+-....+|+
T Consensus 13 ~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~~~~~~~Yi 53 (77)
T PF07261_consen 13 PSPSEIEKLEKWIDDYGFSPEVVNEAIEYALENNKRSFNYI 53 (77)
T ss_dssp --HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCT--SHHHH
T ss_pred CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCHHHH
No 253
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=22.92 E-value=98 Score=23.60 Aligned_cols=21 Identities=19% Similarity=0.507 Sum_probs=18.2
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHH
Q 015941 176 VQQILDMGGGSWDRETVIRALRAA 199 (398)
Q Consensus 176 I~~i~~MG~~~f~r~qv~~ALrAa 199 (398)
-+.||+|| |...+..+=+|-|
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 46899999 9999999888865
No 254
>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=22.82 E-value=57 Score=33.53 Aligned_cols=18 Identities=33% Similarity=0.680 Sum_probs=15.6
Q ss_pred HHHHHHHHcCCChhHHHH
Q 015941 356 EAIERLEAMGFDRALVLE 373 (398)
Q Consensus 356 ~ai~rl~~lGf~~~~~~~ 373 (398)
+.|+++..|||.|+.|.-
T Consensus 323 dvidKv~~MGf~rDqV~a 340 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVRA 340 (358)
T ss_pred HHHHHHHHcCCcHHHHHH
Confidence 569999999999999853
No 255
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=22.65 E-value=2.1e+02 Score=23.48 Aligned_cols=41 Identities=22% Similarity=0.360 Sum_probs=33.7
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCeec
Q 015941 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQM-LIHQGKVL 53 (398)
Q Consensus 10 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~Qk-LIf~GK~L 53 (398)
..++.+.|+...|=.++|+.|+..++ +.+...+ +++.||.=
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 7777664 45666553
No 256
>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=22.14 E-value=1.4e+02 Score=27.88 Aligned_cols=40 Identities=10% Similarity=0.161 Sum_probs=34.8
Q ss_pred cchHHHHHHHHHcCCCCCCHHHHHHHHHHHhcChHHHHHHHHcC
Q 015941 170 SNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSG 213 (398)
Q Consensus 170 ~~~e~~I~~i~~MG~~~f~r~qv~~ALrAafnNPdRAvEYL~~G 213 (398)
.+.++.++-+.+.| |++++.++..+.-+.|||. ++.++.-
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 34566778888899 9999999999999999999 9999864
No 257
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=22.09 E-value=76 Score=29.90 Aligned_cols=51 Identities=24% Similarity=0.376 Sum_probs=28.6
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEE--EeCC-----eecCCCC--cccccc
Q 015941 10 GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA---SQQML--IHQG-----KVLKDVT--TLEENK 63 (398)
Q Consensus 10 g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~---~~QkL--If~G-----K~L~D~~--tL~d~g 63 (398)
|-.|.+.|.+..|+.++|++|.++.| ++- ++.|+ +..+ +.|+|+. .|.+..
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 55688999999999999999999999 543 34455 4344 4567754 555543
No 258
>COG3444 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]
Probab=21.97 E-value=1.5e+02 Score=27.05 Aligned_cols=52 Identities=25% Similarity=0.382 Sum_probs=32.7
Q ss_pred HHHCHHHHHHHhcCCCCCC---CCCccccccc--cCCccccCCHHHHHHHHHHHHcCC
Q 015941 314 IQEHQTDFLRLINEPVEGG---EGNVLGQLAS--AMPQAVTVTPEEREAIERLEAMGF 366 (398)
Q Consensus 314 I~~n~e~Fl~~l~~~~~~~---~~~~~~~~~~--~~~~~~~lt~ee~~ai~rl~~lGf 366 (398)
|-.||+.+++++.+++.=. -|+ +...++ .....+.|+++|.++.++|.+.|.
