Query 029207
Match_columns 197
No_of_seqs 310 out of 1320
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 09:13:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029207.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029207hhsearch_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-44 3.1E-49 317.9 21.9 190 1-196 1-198 (378)
2 KOG0011 Nucleotide excision re 100.0 3.6E-41 7.7E-46 285.5 16.5 174 1-195 1-176 (340)
3 cd01807 GDX_N ubiquitin-like d 99.8 1.6E-20 3.4E-25 129.8 9.1 73 1-76 1-73 (74)
4 cd01805 RAD23_N Ubiquitin-like 99.8 8.9E-20 1.9E-24 126.5 9.6 75 1-78 1-77 (77)
5 cd01797 NIRF_N amino-terminal 99.8 1E-19 2.2E-24 127.3 8.9 74 1-77 1-76 (78)
6 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 1.9E-19 4.1E-24 124.4 8.2 71 1-74 2-72 (73)
7 cd01793 Fubi Fubi ubiquitin-li 99.8 3E-19 6.6E-24 123.4 8.9 73 1-78 1-73 (74)
8 PTZ00044 ubiquitin; Provisiona 99.8 5.8E-19 1.3E-23 122.2 9.2 74 1-77 1-74 (76)
9 cd01802 AN1_N ubiquitin-like d 99.8 8.2E-19 1.8E-23 128.9 9.0 74 1-77 28-101 (103)
10 cd01804 midnolin_N Ubiquitin-l 99.8 8.3E-19 1.8E-23 122.6 8.3 72 1-76 2-73 (78)
11 cd01806 Nedd8 Nebb8-like ubiq 99.8 2.4E-18 5.2E-23 118.7 9.6 74 1-77 1-74 (76)
12 cd01794 DC_UbP_C dendritic cel 99.8 1.3E-18 2.8E-23 119.3 7.7 69 3-74 1-69 (70)
13 cd01792 ISG15_repeat1 ISG15 ub 99.8 1.2E-18 2.7E-23 122.2 7.8 73 1-76 3-77 (80)
14 cd01810 ISG15_repeat2 ISG15 ub 99.8 1.8E-18 4E-23 119.5 8.4 72 3-77 1-72 (74)
15 cd01798 parkin_N amino-termina 99.8 1.7E-18 3.7E-23 118.3 7.9 70 3-75 1-70 (70)
16 cd01803 Ubiquitin Ubiquitin. U 99.8 3.4E-18 7.4E-23 117.9 9.1 74 1-77 1-74 (76)
17 cd01790 Herp_N Homocysteine-re 99.8 1.8E-18 4E-23 120.8 7.7 73 1-74 2-78 (79)
18 cd01809 Scythe_N Ubiquitin-lik 99.8 3.9E-18 8.5E-23 116.4 9.2 72 1-75 1-72 (72)
19 cd01808 hPLIC_N Ubiquitin-like 99.8 5.6E-18 1.2E-22 116.1 8.6 71 1-75 1-71 (71)
20 PF00240 ubiquitin: Ubiquitin 99.7 7.4E-18 1.6E-22 114.4 8.3 69 6-77 1-69 (69)
21 cd01813 UBP_N UBP ubiquitin pr 99.7 2.9E-17 6.3E-22 113.7 8.0 70 1-74 1-73 (74)
22 cd01796 DDI1_N DNA damage indu 99.7 3.6E-17 7.7E-22 112.3 7.4 68 3-73 1-70 (71)
23 cd01812 BAG1_N Ubiquitin-like 99.7 1.7E-16 3.6E-21 108.2 7.9 70 1-74 1-70 (71)
24 KOG0005 Ubiquitin-like protein 99.7 5.3E-17 1.2E-21 105.7 4.6 70 1-73 1-70 (70)
25 cd01800 SF3a120_C Ubiquitin-li 99.7 3.1E-16 6.6E-21 109.0 7.9 68 8-78 5-72 (76)
26 KOG0010 Ubiquitin-like protein 99.6 3.3E-15 7.1E-20 133.4 9.6 78 1-82 16-93 (493)
27 smart00213 UBQ Ubiquitin homol 99.6 6.6E-15 1.4E-19 97.6 7.6 64 1-68 1-64 (64)
28 KOG0003 Ubiquitin/60s ribosoma 99.6 2.5E-16 5.4E-21 114.2 0.6 76 1-79 1-76 (128)
29 cd01763 Sumo Small ubiquitin-r 99.6 1.4E-14 3E-19 103.2 9.5 74 1-77 12-85 (87)
30 KOG0004 Ubiquitin/40S ribosoma 99.5 3.9E-15 8.4E-20 114.8 4.4 78 1-81 1-78 (156)
31 cd01815 BMSC_UbP_N Ubiquitin-l 99.5 7.4E-15 1.6E-19 101.4 5.2 55 19-74 19-74 (75)
32 cd01814 NTGP5 Ubiquitin-like N 99.5 6.4E-14 1.4E-18 103.2 6.6 78 2-79 6-94 (113)
33 cd01769 UBL Ubiquitin-like dom 99.5 2.6E-13 5.7E-18 91.0 7.7 68 4-74 1-68 (69)
34 cd01799 Hoil1_N Ubiquitin-like 99.4 3.4E-13 7.3E-18 93.6 7.3 65 6-74 8-74 (75)
35 PF11976 Rad60-SLD: Ubiquitin- 99.4 1.9E-12 4.2E-17 88.5 7.5 71 1-74 1-72 (72)
36 PF00627 UBA: UBA/TS-N domain; 99.4 1.2E-12 2.6E-17 78.7 5.1 36 153-191 2-37 (37)
37 cd01795 USP48_C USP ubiquitin- 99.3 1.3E-11 2.7E-16 88.9 6.8 62 12-76 16-78 (107)
38 cd00194 UBA Ubiquitin Associat 99.2 2.3E-11 5.1E-16 73.2 5.1 37 154-193 2-38 (38)
39 smart00165 UBA Ubiquitin assoc 99.2 3.6E-11 7.9E-16 72.0 4.9 37 153-192 1-37 (37)
40 PF13881 Rad60-SLD_2: Ubiquiti 99.1 5.6E-10 1.2E-14 83.0 10.6 75 2-76 4-89 (111)
41 cd01789 Alp11_N Ubiquitin-like 99.1 5.5E-10 1.2E-14 79.0 8.9 71 2-75 3-81 (84)
42 KOG4248 Ubiquitin-like protein 99.1 1.4E-10 3E-15 111.1 6.6 71 2-76 4-74 (1143)
43 KOG0001 Ubiquitin and ubiquiti 99.0 2.2E-09 4.8E-14 71.6 9.0 72 3-77 2-73 (75)
44 PLN02560 enoyl-CoA reductase 99.0 8.6E-10 1.9E-14 95.4 8.3 70 1-72 1-80 (308)
45 cd01788 ElonginB Ubiquitin-lik 99.0 2.7E-09 5.8E-14 78.7 7.3 73 1-76 1-81 (119)
46 PF14560 Ubiquitin_2: Ubiquiti 98.9 5.2E-09 1.1E-13 74.3 7.5 72 2-76 3-84 (87)
47 cd01801 Tsc13_N Ubiquitin-like 98.9 4.1E-09 8.9E-14 73.2 6.8 69 2-72 2-74 (77)
48 PF11543 UN_NPL4: Nuclear pore 98.7 2.6E-08 5.6E-13 69.9 5.9 69 1-73 5-78 (80)
49 cd00196 UBQ Ubiquitin-like pro 98.7 1.7E-07 3.7E-12 59.2 7.7 67 5-74 2-68 (69)
50 cd01811 OASL_repeat1 2'-5' oli 98.5 1.2E-06 2.7E-11 59.9 7.9 71 1-75 1-76 (80)
51 KOG0006 E3 ubiquitin-protein l 98.4 3.6E-07 7.8E-12 78.4 6.2 74 1-77 1-77 (446)
52 KOG1872 Ubiquitin-specific pro 98.4 1.1E-06 2.3E-11 78.9 7.8 71 3-77 6-77 (473)
53 KOG3493 Ubiquitin-like protein 98.4 1.8E-07 4E-12 62.1 1.7 69 2-73 3-71 (73)
54 KOG0944 Ubiquitin-specific pro 98.3 3.9E-07 8.4E-12 84.6 2.9 42 151-195 633-675 (763)
55 KOG1769 Ubiquitin-like protein 98.1 2.5E-05 5.4E-10 56.4 8.4 72 2-76 22-93 (99)
56 KOG4495 RNA polymerase II tran 98.0 8.5E-06 1.8E-10 58.4 4.5 60 3-66 5-66 (110)
57 PF10302 DUF2407: DUF2407 ubiq 98.0 2.3E-05 5E-10 56.9 6.1 60 2-62 2-64 (97)
58 PF02845 CUE: CUE domain; Int 97.8 4.5E-05 9.8E-10 46.7 4.8 37 154-193 2-40 (42)
59 PF08817 YukD: WXG100 protein 97.7 8.6E-05 1.9E-09 51.6 5.5 71 2-72 4-78 (79)
60 KOG4583 Membrane-associated ER 97.7 4E-06 8.6E-11 72.4 -1.6 78 2-80 11-92 (391)
61 PF00789 UBX: UBX domain; Int 97.7 0.00045 9.8E-09 48.0 8.6 68 2-72 8-80 (82)
62 smart00166 UBX Domain present 97.6 0.00064 1.4E-08 47.2 8.0 68 2-72 6-78 (80)
63 TIGR00601 rad23 UV excision re 97.5 0.00012 2.5E-09 65.3 4.6 40 151-193 335-374 (378)
64 KOG0418 Ubiquitin-protein liga 97.5 0.00015 3.3E-09 58.0 4.7 45 146-193 155-199 (200)
65 cd01767 UBX UBX (ubiquitin reg 97.4 0.0013 2.9E-08 45.3 8.4 67 2-73 4-75 (77)
66 cd01770 p47_UBX p47-like ubiqu 97.4 0.0011 2.4E-08 46.2 8.0 67 2-71 6-75 (79)
67 COG5417 Uncharacterized small 97.4 0.0011 2.3E-08 45.5 7.2 68 5-72 11-80 (81)
68 PF11470 TUG-UBL1: GLUT4 regul 97.4 0.00083 1.8E-08 45.2 6.6 63 7-72 3-65 (65)
69 cd01772 SAKS1_UBX SAKS1-like U 97.3 0.0019 4.2E-08 44.9 8.3 67 2-72 6-77 (79)
70 KOG0013 Uncharacterized conser 97.3 0.00058 1.3E-08 55.7 5.7 62 9-73 155-216 (231)
71 COG5227 SMT3 Ubiquitin-like pr 97.3 0.0013 2.7E-08 46.8 6.6 69 3-74 27-95 (103)
72 smart00546 CUE Domain that may 97.2 0.0012 2.6E-08 40.4 5.0 38 153-193 2-41 (43)
73 cd01773 Faf1_like1_UBX Faf1 ik 97.0 0.0073 1.6E-07 42.5 8.4 69 2-74 7-80 (82)
74 KOG1639 Steroid reductase requ 96.9 0.002 4.4E-08 54.0 5.7 70 1-72 1-76 (297)
75 cd01774 Faf1_like2_UBX Faf1 ik 96.9 0.011 2.4E-07 41.7 8.4 67 2-72 6-82 (85)
76 KOG0011 Nucleotide excision re 96.8 0.0016 3.4E-08 56.5 4.2 40 151-193 296-335 (340)
77 PF14555 UBA_4: UBA-like domai 96.7 0.0046 1E-07 37.9 4.9 37 154-193 1-38 (43)
78 PF13019 Telomere_Sde2: Telome 96.6 0.019 4.2E-07 45.3 8.7 74 1-77 1-86 (162)
79 cd01771 Faf1_UBX Faf1 UBX doma 96.6 0.025 5.5E-07 39.5 8.4 68 2-73 6-78 (80)
80 COG5207 UBP14 Isopeptidase T [ 96.3 0.0022 4.7E-08 58.8 1.9 39 152-193 620-658 (749)
81 PF09288 UBA_3: Fungal ubiquit 96.2 0.0053 1.1E-07 39.8 2.9 25 154-181 10-34 (55)
82 KOG0010 Ubiquitin-like protein 96.2 0.0077 1.7E-07 54.9 5.0 40 151-193 452-492 (493)
83 KOG3206 Alpha-tubulin folding 96.2 0.016 3.5E-07 47.4 6.3 70 2-74 3-80 (234)
84 KOG2561 Adaptor protein NUB1, 96.1 0.0059 1.3E-07 55.2 3.8 59 14-75 53-111 (568)
85 PF15044 CLU_N: Mitochondrial 95.7 0.017 3.8E-07 39.9 4.1 56 17-74 1-57 (76)
86 PF06972 DUF1296: Protein of u 95.7 0.031 6.7E-07 36.7 4.8 40 153-193 5-44 (60)
87 COG5207 UBP14 Isopeptidase T [ 95.6 0.018 3.9E-07 53.0 4.6 37 154-193 559-596 (749)
88 KOG0944 Ubiquitin-specific pro 95.6 0.018 3.9E-07 54.3 4.7 38 153-193 571-609 (763)
89 PF14453 ThiS-like: ThiS-like 95.5 0.057 1.2E-06 35.3 5.7 56 1-75 1-56 (57)
90 KOG2561 Adaptor protein NUB1, 95.4 0.016 3.4E-07 52.5 3.8 38 153-193 429-466 (568)
91 PF11626 Rap1_C: TRF2-interact 95.3 0.022 4.7E-07 40.3 3.5 34 157-193 1-34 (87)
92 PF07499 RuvA_C: RuvA, C-termi 95.1 0.023 5.1E-07 35.5 2.7 37 153-192 3-39 (47)
93 PRK06437 hypothetical protein; 95.0 0.24 5.1E-06 33.2 7.7 54 9-74 9-62 (67)
94 PF09379 FERM_N: FERM N-termin 95.0 0.22 4.7E-06 33.9 7.6 67 5-73 1-73 (80)
95 KOG0012 DNA damage inducible p 94.7 0.063 1.4E-06 47.3 5.2 70 1-73 1-74 (380)
96 PLN02799 Molybdopterin synthas 94.4 0.21 4.6E-06 34.4 6.5 66 1-73 2-76 (82)
97 PRK08364 sulfur carrier protei 93.8 0.65 1.4E-05 31.3 7.8 53 9-73 10-64 (70)
98 cd06409 PB1_MUG70 The MUG70 pr 93.5 0.34 7.3E-06 34.4 6.1 45 2-49 2-49 (86)
99 cd00754 MoaD Ubiquitin domain 93.5 0.48 1E-05 32.1 6.9 57 12-73 17-74 (80)
100 cd06406 PB1_P67 A PB1 domain i 93.5 0.41 8.9E-06 33.4 6.4 37 12-51 12-48 (80)
101 PF14836 Ubiquitin_3: Ubiquiti 93.1 0.6 1.3E-05 33.2 6.9 62 11-76 14-81 (88)
102 PRK06488 sulfur carrier protei 93.1 0.54 1.2E-05 31.0 6.4 60 1-74 1-60 (65)
103 PF11620 GABP-alpha: GA-bindin 92.1 0.52 1.1E-05 33.3 5.4 61 13-76 5-65 (88)
104 PRK06369 nac nascent polypepti 92.0 0.37 8.1E-06 36.0 4.9 37 154-193 77-114 (115)
105 PF08938 HBS1_N: HBS1 N-termin 91.5 0.069 1.5E-06 37.1 0.5 26 168-193 43-69 (79)
106 TIGR00264 alpha-NAC-related pr 91.4 0.46 9.9E-06 35.5 4.8 36 154-192 79-115 (116)
107 KOG2086 Protein tyrosine phosp 91.3 0.38 8.2E-06 42.8 5.0 65 2-68 307-374 (380)
108 PF12754 Blt1: Cell-cycle cont 91.1 0.064 1.4E-06 46.4 0.0 61 2-65 80-160 (309)
109 smart00666 PB1 PB1 domain. Pho 90.9 1.4 3E-05 30.0 6.7 45 2-50 3-47 (81)
110 PF10790 DUF2604: Protein of U 90.8 1.4 3.1E-05 29.5 6.2 67 9-75 4-71 (76)
111 TIGR01682 moaD molybdopterin c 90.7 1.9 4.2E-05 29.4 7.3 59 10-73 14-74 (80)
112 cd06407 PB1_NLP A PB1 domain i 90.7 1.4 3E-05 30.8 6.5 46 1-50 1-47 (82)
113 PF02597 ThiS: ThiS family; I 90.3 0.83 1.8E-05 30.6 5.0 59 12-73 13-71 (77)
114 TIGR01687 moaD_arch MoaD famil 89.9 2.2 4.9E-05 29.5 7.1 59 11-73 16-82 (88)
115 smart00295 B41 Band 4.1 homolo 89.3 4.2 9E-05 32.1 9.2 61 2-65 5-72 (207)
116 PRK05863 sulfur carrier protei 88.8 1.8 3.8E-05 28.7 5.6 60 1-74 1-60 (65)
117 cd01760 RBD Ubiquitin-like dom 88.2 1.8 3.8E-05 29.6 5.4 45 3-50 2-46 (72)
118 cd06408 PB1_NoxR The PB1 domai 88.1 3 6.5E-05 29.6 6.6 45 3-51 3-48 (86)
119 smart00455 RBD Raf-like Ras-bi 87.5 3 6.6E-05 28.1 6.2 49 3-54 2-52 (70)
120 PRK05659 sulfur carrier protei 87.5 3.6 7.8E-05 26.9 6.5 61 1-74 1-61 (66)
121 COG5100 NPL4 Nuclear pore prot 87.3 2.5 5.5E-05 38.2 7.1 73 1-75 1-79 (571)
122 PRK08053 sulfur carrier protei 87.0 5.1 0.00011 26.4 7.0 61 1-74 1-61 (66)
123 PF10209 DUF2340: Uncharacteri 86.2 2 4.2E-05 32.4 5.0 60 16-75 21-108 (122)
124 cd05992 PB1 The PB1 domain is 85.9 3.9 8.4E-05 27.6 6.2 45 2-50 2-47 (81)
125 PF00564 PB1: PB1 domain; Int 85.7 3.4 7.3E-05 28.1 5.9 45 2-50 3-48 (84)
126 PF07223 DUF1421: Protein of u 85.6 1.1 2.3E-05 39.9 4.0 27 147-176 315-341 (358)