T Consensus 82 l~~~p~d~~~lve~gv~I~~iNVG~-m~~~~gk~~i~k~vsl~e~D~~af~~L~~~Gv 138 (159)
T COG3444 82 LFENPQDVLRLVEGGVPIKTINVGG-MAFREGKKQITKAVSLDEKDIAAFKKLKAKGV 138 (159)
T ss_pred EECCHHHHHHHHhcCCCCcEEEEcC-ccCCCCcEEeecceeeCHHHHHHHHHHHhcCc
Confidence 3467888888886664100 011 001111 123468999999999999999993
No 259
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=21.86 E-value=1.8e+02 Score=26.50 Aligned_cols=59 Identities=20% Similarity=0.343 Sum_probs=35.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHH----HHhCCCCCCCCCeEEEeCCeecCCCCccc
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIE----TVQGSDVYPASQQMLIHQGKVLKDVTTLE 60 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~----~~~g~~~ip~~~QkLIf~GK~L~D~~tL~ 60 (398)
|.|+++ ++|+.+.++|++..++.++-..-. .+.|++.-...-..++++|+..+...++.
T Consensus 2 ~~i~lt-vNG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a 64 (156)
T COG2080 2 MPITLT-VNGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLA 64 (156)
T ss_pred CcEEEE-ECCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHH
Confidence 455665 789999999999998877654222 22332212233345667776665444443
No 260
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=21.79 E-value=80 Score=29.83 Aligned_cols=31 Identities=26% Similarity=0.381 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHcCCChhHHHHHHHHhCCC
Q 015941 351 TPEEREAIERLEAMGFDRALVLEVFFACNKN 381 (398)
Q Consensus 351 t~ee~~ai~rl~~lGf~~~~~~~a~~ac~~n 381 (398)
++...++|+-|+.|||++.++.+|.-.-.++
T Consensus 153 ~~~~~~~v~AL~~LGy~~~e~~~av~~v~~~ 183 (201)
T COG0632 153 SPALEEAVEALVALGYKEKEIKKAVKKVLKE 183 (201)
T ss_pred chhhhHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 4455666999999999999999997766554
No 261
>PF09145 Ubiq-assoc: Ubiquitin-associated; InterPro: IPR015228 Ubiquitin-associated domains contain approximately 40 residues and bind ubiquitin noncovalently. They adopt a secondary structure consisting of three alpha-helices, and have been identified in various modular proteins involved in protein trafficking, clathrin assembly/disassembly, DNA repair, proteasomal degradation, and cell cycle regulation []. ; PDB: 1PGY_A.
Probab=21.68 E-value=1.2e+02 Score=21.85 Aligned_cols=28 Identities=14% Similarity=0.189 Sum_probs=18.2
Q ss_pred HHHHH-HHHHHHcCCChhHHHHHHHHhCC
Q 015941 353 EEREA-IERLEAMGFDRALVLEVFFACNK 380 (398)
Q Consensus 353 ee~~a-i~rl~~lGf~~~~~~~a~~ac~~ 380 (398)
|.++. |.||+.||.+-+.+..-|..--.
T Consensus 4 EVkDMEiAkLMSLGLsid~A~~yYe~Gi~ 32 (46)
T PF09145_consen 4 EVKDMEIAKLMSLGLSIDKANDYYERGIL 32 (46)
T ss_dssp HHHHHHHHHHHHH---SHHHHHHHHHH-S
T ss_pred HHHHHHHHHHHHccCCHHHHHHHHHcCch
Confidence 44444 89999999999999988865433
No 262
>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=21.66 E-value=57 Score=27.25 Aligned_cols=21 Identities=29% Similarity=0.733 Sum_probs=13.0
Q ss_pred HHHHHHhcChHHHHHHHHcC-CCCC
Q 015941 194 RALRAAYNNPERAVEYLYSG-IPEQ 217 (398)