127 PF08587 UBA_2: Ubiquitin asso 85.5 0.17 3.8E-06 31.5 -0.7 25 155-182 4-29 (46)
128 PRK06944 sulfur carrier protei 85.4 7.3 0.00016 25.2 7.2 60 1-74 1-60 (65)
129 cd00565 ThiS ThiaminS ubiquiti 85.1 4.4 9.6E-05 26.5 6.0 56 8-73 4-59 (65)
130 TIGR00084 ruvA Holliday juncti 85.1 1.9 4.1E-05 34.9 4.9 28 152-182 146-173 (191)
131 PF11069 DUF2870: Protein of u 85.0 1.4 3E-05 32.0 3.6 30 45-75 3-32 (98)
132 PF11547 E3_UbLigase_EDD: E3 u 84.5 2.9 6.4E-05 26.3 4.4 37 154-193 10-48 (53)
133 TIGR02958 sec_mycoba_snm4 secr 84.2 7.2 0.00016 35.8 8.8 72 2-74 4-79 (452)
134 PRK06083 sulfur carrier protei 83.7 5.8 0.00013 27.8 6.3 57 8-74 23-79 (84)
135 PF12616 DUF3775: Protein of u 83.0 1.9 4E-05 29.8 3.5 38 156-193 20-58 (75)
136 PF02954 HTH_8: Bacterial regu 82.8 1.1 2.5E-05 26.9 2.1 24 168-191 5-28 (42)
137 COG2104 ThiS Sulfur transfer p 82.3 9.4 0.0002 25.7 6.7 63 1-74 1-63 (68)
138 cd01787 GRB7_RA RA (RAS-associ 81.0 12 0.00026 26.4 7.0 67 3-71 5-81 (85)
139 PF02196 RBD: Raf-like Ras-bin 81.0 11 0.00024 25.4 6.7 57 3-62 3-61 (71)
140 PRK13901 ruvA Holliday junctio 80.8 2.5 5.5E-05 34.5 4.1 29 152-183 143-171 (196)
141 PF14732 UAE_UbL: Ubiquitin/SU 80.5 2.5 5.4E-05 29.8 3.5 52 19-73 7-67 (87)
142 PRK07696 sulfur carrier protei 80.4 12 0.00026 24.8 6.7 61 1-74 1-62 (67)
143 TIGR01683 thiS thiamine biosyn 80.3 8.1 0.00018 25.2 5.8 57 8-74 3-59 (64)
144 KOG4250 TANK binding protein k 79.5 7.6 0.00017 37.5 7.3 71 3-78 316-389 (732)
145 PRK07440 hypothetical protein; 79.3 13 0.00029 24.9 6.7 57 8-74 9-65 (70)
146 cd01611 GABARAP Ubiquitin doma 79.1 10 0.00022 28.1 6.5 58 16-76 46-107 (112)
147 PTZ00380 microtubule-associate 78.6 9.1 0.0002 28.8 6.1 59 14-75 44-105 (121)
148 PRK11840 bifunctional sulfur c 78.3 7 0.00015 34.4 6.3 62 1-75 1-62 (326)
149 cd06396 PB1_NBR1 The PB1 domai 78.2 11 0.00023 26.4 6.0 35 2-40 2-38 (81)
150 COG1308 EGD2 Transcription fac 77.5 6.1 0.00013 29.8 4.9 35 154-191 85-120 (122)
151 KOG2507 Ubiquitin regulatory p 77.4 4.4 9.5E-05 36.8 4.8 76 2-80 316-396 (506)
152 cd06411 PB1_p51 The PB1 domain 77.2 12 0.00026 26.0 6.0 36 12-50 8-43 (78)
153 PRK14604 ruvA Holliday junctio 75.9 6.1 0.00013 32.1 4.9 27 153-182 149-175 (195)
154 KOG2689 Predicted ubiquitin re 75.3 8.3 0.00018 33.1 5.7 70 2-72 212-284 (290)
155 PF08825 E2_bind: E2 binding d 75.3 5.8 0.00013 27.9 4.1 55 15-73 1-69 (84)
156 PRK08769 DNA polymerase III su 74.5 7.4 0.00016 34.0 5.4 40 151-193 172-211 (319)
157 KOG2982 Uncharacterized conser 74.5 4 8.7E-05 35.9 3.7 54 17-73 354-415 (418)
158 PF07462 MSP1_C: Merozoite sur 74.5 7.6 0.00017 36.3 5.7 19 146-164 351-369 (574)
159 PF08337 Plexin_cytopl: Plexin 74.2 7.2 0.00016 36.6 5.6 65 11-76 202-290 (539)
160 KOG1364 Predicted ubiquitin re 74.2 3.5 7.5E-05 36.4 3.3 66 2-69 279-349 (356)
161 smart00144 PI3K_rbd PI3-kinase 73.8 28 0.00061 25.3 7.6 74 3-76 20-105 (108)
162 PRK14602 ruvA Holliday junctio 73.7 8.9 0.00019 31.3 5.4 27 152-181 154-180 (203)
163 PF15652 Tox-SHH: HNH/Endo VII 73.5 4.9 0.00011 29.2 3.4 29 151-182 69-97 (100)
164 PRK14606 ruvA Holliday junctio 73.1 5 0.00011 32.4 3.8 28 152-182 142-169 (188)
165 PF00788 RA: Ras association ( 73.0 26 0.00057 23.8 7.8 54 3-57 5-68 (93)
166 PRK14600 ruvA Holliday junctio 72.5 8.9 0.00019 30.9 5.1 27 153-182 145-171 (186)
167 PF10407 Cytokin_check_N: Cdc1 72.3 15 0.00031 25.2 5.4 63 11-76 3-71 (73)
168 PF14533 USP7_C2: Ubiquitin-sp 71.7 15 0.00032 30.1 6.3 48 12-62 35-90 (213)
169 PRK14603 ruvA Holliday junctio 70.8 12 0.00026 30.4 5.6 27 152-181 151-177 (197)
170 PRK14601 ruvA Holliday junctio 70.3 5.9 0.00013 31.9 3.6 26 153-181 142-167 (183)
171 COG0632 RuvA Holliday junction 70.2 4.5 9.7E-05 33.1 2.9 28 153-183 156-183 (201)
172 PF11372 DUF3173: Domain of un 69.9 5.9 0.00013 26.0 2.9 21 157-180 6-26 (59)
173 PRK07993 DNA polymerase III su 69.7 11 0.00024 33.0 5.5 38 153-193 169-207 (334)
174 PF02017 CIDE-N: CIDE-N domain 69.5 17 0.00037 25.2 5.3 65 3-76 5-72 (78)
175 cd06410 PB1_UP2 Uncharacterize 68.0 25 0.00054 25.3 6.1 40 5-48 17-56 (97)
176 PF14451 Ub-Mut7C: Mut7-C ubiq 67.9 30 0.00065 24.0 6.3 52 10-73 22-74 (81)
177 cd01768 RA RA (Ras-associating 67.1 37 0.0008 23.1 8.4 49 10-59 12-67 (87)
178 PF02991 Atg8: Autophagy prote 66.8 20 0.00042 26.2 5.4 56 17-75 39-98 (104)
179 PF00794 PI3K_rbd: PI3-kinase 66.1 33 0.00071 24.6 6.5 75 2-76 18-103 (106)
180 PF03474 DMA: DMRTA motif; In 64.0 11 0.00023 22.7 2.9 25 168-192 15-39 (39)
181 KOG3391 Transcriptional co-rep 64.0 7.7 0.00017 29.9 2.9 31 51-81 112-142 (151)
182 cd06398 PB1_Joka2 The PB1 doma 63.2 44 0.00096 23.7 6.6 69 3-75 3-87 (91)
183 cd01612 APG12_C Ubiquitin-like 62.2 49 0.0011 23.2 6.6 60 14-76 19-82 (87)
184 PF12053 DUF3534: Domain of un 60.1 60 0.0013 25.2 7.2 74 1-76 1-81 (145)
185 PF06234 TmoB: Toluene-4-monoo 59.7 37 0.00079 24.0 5.5 60 14-74 18-83 (85)
186 COG4008 Predicted metal-bindin 59.7 23 0.0005 26.9 4.7 37 153-193 114-150 (153)
187 PRK11130 moaD molybdopterin sy 59.4 53 0.0012 22.3 7.2 54 15-73 19-75 (81)
188 PF00276 Ribosomal_L23: Riboso 57.9 29 0.00062 24.5 4.8 41 11-54 21-62 (91)
189 KOG3439 Protein conjugation fa 56.7 39 0.00085 25.1 5.4 58 13-73 47-108 (116)
190 PF03765 CRAL_TRIO_N: CRAL/TRI 56.2 17 0.00038 22.7 3.2 25 168-192 29-53 (55)
191 smart00266 CAD Domains present 55.7 46 0.001 22.9 5.3 48 21-74 19-68 (74)