Q Consensus 194 ~ALrAafnNPdRAvEYL~~G-IP~~ 217 (398)
..++.++ |+|++||-+| ||++
T Consensus 75 ~s~k~al---~~A~~Fl~~~~vP~~ 96 (96)
T PF08169_consen 75 SSLKPAL---DKASTFLKTGVVPDN 96 (96)
T ss_dssp HHH-HHH---HHHHHHHHS----TT
T ss_pred chhhHHH---HHHHHHHhcCCCCCC
Confidence 4566665 6899999999 7764
No 263
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=21.63 E-value=41 Score=38.93 Aligned_cols=66 Identities=8% Similarity=-0.142 Sum_probs=51.4
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCcEEEEEE
Q 015941 6 KTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFVVVML 74 (398)
Q Consensus 6 Ktl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~tL~d~gIk~~s~I~v~v 74 (398)
+++.-..+...+....++...|.+|....| |++..++|++-|..++++..+..|+....-..+..+
T Consensus 330 ~~l~~p~~~~~~~~~~~~~~~~p~~~~qtg---ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~~~ 395 (1143)
T KOG4248|consen 330 CNLACPPPRHLHVVRPMSHYTTPMVLQQTG---IPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPGQA 395 (1143)
T ss_pred hcccCCCCceeeecchhhhccCceeeeccc---ccccccceeeecccccCCCCCCccccccCCCCCccc
Confidence 445545555555566678888999999999 999999999999999999999988776655555443
No 264
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=21.60 E-value=1.1e+02 Score=23.14 Aligned_cols=34 Identities=15% Similarity=0.463 Sum_probs=25.2
Q ss_pred HHHHHHHHHhChHHHHHHhhhCHHHHHHHHHCHHHHHHHhc
Q 015941 286 FQALRTMVQANPQILQELGKQNPHLMRLIQEHQTDFLRLIN 326 (398)
Q Consensus 286 f~~lrq~vq~nP~lLqqi~~~nP~L~q~I~~n~e~Fl~~l~ 326 (398)
|.+|+.+|++||++.++|-.=.|=-+ ++|...|+
T Consensus 2 ~~~lt~~I~~~p~l~ekIL~YePI~L-------~el~~~L~ 35 (64)
T PF09494_consen 2 FEALTKLIRSDPELYEKILMYEPINL-------EELHAWLK 35 (64)
T ss_pred HHHHHHHHHcCHHHHHHHHcCCCccH-------HHHHHHHH
Confidence 56788999999998888877766443 36666666
No 265
>cd02667 Peptidase_C19K A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=21.55 E-value=1.2e+02 Score=29.24 Aligned_cols=49 Identities=16% Similarity=0.417 Sum_probs=38.6
Q ss_pred chHHhhccHHHHHHHHHHHhChHHH-HHHhhhCHHHHHHHHHCHHHHHHHhcC
Q 015941 276 TLDFLRNSQQFQALRTMVQANPQIL-QELGKQNPHLMRLIQEHQTDFLRLINE 327 (398)
Q Consensus 276 ~l~~Lr~~P~f~~lrq~vq~nP~lL-qqi~~~nP~L~q~I~~n~e~Fl~~l~~ 327 (398)
.|+.|.+.|.| |+.+..+|..+ ..|...+|++.--.||+..+|+..|.+
T Consensus 14 vLQ~L~~~~~~---~~~~l~~P~~~~~~l~~~~~~f~~~~QqDA~Efl~~lld 63 (279)
T cd02667 14 VMQNLSQTPAL---RELLSETPKELFSQVCRKAPQFKGYQQQDSHELLRYLLD 63 (279)
T ss_pred HHHHHhcCHHH---HHHHHHCHHHHHHHHHHhhHhhcCCchhhHHHHHHHHHH
Confidence 47788776655 45666699777 889999999887778999999988765
No 266
>PRK14109 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional
Probab=21.44 E-value=5.6e+02 Score=30.06 Aligned_cols=38 Identities=18% Similarity=0.262 Sum_probs=26.1
Q ss_pred HHHHHHhChHHH---HHHhhhCHHHHHHHHHCHHHHHHHhc
Q 015941 289 LRTMVQANPQIL---QELGKQNPHLMRLIQEHQTDFLRLIN 326 (398)
Q Consensus 289 lrq~vq~nP~lL---qqi~~~nP~L~q~I~~n~e~Fl~~l~ 326 (398)
+-.++..||.++ -.|....|-|.+++..+|+-+-.++.