192 cd01817 RGS12_RBD Ubiquitin do 54.9 66 0.0014 22.0 6.2 47 5-54 4-52 (73)
193 PRK05738 rplW 50S ribosomal pr 53.9 41 0.00088 23.9 5.1 40 10-52 20-60 (92)
194 PRK06090 DNA polymerase III su 53.9 28 0.00061 30.4 5.1 38 151-193 167-204 (319)
195 PF08783 DWNN: DWNN domain; I 52.8 22 0.00047 24.4 3.4 32 4-35 2-35 (74)
196 cd01818 TIAM1_RBD Ubiquitin do 52.3 57 0.0012 22.6 5.3 40 4-46 3-42 (77)
197 PF09722 DUF2384: Protein of u 52.0 15 0.00032 23.1 2.3 20 175-194 2-21 (54)
198 cd01764 Urm1 Urm1-like ubuitin 51.3 47 0.001 23.6 5.1 54 15-73 23-88 (94)
199 cd06397 PB1_UP1 Uncharacterize 51.1 73 0.0016 22.3 5.7 44 2-49 2-45 (82)
200 PF02824 TGS: TGS domain; Int 50.2 66 0.0014 20.6 5.4 59 3-73 1-59 (60)
201 PF06006 DUF905: Bacterial pro 49.7 12 0.00025 25.4 1.6 18 166-184 6-23 (70)
202 KOG1071 Mitochondrial translat 47.0 38 0.00082 29.8 4.7 36 154-192 47-83 (340)
203 PF12436 USP7_ICP0_bdg: ICP0-b 46.2 50 0.0011 27.6 5.3 43 2-47 178-223 (249)
204 cd01775 CYR1_RA Ubiquitin doma 46.0 1.1E+02 0.0024 22.1 7.8 33 3-35 5-37 (97)
205 PF11816 DUF3337: Domain of un 45.8 71 0.0015 27.9 6.4 64 14-77 251-329 (331)
206 PRK14605 ruvA Holliday junctio 45.7 23 0.00049 28.7 3.0 26 153-181 148-173 (194)
207 PF07553 Lipoprotein_Ltp: Host 45.5 34 0.00074 21.4 3.2 26 153-178 21-46 (48)
208 PF04361 DUF494: Protein of un 45.3 29 0.00062 27.2 3.5 26 151-179 21-46 (155)
209 PF04126 Cyclophil_like: Cyclo 45.0 13 0.00029 27.6 1.5 29 1-30 1-29 (120)
210 PF03931 Skp1_POZ: Skp1 family 44.8 17 0.00037 23.5 1.8 32 1-32 1-32 (62)
211 KOG0559 Dihydrolipoamide succi 44.3 1E+02 0.0022 27.8 7.0 58 13-72 73-139 (457)
212 COG3609 Predicted transcriptio 44.1 33 0.00072 24.1 3.3 31 148-180 8-40 (89)
213 PF14847 Ras_bdg_2: Ras-bindin 44.1 77 0.0017 23.2 5.3 45 3-50 3-50 (105)
214 COG0089 RplW Ribosomal protein 44.1 62 0.0013 23.3 4.7 60 10-72 21-90 (94)
215 cd01615 CIDE_N CIDE_N domain, 43.5 56 0.0012 22.7 4.3 48 21-74 21-70 (78)
216 PF12436 USP7_ICP0_bdg: ICP0-b 43.1 25 0.00055 29.4 3.1 59 15-76 89-153 (249)
217 smart00804 TAP_C C-terminal do 42.6 69 0.0015 21.1 4.5 36 152-190 11-47 (63)
218 PF09469 Cobl: Cordon-bleu ubi 42.5 20 0.00044 24.8 1.9 42 29-76 2-46 (79)
219 PLN02983 biotin carboxyl carri 42.4 1.2E+02 0.0027 26.0 7.0 27 53-80 115-141 (274)
220 PF01988 VIT1: VIT family; In 42.1 44 0.00095 27.2 4.3 39 151-193 80-118 (213)
221 KOG4572 Predicted DNA-binding 42.0 63 0.0014 32.2 5.7 64 9-75 3-70 (1424)
222 PF03943 TAP_C: TAP C-terminal 41.3 23 0.00049 22.3 1.9 35 155-192 2-37 (51)
223 cd06539 CIDE_N_A CIDE_N domain 40.5 73 0.0016 22.1 4.4 39 21-62 21-61 (78)
224 PRK03430 hypothetical protein; 40.0 39 0.00084 26.6 3.4 25 151-178 21-45 (157)
225 PF10440 WIYLD: Ubiquitin-bind 39.5 51 0.0011 22.1 3.5 24 152-178 10-33 (65)
226 TIGR03636 L23_arch archaeal ri 38.6 84 0.0018 21.6 4.6 33 11-46 15-47 (77)
227 PF10152 DUF2360: Predicted co 37.8 1.9E+02 0.0041 22.3 9.0 33 149-185 112-144 (148)
228 PF05861 PhnI: Bacterial phosp 37.3 55 0.0012 29.1 4.2 36 155-191 43-78 (358)
229 KOG4248 Ubiquitin-like protein 37.2 23 0.00051 35.7 2.1 69 6-77 330-398 (1143)
230 PF11834 DUF3354: Domain of un 36.0 59 0.0013 21.9 3.4 43 21-73 26-69 (69)
231 PF08671 SinI: Anti-repressor 35.7 68 0.0015 18.1 3.1 23 153-178 5-27 (30)
232 PF14533 USP7_C2: Ubiquitin-sp 35.7 35 0.00076 27.9 2.7 51 10-63 132-194 (213)
233 PF01376 Enterotoxin_b: Heat-l 35.2 60 0.0013 22.8 3.4 31 3-33 38-68 (102)
234 CHL00030 rpl23 ribosomal prote 35.0 1E+02 0.0022 22.0 4.6 40 9-51 18-58 (93)
235 PF09999 DUF2240: Uncharacteri 35.0 59 0.0013 25.2 3.7 32 145-179 79-111 (144)
236 PRK00116 ruvA Holliday junctio 34.7 56 0.0012 26.2 3.7 28 152-182 148-175 (192)
237 PRK14548 50S ribosomal protein 34.5 1.1E+02 0.0023 21.5 4.7 34 10-46 21-54 (84)
238 PF03634 TCP: TCP family trans 34.2 15 0.00033 27.8 0.3 23 155-193 30-53 (138)
239 PRK00430 fis global DNA-bindin 34.0 38 0.00082 24.2 2.3 24 168-191 55-78 (95)
240 COG3760 Uncharacterized conser 33.9 62 0.0013 25.4 3.6 59 2-73 47-105 (164)
241 KOG4598 Putative ubiquitin-spe 33.8 73 0.0016 31.3 4.7 60 12-76 878-943 (1203)
242 PRK05707 DNA polymerase III su 33.6 1E+02 0.0022 27.0 5.4 38 152-192 166-205 (328)
243 PRK01777 hypothetical protein; 33.5 1.8E+02 0.0039 20.8 7.5 69 1-74 4-75 (95)
244 PF14807 AP4E_app_platf: Adapt 33.4 1.3E+02 0.0029 21.9 5.1 63 13-76 23-86 (104)
245 cd01777 SNX27_RA Ubiquitin dom 33.0 1.1E+02 0.0024 21.7 4.4 40 2-44 3-42 (87)
246 PF14689 SPOB_a: Sensor_kinase 32.8 53 0.0011 21.3 2.7 14 180-193 35-48 (62)
247 cd06536 CIDE_N_ICAD CIDE_N dom 32.5 1.1E+02 0.0023 21.4 4.3 48 21-74 21-72 (80)
248 cd06404 PB1_aPKC PB1 domain is 32.4 1.8E+02 0.0039 20.4 5.5 33 2-35 2-34 (83)
249 smart00314 RA Ras association 32.3 1.6E+02 0.0035 20.0 6.5 47 10-59 15-69 (90)
250 PRK01905 DNA-binding protein F 32.2 44 0.00095 22.7 2.4 24 168-191 37-60 (77)
251 KOG4361 BCL2-associated athano 32.0 20 0.00042 31.9 0.7 60 13-75 73-138 (344)
252 PRK06871 DNA polymerase III su 31.8 1.1E+02 0.0025 26.7 5.4 39 153-193 168-206 (325)
253 PF10025 DUF2267: Uncharacteri 31.6 62 0.0013 23.9 3.3 26 153-181 2-29 (125)
254 COG3626 PhnI Uncharacterized e 30.9 46 0.001 28.8 2.7 35 156-192 44-78 (367)
255 PF09358 UBA_e1_C: Ubiquitin-a 30.8 71 0.0015 23.9 3.5 21 15-35 37-57 (125)
256 cd06538 CIDE_N_FSP27 CIDE_N do 30.5 1.2E+02 0.0027 21.0 4.3 49 21-75 21-70 (79)
257 PRK11608 pspF phage shock prot 29.5 44 0.00095 29.0 2.4 24 168-191 286-309 (326)
258 PRK05441 murQ N-acetylmuramic 29.4 1.1E+02 0.0024 26.3 4.9 38 153-193 235-273 (299)
259 PF15187 Augurin: Oesophageal 28.9 59 0.0013 23.8 2.6 24 150-176 47-70 (114)
260 PF04110 APG12: Ubiquitin-like 28.9 1.3E+02 0.0028 21.3 4.3 59 13-74 18-80 (87)
261 PRK15115 response regulator Gl 28.6 45 0.00098 29.7 2.5 24 168-191 398-421 (444)
262 cd08798 Death_NFkB2_p100 Death 28.3 86 0.0019 21.6 3.2 24 150-178 52-75 (76)
263 PF03725 RNase_PH_C: 3' exorib 28.2 12 0.00026 24.4 -1.0 22 160-181 44-66 (68)
264 cd06537 CIDE_N_B CIDE_N domain 28.0 1.4E+02 0.0031 20.8 4.3 63 3-74 5-69 (81)
265 TIGR01817 nifA Nif-specific re 27.9 46 0.001 30.8 2.4 24 168-191 490-513 (534)
266 PF10346 Con-6: Conidiation pr 27.7 42 0.00091 19.8 1.4 17 169-185 2-18 (36)
267 PRK07940 DNA polymerase III su 27.6 1.5E+02 0.0032 26.7 5.5 38 153-193 178-216 (394)
268 PF01577 Peptidase_S30: Potyvi 27.6 1.7E+02 0.0036 24.0 5.5 72 3-76 152-224 (245)
269 cd02433 Nodulin-21_like_2 Nodu 27.2 1E+02 0.0022 25.7 4.2 40 151-193 98-137 (234)
270 PF09957 DUF2191: Uncharacteri 27.2 97 0.0021 19.1 3.1 29 153-181 8-36 (47)
271 PF04895 DUF651: Archaeal prot 27.0 66 0.0014 23.8 2.6 25 169-193 55-82 (110)
272 TIGR02974 phageshock_pspF psp 27.0 51 0.0011 28.7 2.4 24 168-191 292-315 (329)
273 PRK10923 glnG nitrogen regulat 26.9 49 0.0011 29.8 2.4 24 168-191 429-452 (469)
274 PF06487 SAP18: Sin3 associate 26.7 82 0.0018 23.6 3.2 62 11-74 37-120 (120)
275 PF02505 MCR_D: Methyl-coenzym 26.7 1.4E+02 0.0031 23.3 4.5 43 13-62 77-120 (153)
276 PRK05022 anaerobic nitric oxid 26.6 49 0.0011 30.6 2.3 24 168-191 468-491 (509)
277 KOG4167 Predicted DNA-binding 25.9 77 0.0017 31.1 3.5 43 151-193 552-600 (907)
278 PRK13552 frdB fumarate reducta 25.8 1.1E+02 0.0023 25.6 4.0 25 11-35 24-48 (239)
279 TIGR01818 ntrC nitrogen regula 25.5 54 0.0012 29.4 2.4 24 168-191 426-449 (463)
280 PHA01794 hypothetical protein 25.2 78 0.0017 24.1 2.8 34 153-193 77-110 (134)
281 PRK12280 rplW 50S ribosomal pr 25.2 1.5E+02 0.0032 23.4 4.5 40 10-52 22-62 (158)
282 KOG3751 Growth factor receptor 24.9 1.9E+02 0.0041 27.4 5.7 74 3-78 191-274 (622)
283 PF02192 PI3K_p85B: PI3-kinase 24.8 93 0.002 21.5 2.9 23 13-35 2-24 (78)
284 PLN03196 MOC1-like protein; Pr 24.7 87 0.0019 29.0 3.6 38 153-193 340-384 (487)
285 PF13331 DUF4093: Domain of un 24.5 78 0.0017 22.3 2.5 23 153-178 65-87 (87)
286 TIGR02606 antidote_CC2985 puta 24.3 1.3E+02 0.0027 20.1 3.5 30 148-179 5-36 (69)
287 PRK05841 flgE flagellar hook p 24.3 82 0.0018 30.2 3.4 36 1-36 249-293 (603)
288 PF08383 Maf_N: Maf N-terminal 24.2 52 0.0011 19.2 1.3 9 184-192 25-33 (35)
289 KOG4842 Protein involved in si 23.9 18 0.00038 30.9 -1.0 39 9-50 11-49 (278)
290 PRK06964 DNA polymerase III su 23.8 1.6E+02 0.0035 26.0 5.0 39 150-193 190-228 (342)
291 PF02631 RecX: RecX family; I 23.8 78 0.0017 23.0 2.6 25 152-179 94-118 (121)
292 COG2103 Predicted sugar phosph 23.5 1.6E+02 0.0034 25.5 4.6 38 153-193 233-271 (298)
293 cd05839 BR140_related The PWWP 23.5 69 0.0015 23.7 2.2 30 155-190 82-111 (111)
294 TIGR02293 TAS_TIGR02293 putati 23.5 91 0.002 23.4 2.9 22 173-194 77-98 (133)
295 PLN02593 adrenodoxin-like ferr 23.4 1.6E+02 0.0035 21.6 4.2 28 1-28 1-28 (117)
296 KOG4146 Ubiquitin-like protein 23.2 2.9E+02 0.0064 19.9 6.9 53 19-75 34-97 (101)
297 PF07261 DnaB_2: Replication i 23.0 21 0.00046 23.6 -0.6 37 154-193 18-55 (77)
298 COG2080 CoxS Aerobic-type carb 22.8 1.2E+02 0.0026 23.9 3.5 59 1-60 2-64 (156)
299 KOG2660 Locus-specific chromos 22.3 74 0.0016 28.0 2.5 48 14-62 167-214 (331)
300 cd01782 AF6_RA_repeat1 Ubiquit 22.2 2.5E+02 0.0054 20.8 4.8 35 1-35 24-60 (112)
301 TIGR03260 met_CoM_red_D methyl 22.1 2.6E+02 0.0056 21.9 5.1 43 13-62 76-118 (150)
302 PF11848 DUF3368: Domain of un 22.0 1.6E+02 0.0035 18.0 3.4 26 152-180 20-47 (48)
303 cd05007 SIS_Etherase N-acetylm 21.9 83 0.0018 26.4 2.7 33 153-188 222-255 (257)
304 PRK07276 DNA polymerase III su 21.7 1.8E+02 0.0038 25.1 4.7 37 153-193 164-200 (290)
305 PF07929 PRiA4_ORF3: Plasmid p 21.7 1.7E+02 0.0036 22.9 4.3 25 11-35 17-42 (179)
306 PHA02564 V virion protein; Pro 21.4 1.7E+02 0.0038 22.5 4.1 31 152-182 109-141 (141)
307 smart00143 PI3K_p85B PI3-kinas 21.2 1.3E+02 0.0027 20.9 3.0 23 13-35 2-24 (78)
308 cd00474 SUI1_eIF1 The SUI1/eIF 20.9 85 0.0018 21.5 2.1 23 148-173 52-74 (77)
309 cd08797 Death_NFkB1_p105 Death 20.8 1.3E+02 0.0028 20.7 3.0 25 149-178 51-75 (76)
310 PF09014 Sushi_2: Beta-2-glyco 20.7 75 0.0016 22.4 1.8 39 39-78 6-44 (85)
311 PF14841 FliG_M: FliG middle d 20.7 55 0.0012 22.3 1.1 23 173-195 15-38 (79)
312 COG5222 Uncharacterized conser 20.4 4E+02 0.0086 23.5 6.4 37 14-51 17-54 (427)
313 PF14044 NETI: NETI protein 20.2 1.5E+02 0.0033 19.3 3.0 19 15-33 2-20 (57)
314 PF03918 CcmH: Cytochrome C bi 20.2 1.4E+02 0.0031 23.1 3.5 29 152-183 61-89 (148)
315 TIGR02915 PEP_resp_reg putativ 20.1 82 0.0018 28.1 2.4 24 168-191 405-428 (445)
316 TIGR00678 holB DNA polymerase 20.0 1.6E+02 0.0034 22.9 3.8 32 153-187 157-188 (188)
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-44 Score=317.91 Aligned_cols=190 Identities=41% Similarity=0.644 Sum_probs=130.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccCCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~~~ 80 (197)
|+|+||+++|++|.|+|++++||.+||++|+...|.+.+++++|||||+||+|+|+++|++|+|+++++|+||+++++..