T Consensus 76 ~l~ll~~~p~~~~~l~~~~~~S~~la~~l~~~p~~l~~ll~ 116 (1007)
T PRK14109 76 LLAALRADPGLRGRLLAVLGASSALGDHLVAHPEDWRALLR 116 (1007)
T ss_pred HHHHHHhCHHHHHHHHHHHHhCHHHHHHHHHCHHHHHHHhc
Confidence 334666777775 44556678888888888877666664
No 267
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=21.36 E-value=84 Score=23.90 Aligned_cols=32 Identities=19% Similarity=0.215 Sum_probs=27.5
Q ss_pred cCCHHHHHHHHHHHH-cCCChhHHHHHHHHhCC
Q 015941 349 TVTPEEREAIERLEA-MGFDRALVLEVFFACNK 380 (398)
Q Consensus 349 ~lt~ee~~ai~rl~~-lGf~~~~~~~a~~ac~~ 380 (398)
.+|+-|++.|..+.+ .||+.+.++.|+.-|-+
T Consensus 12 ~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a~~ 44 (73)
T TIGR01446 12 MLSPFEMEDLKYWLDEFGNSPELIKEALKEAVS 44 (73)
T ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 589999999988775 69999999999998854
No 268
>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=21.26 E-value=3.2e+02 Score=22.23 Aligned_cols=57 Identities=11% Similarity=0.081 Sum_probs=38.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---Ce--ecCCCCccccc
Q 015941 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQ---GK--VLKDVTTLEEN 62 (398)
Q Consensus 2 kI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~---GK--~L~D~~tL~d~ 62 (398)
+.+|| ..|.+..+.+...-|-..|+++|...+. +|....-|.|- |- -|.|+.-|.++
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~---lp~~~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYN---LPEIKVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhC---CChhHeEEEEEcCCCCEEEecchHHHHHH
Confidence 34555 3555666667777799999999999999 88877777662 22 24555555544
No 269
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=21.25 E-value=1.4e+02 Score=29.85 Aligned_cols=36 Identities=28% Similarity=0.365 Sum_probs=29.6
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHhcChHHHHHHHHc
Q 015941 174 ATVQQILDM-GGGSWDRETVIRALRAAYNNPERAVEYLYS 212 (398)
Q Consensus 174 ~~I~~i~~M-G~~~f~r~qv~~ALrAafnNPdRAvEYL~~ 212 (398)
.+|.+|-++ | =.=-+|.+||..+-+|-|.|||||--
T Consensus 7 ~~VKeLRe~Tg---AGMmdCKkAL~E~~Gd~EkAie~LR~ 43 (296)
T COG0264 7 ALVKELREKTG---AGMMDCKKALEEANGDIEKAIEWLRE 43 (296)
T ss_pred HHHHHHHHHhC---CcHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 567888776 5 33467999999999999999999963
No 270
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=20.99 E-value=1.3e+02 Score=23.93 Aligned_cols=15 Identities=33% Similarity=0.565 Sum_probs=8.6
Q ss_pred HHHHHHHHHhChHHH
Q 015941 286 FQALRTMVQANPQIL 300 (398)
Q Consensus 286 f~~lrq~vq~nP~lL 300 (398)
+++|.-+|.+||.++
T Consensus 46 LQ~lm~~VMqnP~Li 60 (82)
T PF11212_consen 46 LQQLMAQVMQNPALI 60 (82)
T ss_pred HHHHHHHHhcChHHH
Confidence 455555555665555
No 271
>PRK14983 aldehyde decarbonylase; Provisional
Probab=20.97 E-value=77 Score=30.00 Aligned_cols=37 Identities=30% Similarity=0.462 Sum_probs=28.7
Q ss_pred ccCCHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHH
Q 015941 348 VTVTPEEREAIERLEAMGFDRALVLEVFFACNKNEELAAN 387 (398)
Q Consensus 348 ~~lt~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~ 387 (398)
-.+=|++.+-+.||-.| +..=.+.|.+|+||-.....
T Consensus 43 a~llP~~~dEL~rLakM---E~rH~kgF~aCGrNL~V~~D 79 (231)
T PRK14983 43 ATLLPEHAEELTRLAKM---EMRHKKGFTACGRNLGVTPD 79 (231)
T ss_pred HHHCcccHHHHHHHHHH---HHHHHhHHHHHcccCcCCCC
Confidence 34667788888888888 77778899999999765443
No 272
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.89 E-value=1.3e+02 Score=25.88 Aligned_cols=59 Identities=14% Similarity=0.169 Sum_probs=36.1
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-CCC------CCCeEEEe----------------C-CeecC-CCCcccccccCCCcE
Q 015941 16 EVKP-EDKVSDVKKNIETVQGSD-VYP------ASQQMLIH----------------Q-GKVLK-DVTTLEENKVAENSF 69 (398)
Q Consensus 16 eV~~-~~TV~dLK~~I~~~~g~~-~ip------~~~QkLIf----------------~-GK~L~-D~~tL~d~gIk~~s~ 69 (398)
+|+. +.||.+|+..|......+ .++ -+..|++. . ..+|+ ++++|..|||.+..-
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 779999888877664321 122 22334332 1 24566 467999999988776
Q ss_pred EEEEE
Q 015941 70 VVVML 74 (398)
Q Consensus 70 I~v~v 74 (398)
|.+..