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 89999999999999999999999999999999987433899999999999999999999999999999999999988764
Q ss_pred CCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCC--C--CCCCC-CCCCccccccCCCCCCccccccccccCCCchH
Q 029207 81 GSAGASSAQPA-HTTPPTTAPSSNSTPPQEASVPPPA--P--TPSIP-ASNVTSNVTAANANSDTYGQAASNLVAGNDLE 154 (197)
Q Consensus 81 ~~~~~~~~~~~-~~~~p~~~~~~~~~p~~~p~~~~~~--~--~p~~~-~~~~~~~~~~~~~~~~~~~~~~s~l~~g~~~~ 154 (197)
....+.++..+ +++.+.. ..+. +|...+...+.. . ++.+. +.+ +...+++.........+.+.|++|+++|
T Consensus 81 ~~~~~~~~~~~~~~p~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~s~l~~g~~~e 157 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTP-SPPA-SPASGMSAAPASAVEEKSPSEESATA-TAPESPSTSVPSSGSDAASTLVVGSERE 157 (378)
T ss_pred CCCCCCCCCCCCCCCCCCC-CCCC-CCCCCCCCCCCCCCccccccCCCCCC-CCCCCCCccccccCCCcccccccchHHH
Confidence 32221111011 1111000 0000 011000000000 0 00000 000 0000000000010125678999999999
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC--cCC
Q 029207 155 QTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS--ISS 196 (197)
Q Consensus 155 ~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~--~~~ 196 (197)
++|++||+|| |+|++|++|||||||||||||||||+ |+.
T Consensus 158 ~~I~~i~eMG---f~R~qV~~ALRAafNNPdRAVEYL~tGIP~~ 198 (378)
T TIGR00601 158 TTIEEIMEMG---YEREEVERALRAAFNNPDRAVEYLLTGIPED 198 (378)
T ss_pred HHHHHHHHhC---CCHHHHHHHHHHHhCCHHHHHHHHHhCCCcc
Confidence 9999999999 99999999999999999999999999 754
No 2
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=100.00 E-value=3.6e-41 Score=285.45 Aligned_cols=174 Identities=52% Similarity=0.792 Sum_probs=132.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccCCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~~~ 80 (197)
|+|+||+++|.+|+|++.+++||.++|++|+...|.+ +|++.|+|||+||+|+|+.++++|+|+++++|+||++|+|..
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 999999999999999999999999999999999999998821
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCCCCCccccccccccCCCchHHHHHHH
Q 029207 81 GSAGASSAQPAHTTPPTTAPSSNSTPPQEASVPPPAPTPSIPASNVTSNVTAANANSDTYGQAASNLVAGNDLEQTIQQI 160 (197)
Q Consensus 81 ~~~~~~~~~~~~~~~p~~~~~~~~~p~~~p~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~s~l~~g~~~~~~i~~l 160 (197)
.... .+....+........+|+.+. .....|+.+ ..++....++.+.+.|+.|++++++|.+|
T Consensus 80 ~t~~-----ap~s~~~~~~p~~~~ap~~s~---a~~~s~~~~---------~~~~~~~~~~~aas~Lv~G~~~e~~V~~I 142 (340)
T KOG0011|consen 80 STQV-----APQSSAATHLPKAAEAPPSSA---AEDASPATP---------AQTSQEDTYEIAASTLVVGSEYEQTVQQI 142 (340)
T ss_pred ccCC-----CCCCccccCCCccCCCCCccc---cccCCCCcc---------ccccccchhhhhhhhhhccchhHHHHHHH
Confidence 1111 000000000000001111100 000001000 11122344677889999999999999999
Q ss_pred HHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC--cC
Q 029207 161 MDMGGGTWDKETVTRALQAAYNNPERAVDYLYS--IS 195 (197)
Q Consensus 161 ~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~--~~ 195 (197)
|+|| |+|++|++||||+|||||||||||++ |+
T Consensus 143 m~MG---y~re~V~~AlRAafNNPeRAVEYLl~GIP~ 176 (340)
T KOG0011|consen 143 MEMG---YDREEVERALRAAFNNPERAVEYLLNGIPE 176 (340)
T ss_pred HHhC---ccHHHHHHHHHHhhCChhhhHHHHhcCCcc
Confidence 9999 99999999999999999999999999 65
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=99.84 E-value=1.6e-20 Score=129.83 Aligned_cols=73 Identities=30% Similarity=0.449 Sum_probs=70.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
|+|+||+.+|+.+.++|++++||.+||++|++..| +++++|+|+|+||+|+|+.+|++|||+++++|+++++.
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 99999999999999999999999999999999999863
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=99.82 E-value=8.9e-20 Score=126.54 Aligned_cols=75 Identities=53% Similarity=0.774 Sum_probs=72.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCC--CCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNY--PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~--p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~ 78 (197)
|+|+||+.+|+.+.+++++++||.+||++|++..| + ++++|+|+|+|++|+|+.+|++|||+++++|++++++++
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=99.81 E-value=1e-19 Score=127.28 Aligned_cols=74 Identities=20% Similarity=0.320 Sum_probs=70.2
Q ss_pred CEEEEEeCCCcE-EEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSH-FEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~-~~ie-v~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+|+||+++|+. +.|+ +++++||.+||++|++..| +++++|||+|+||+|+|+.+|++|||+++++|+|+++..
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g---i~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN---VEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC---CCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 7895 8999999999999999999 999999999999999999999999999999999998753
No 6
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.80 E-value=1.9e-19 Score=124.39 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=68.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+||++.|+.+.++|++++||++||++|++..| +++++|||+|+|++|+|+.+|++|||+++++|||..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999863
No 7
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.80 E-value=3e-19 Score=123.41 Aligned_cols=73 Identities=26% Similarity=0.317 Sum_probs=69.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~ 78 (197)
|+|+||+ ++.+.++|++++||.+||.+|++..| +|+++|+|+|+||+|+|+++|++|+|+++++|+++++.+.