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 66554
No 273
>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=20.68 E-value=74 Score=23.76 Aligned_cols=32 Identities=22% Similarity=0.367 Sum_probs=21.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHH
Q 015941 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIET 32 (398)
Q Consensus 1 MkI~VKtl~g~~~~ieV~~~~TV~dLK~~I~~ 32 (398)
|.|++++-+|+.|.++...-.--.-||..|..
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 78999999999999985533334445556643
No 274
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=20.60 E-value=1e+02 Score=23.15 Aligned_cols=12 Identities=33% Similarity=0.415 Sum_probs=8.6
Q ss_pred hcChHHHHHHHH
Q 015941 200 YNNPERAVEYLY 211 (398)
Q Consensus 200 fnNPdRAvEYL~ 211 (398)
-+.+|+|.|||.
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 347899999984
No 275
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=20.54 E-value=2.7e+02 Score=23.50 Aligned_cols=58 Identities=9% Similarity=0.075 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCC-cccccccCCCcEEEEEEec
Q 015941 18 KPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVT-TLEENKVAENSFVVVMLTK 76 (398)
Q Consensus 18 ~~~~TV~dLK~~I~~~~g~~~ip~~~QkLIf~GK~L~D~~-tL~d~gIk~~s~I~v~v~k 76 (398)
..-.|+.++-+++.++.+...+.+=.+..|+.|+.|.... .|--+++..+ ++.+.+|-
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 3567888888888887764333444557899999998877 8888898877 88888864
No 276
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=20.52 E-value=67 Score=28.68 Aligned_cols=23 Identities=13% Similarity=0.475 Sum_probs=19.1
Q ss_pred cHHHHHHHHHHHhChHHH----HHHhh
Q 015941 283 SQQFQALRTMVQANPQIL----QELGK 305 (398)
Q Consensus 283 ~P~f~~lrq~vq~nP~lL----qqi~~ 305 (398)
+|-+++++++|..||.+. +.+.|
T Consensus 2 ~p~vqefk~lIe~dp~l~ml~~~Mf~q 28 (141)
T PF12588_consen 2 HPVVQEFKDLIESDPRLYMLFTQMFDQ 28 (141)
T ss_pred ChHHHHHHHHHhcCHHHHHHHHHHHhC
Confidence 578999999999999988 55555
No 277
>PLN03196 MOC1-like protein; Provisional
Probab=20.49 E-value=2.6e+02 Score=29.81 Aligned_cols=33 Identities=18% Similarity=0.218 Sum_probs=22.0
Q ss_pred ccccCCHHH--HHHHHHHHHcCCChhHHHHHHHHh
Q 015941 346 QAVTVTPEE--REAIERLEAMGFDRALVLEVFFAC 378 (398)
Q Consensus 346 ~~~~lt~ee--~~ai~rl~~lGf~~~~~~~a~~ac 378 (398)
.....+-|+ +..|+.|.++|++++........|
T Consensus 258 ~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~ 292 (487)
T PLN03196 258 YILGFDLEETVKPNVECLLEFGVRKEALPSVIAQY 292 (487)
T ss_pred ceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence 455556554 345888888888888776655554
No 278
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.42 E-value=76 Score=29.70 Aligned_cols=27 Identities=26% Similarity=0.284 Sum_probs=23.6
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCCC
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNKN 381 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~n 381 (398)
.+++.-|+.|||++.++-+|.-.+..+
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i~~~ 176 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAALPSD 176 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhhc
Confidence 578999999999999999999888543
No 279
>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=20.40 E-value=1.6e+02 Score=27.33 Aligned_cols=26 Identities=15% Similarity=0.290 Sum_probs=22.7
Q ss_pred HHHHHHHHHcCCChhHHHHHHHHhCC
Q 015941 355 REAIERLEAMGFDRALVLEVFFACNK 380 (398)