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~G 73 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEG---IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLG 73 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhC---CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence 8999997 47899999999999999999999999 9999999999999999999999999999999999987653
No 8
>PTZ00044 ubiquitin; Provisional
Probab=99.79 E-value=5.8e-19 Score=122.22 Aligned_cols=74 Identities=30% Similarity=0.451 Sum_probs=71.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+|+||+++|+.+.+++++++||.+||.+|++..| +|+++|||+|+|+.|+|+.+|++|+|+++++|+++++.+
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~ 74 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG---IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC---CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998764
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=99.78 E-value=8.2e-19 Score=128.86 Aligned_cols=74 Identities=42% Similarity=0.623 Sum_probs=71.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+|+||+++|+.+.|+|++++||.+||++|++..| +++++|||+|+||+|+|+.+|++|+|+++++|+++++.+
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g---ip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~ 101 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEG---IPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMR 101 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecC
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998764
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=99.78 E-value=8.3e-19 Score=122.60 Aligned_cols=72 Identities=25% Similarity=0.414 Sum_probs=69.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
|+|+||+..|+.+.|+++++.||.+||++|++..| +++++|||+|+||+|+|+ +|++|||+++++|+|+...
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~---~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK---VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC---CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence 89999999999999999999999999999999999 999999999999999998 9999999999999999765
No 11
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.77 E-value=2.4e-18 Score=118.68 Aligned_cols=74 Identities=38% Similarity=0.583 Sum_probs=71.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+|+||+.+|+.+.++++++.||.+||++|+...| +|+++|||+|+|+.|+|+.+|++|+|+++++|+++++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g---~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~ 74 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC---CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998754
No 12
>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=99.77 E-value=1.3e-18 Score=119.26 Aligned_cols=69 Identities=29% Similarity=0.436 Sum_probs=66.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
++||.++|+.+.++|++++||.+||.+|++..| +++++|||+|+|++|+|+.+|++|+|+++++|||++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g---i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG---VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 468999999999999999999999999999999 999999999999999999999999999999999987
No 13
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.77 E-value=1.2e-18 Score=122.20 Aligned_cols=73 Identities=27% Similarity=0.408 Sum_probs=70.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL--i~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
|+|+||+++|+.+.++++++.||.+||++|++..| +++++||| +|+|++|+|+.+|++|||+++++|+|++++
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~---i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG---VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC---CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 78999999999999999999999999999999999 99999999 999999999999999999999999999875
No 14
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.77 E-value=1.8e-18 Score=119.51 Aligned_cols=72 Identities=21% Similarity=0.261 Sum_probs=69.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+||++.|+++.++|++++||.+||++|+...| +|+++|+|+|+|++|+|+++|++|||+++++|+++++..
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER---VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLR 72 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 689999999999999999999999999999999 999999999999999999999999999999999998754
No 15
>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=99.77 E-value=1.7e-18 Score=118.33 Aligned_cols=70 Identities=26% Similarity=0.437 Sum_probs=67.5
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
|+||++.|+.+.+++++++||.+||++|++..| +++++|+|+|+|++|+|+.+|++|||+++++||++.|
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 16
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.76 E-value=3.4e-18 Score=117.89 Aligned_cols=74 Identities=41% Similarity=0.599 Sum_probs=71.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+|+||+.+|+.+.+++++++||.+||++|+...| +|+++|+|+|+|+.|+|+.+|++|||+++++|+++++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g---~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~ 74 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC---CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999999999999999999999999 999999999999999999999999999999999998754
No 17
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=99.76 E-value=1.8e-18 Score=120.79 Aligned_cols=73 Identities=22% Similarity=0.150 Sum_probs=64.6
Q ss_pred CEEEEEeCCCcEE--EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc--cCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHF--EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNK--VSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~--~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~--I~~~~~I~l~~ 74 (197)
|.|+||+.+|+++ .+++++++||++||++|+...+.. .++++|||||+||+|+|+.+|++|+ +.++.+|||++
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~-~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSK-PLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCC-CChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 5799999999984 555689999999999999987521 5689999999999999999999996 99999999986
No 18
>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=99.76 E-value=3.9e-18 Score=116.41 Aligned_cols=72 Identities=33% Similarity=0.498 Sum_probs=69.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
|+|+||+++|+.+.+++++++||.+||++|+...| ++++.|+|+|+|+.|+|+.+|++|||+++++|+++.+
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 19
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.75 E-value=5.6e-18 Score=116.09 Aligned_cols=71 Identities=28% Similarity=0.363 Sum_probs=67.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
|+|+||+..|+ +.|++++++||.+||++|++..| ++.++|+|+|+||+|+|+.+|++|||+++++||++++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~---i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK---ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC---CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 58999999999999999999999 9999999999999999999999999999999999874
No 20
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.74 E-value=7.4e-18 Score=114.39 Aligned_cols=69 Identities=38% Similarity=0.595 Sum_probs=65.9
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 6 k~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|+++|+.|.++|++++||.+||++|+...| ++++.|+|+|+|++|+|+.+|++|||+++++|+|+++++
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 678999999999999999999999999999 999999999999999999999999999999999988753
No 21
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.72 E-value=2.9e-17 Score=113.73 Aligned_cols=70 Identities=23% Similarity=0.367 Sum_probs=66.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~---~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+|| ++|+.|.++|++++||.+||++|++.+| +|+++|||+| +|+.|+|+.+|++|+|+++++|+||.
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tg---vp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTG---VLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHC---CCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 689999 7899999999999999999999999999 9999999996 99999999999999999999999985
No 22
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.71 E-value=3.6e-17 Score=112.31 Aligned_cols=68 Identities=32% Similarity=0.401 Sum_probs=64.3
Q ss_pred EEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCC-CcccccccCCCCeEEEE
Q 029207 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDE-TTLADNKVSEDGFLVVM 73 (197)
Q Consensus 3 I~Vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~-~tL~~~~I~~~~~I~l~ 73 (197)
|+||+. +|+.+.++|++++||.+||.+|++..| +|+++|+|+|+||.|+|+ .+|++|||+++++|++-
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 589999 999999999999999999999999999 999999999999999887 68999999999999873
No 23
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.68 E-value=1.7e-16 Score=108.19 Aligned_cols=70 Identities=24% Similarity=0.325 Sum_probs=66.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+||.. |+.+.+++++++||.+||++|+..+| +++++|||+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g---i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG---VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC---CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 89999999999999999999999999 999999999999999999999999999999999874
No 24
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=5.3e-17 Score=105.73 Aligned_cols=70 Identities=36% Similarity=0.554 Sum_probs=68.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
|.|.||+++|+.+.|+++++++|..+|++|+++.| +|+.+|||||.||.+.|+.+-.+|++.-|++||++
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 78999999999999999999999999999999999 99999999999999999999999999999999974
No 25
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.66 E-value=3.1e-16 Score=108.96 Aligned_cols=68 Identities=28% Similarity=0.435 Sum_probs=64.8
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccC
Q 029207 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (197)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~ 78 (197)
++|+.+.|+|++++||.+||.+|+...| +|+++|+|+|+|+.|+|+++|++|+|+++++|+|+++.+.
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 9999999999999999999999999999999999988654
No 26
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.60 E-value=3.3e-15 Score=133.38 Aligned_cols=78 Identities=27% Similarity=0.437 Sum_probs=71.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccCCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~~~ 80 (197)
++|+||+.++ ++.+.|..+.||.+||++|...++ +++++++|||.||+|+|+++|..|||++|.+||||++....+
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~---a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~~ 91 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFG---APPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPRP 91 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcC---CChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCCC
Confidence 4799999888 899999999999999999999999 999999999999999999999999999999999998766544
Q ss_pred CC
Q 029207 81 GS 82 (197)
Q Consensus 81 ~~ 82 (197)
..
T Consensus 92 ~~ 93 (493)
T KOG0010|consen 92 TG 93 (493)
T ss_pred CC
Confidence 43
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.58 E-value=6.6e-15 Score=97.60 Aligned_cols=64 Identities=45% Similarity=0.703 Sum_probs=61.0
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDG 68 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~ 68 (197)
|+|+||+.+ +.+.++|+++.||.+||.+|+..+| +++++|+|+|+|+.|.|+.+|++|||++++
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 899999988 7899999999999999999999999 999999999999999999999999999874
No 28
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.58 E-value=2.5e-16 Score=114.15 Aligned_cols=76 Identities=41% Similarity=0.575 Sum_probs=73.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKT 79 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~~ 79 (197)
|.++++++.|++.++++++++||..||.+|....| +|++.|+|+|+||+|+|..||++|||+..++||++.+.+..
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~G---i~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG 76 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccC---CCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcC
Confidence 78899999999999999999999999999999999 99999999999999999999999999999999999887765
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.58 E-value=1.4e-14 Score=103.23 Aligned_cols=74 Identities=19% Similarity=0.312 Sum_probs=71.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|.|+|++.+|+.+.++|.+++++..||.++++..| +++++|||+|+|+.|+|+.|+.+|+|+++++|+++++..