Q Consensus 355 ~~ai~rl~~lGf~~~~~~~a~~ac~~ 380 (398)
.+++..|..|||++.++-.|.-...+
T Consensus 148 ~e~~~aL~~LGy~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 148 DELFEALVSLGYKPQEIQQALKKIKN 173 (191)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhh
Confidence 56899999999999999999888754
No 280
>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=20.18 E-value=4.8e+02 Score=21.89 Aligned_cols=68 Identities=16% Similarity=0.170 Sum_probs=40.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEE-EeCC---eecCC-CCc-------ccccccCCCcE
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPA-SQQML-IHQG---KVLKD-VTT-------LEENKVAENSF 69 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~~~ip~-~~QkL-If~G---K~L~D-~~t-------L~d~gIk~~s~ 69 (398)
|.|-..++.-.++.+..+.||.+|-..+..+.. ++. ..-+| ++.| |+|.. ++. |...|.++.|-
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~---l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~ 81 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFY---LPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDR 81 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhc---CCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCc
Confidence 344334555567889999999999999999987 444 34444 3333 55542 222 34445555554
Q ss_pred EEEE
Q 015941 70 VVVM 73 (398)
Q Consensus 70 I~v~ 73 (398)
|+.+
T Consensus 82 l~~l 85 (97)
T cd01775 82 IEDI 85 (97)
T ss_pred HHHh
Confidence 4443
No 281
>KOG0514 consensus Ankyrin repeat protein [General function prediction only]
Probab=20.14 E-value=96 Score=32.17 Aligned_cols=34 Identities=29% Similarity=0.632 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHcC-------------------CChhHHHHHHHHhCCCHHH
Q 015941 351 TPEEREAIERLEAMG-------------------FDRALVLEVFFACNKNEEL 384 (398)
Q Consensus 351 t~ee~~ai~rl~~lG-------------------f~~~~~~~a~~ac~~ne~~ 384 (398)
++.|++.|+||-.|| -.|-++++++++|+-|+|.
T Consensus 316 ~~~d~~vV~~LF~mgnVNaKAsQ~gQTALMLAVSHGr~d~vk~LLacgAdVNi 368 (452)
T KOG0514|consen 316 QPADRTVVERLFKMGDVNAKASQHGQTALMLAVSHGRVDMVKALLACGADVNI 368 (452)
T ss_pred chhhHHHHHHHHhccCcchhhhhhcchhhhhhhhcCcHHHHHHHHHccCCCcc
Confidence 678889999999887 2577899999999999875
No 282
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=20.10 E-value=2.3e+02 Score=23.94 Aligned_cols=34 Identities=12% Similarity=0.108 Sum_probs=26.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCC
Q 015941 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGS 36 (398)
Q Consensus 3 I~VKtl~g~~~~ieV~~~~TV~dLK~~I~~~~g~ 36 (398)
|+|-.-+|.+..|+|..-.+-.++|.++-.++|.
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~ 36 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGL 36 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTS
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCC
Confidence 5666678999999999989999999999999993
No 283
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.08 E-value=95 Score=28.95 Aligned_cols=40 Identities=15% Similarity=0.277 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHHHcCCChhHHHHHHHHhCCCHHHHHHHHh
Q 015941 351 TPEEREAIERLEAMGFDRALVLEVFFACNKNEELAANYLL 390 (398)
Q Consensus 351 t~ee~~ai~rl~~lGf~~~~~~~a~~ac~~ne~~A~~~L~ 390 (398)
.....+++..|..|||++.++.+|+-.+.++.++-.+-|+
T Consensus 145 ~~~~~e~~~aL~~LGy~~~~a~~ai~~~~~~~~~~~~~~i 184 (194)
T PRK14605 145 TEANSDILATLTALGYSSSEAAKAISSLGDNGDLPLEERI 184 (194)
T ss_pred cchHHHHHHHHHHcCCCHHHHHHHHHHhhccCCCCHHHHH
Done!