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~g---i~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~ 85 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQG---LSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQT 85 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhC---CCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecc
Confidence 67999999999999999999999999999999999 999999999999999999999999999999999998765
No 30
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.55 E-value=3.9e-15 Score=114.79 Aligned_cols=78 Identities=36% Similarity=0.508 Sum_probs=74.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccCCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSKTL 80 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~~~ 80 (197)
|+|+|+.+.|+++.+++..++||..+|.+|++..| ||+++|||||.|+.|+|..+|+||+|+..++|+++++.+...
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 999999999999999999999999999999999999876554
Q ss_pred C
Q 029207 81 G 81 (197)
Q Consensus 81 ~ 81 (197)
.
T Consensus 78 k 78 (156)
T KOG0004|consen 78 K 78 (156)
T ss_pred c
Confidence 3
No 31
>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=99.54 E-value=7.4e-15 Score=101.43 Aligned_cols=55 Identities=22% Similarity=0.183 Sum_probs=49.2
Q ss_pred CCCCHHHHHHHHHHHhCCCCC-CCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 19 PSDTVMAVKKNIEDVQGKDNY-PCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 19 ~~~TV~~LK~~I~~~~g~~~~-p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
.++||.+||++|+++.+.. + ++++|||||+||+|+|+++|++|||+++++|||+.
T Consensus 19 ~~~TV~~LK~kI~~~~~eg-i~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDS-LPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccC-CCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 4689999999999996322 5 59999999999999999999999999999999985
No 32
>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=99.49 E-value=6.4e-14 Score=103.21 Aligned_cols=78 Identities=19% Similarity=0.258 Sum_probs=63.8
Q ss_pred EEEEEeCCCcEE-EEEeCCCCCHHHHHHHHHHHhCC--CCCC--CCCeEEEeCCeecCCCCcccccc------cCCCCeE
Q 029207 2 KLTVKTLKGSHF-EIRVQPSDTVMAVKKNIEDVQGK--DNYP--CGQQLLIHNGKVLKDETTLADNK------VSEDGFL 70 (197)
Q Consensus 2 ~I~Vk~~~g~~~-~iev~~~~TV~~LK~~I~~~~g~--~~~p--~~~qrLi~~Gk~L~D~~tL~~~~------I~~~~~I 70 (197)
.|.||..+|..+ .+.+.+++||.+||++|++..+. ..+| +++|||||+||+|+|+++|++|+ +....++
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 578888888554 56788999999999999966642 1144 99999999999999999999999 7777899
Q ss_pred EEEecccCC
Q 029207 71 VVMLSKSKT 79 (197)
Q Consensus 71 ~l~~~~~~~ 79 (197)
||+++.+..
T Consensus 86 Hvvlr~~~~ 94 (113)
T cd01814 86 HVVVQPPLA 94 (113)
T ss_pred EEEecCCCC
Confidence 999876443
No 33
>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=99.46 E-value=2.6e-13 Score=91.04 Aligned_cols=68 Identities=46% Similarity=0.665 Sum_probs=64.2
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 4 ~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
+||..+|+.+.++++++.||.+||++|+..+| +++++|+|+|+|+.|+|+.+|.+|++.+++.|+++.
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 37778899999999999999999999999999 999999999999999999999999999999999875
No 34
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.44 E-value=3.4e-13 Score=93.57 Aligned_cols=65 Identities=20% Similarity=0.220 Sum_probs=58.6
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCcccccccC-CCCeEEEEe
Q 029207 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLK-DETTLADNKVS-EDGFLVVML 74 (197)
Q Consensus 6 k~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~-D~~tL~~~~I~-~~~~I~l~~ 74 (197)
|...|.++.|+|++++||.+||.+|+.+.| +|+++||| |.|+.|. |+++|++|||+ +|+++++.+
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 345688999999999999999999999999 99999999 9999985 67899999999 789998864
No 35
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=99.38 E-value=1.9e-12 Score=88.45 Aligned_cols=71 Identities=23% Similarity=0.402 Sum_probs=65.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~-~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+|++.+|+.+.+.|.++.++..|++.+++..| ++. +.++|+|+|+.|++++|+++|||+++++|.|++
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 68999999999999999999999999999999999 889 999999999999999999999999999999874
No 36
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.36 E-value=1.2e-12 Score=78.66 Aligned_cols=36 Identities=47% Similarity=0.741 Sum_probs=33.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
+++.|++|++|| |++++|++||+.+.||+++|++||
T Consensus 2 ~~~~v~~L~~mG---f~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMG---FSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHT---S-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcC---CCHHHHHHHHHHcCCCHHHHHHhC
Confidence 578999999999 999999999999999999999998
No 37
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.27 E-value=1.3e-11 Score=88.93 Aligned_cols=62 Identities=21% Similarity=0.195 Sum_probs=57.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecC-CCCcccccccCCCCeEEEEecc
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLK-DETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~-D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
...++|++++||++||.+|...++ +++.+|+|+|+|+.|. |.++|++|||..++.|.|.+..
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 467899999999999999999999 9999999999999995 4679999999999999998754
No 38
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=99.22 E-value=2.3e-11 Score=73.21 Aligned_cols=37 Identities=41% Similarity=0.767 Sum_probs=35.4
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++.|++|++|| |++++|++||+++.||+++|++||++
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 67899999999 99999999999999999999999984
No 39
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=99.19 E-value=3.6e-11 Score=71.99 Aligned_cols=37 Identities=43% Similarity=0.712 Sum_probs=35.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
+++.|++|++|| |++++|++||+...||+++|++||+
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 368899999999 9999999999999999999999996
No 40
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.15 E-value=5.6e-10 Score=82.99 Aligned_cols=75 Identities=24% Similarity=0.325 Sum_probs=55.6
Q ss_pred EEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCC----CCCCCCeEEEeCCeecCCCCcccccccCCCC------eE
Q 029207 2 KLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKD----NYPCGQQLLIHNGKVLKDETTLADNKVSEDG------FL 70 (197)
Q Consensus 2 ~I~Vk~~~g~-~~~iev~~~~TV~~LK~~I~~~~g~~----~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~------~I 70 (197)
.|+++..+|. .-.+.+++++||.+||+.|......+ ...+..+||||.||+|+|+.+|++|++..++ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 5778888998 77899999999999999999876433 1235678999999999999999999988766 45
Q ss_pred EEEecc
Q 029207 71 VVMLSK 76 (197)
Q Consensus 71 ~l~~~~ 76 (197)
||+++.
T Consensus 84 Hlvvrp 89 (111)
T PF13881_consen 84 HLVVRP 89 (111)
T ss_dssp EEEE-S
T ss_pred EEEecC
Confidence 555543
No 41
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.12 E-value=5.5e-10 Score=79.02 Aligned_cols=71 Identities=23% Similarity=0.320 Sum_probs=59.3
Q ss_pred EEEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe-----ec-CCCCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGK-----VL-KDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~-g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL-i~~Gk-----~L-~D~~tL~~~~I~~~~~I~l~ 73 (197)
+|.|+... ....+..+++++||.+||++|+..+| +++..|+| +|.|+ .| +|+++|++||+++|..|||+
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G---~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG---TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC---CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 56666533 33455669999999999999999999 99999999 58888 46 67789999999999999998
Q ss_pred ec
Q 029207 74 LS 75 (197)
Q Consensus 74 ~~ 75 (197)
-.
T Consensus 80 D~ 81 (84)
T cd01789 80 DV 81 (84)
T ss_pred eC
Confidence 54
No 42
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=1.4e-10 Score=111.09 Aligned_cols=71 Identities=23% Similarity=0.334 Sum_probs=67.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
.|+||+++.++.++.|...+||++||.+|.++.+ |+.+.|||||.|++|.|++++.+|+| +|.+|||+-|.
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n---i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverp 74 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN---IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERP 74 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcc---cccccceeeecceeeccchhhhhccC-CCeEEEeeccC
Confidence 4889999999999999999999999999999999 99999999999999999999999999 89999999873
No 43
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.04 E-value=2.2e-09 Score=71.56 Aligned_cols=72 Identities=44% Similarity=0.612 Sum_probs=67.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
+++++..|+.+.+++.+..+|..+|.+|....| ++.+.|+|.|.|+.|.|+.+|.+|+|..++.+++..+.+
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 567888999999999999999999999999999 999999999999999999999999999999999987654
No 44
>PLN02560 enoyl-CoA reductase
Probab=99.03 E-value=8.6e-10 Score=95.44 Aligned_cols=70 Identities=34% Similarity=0.444 Sum_probs=62.0
Q ss_pred CEEEEEeCCCcEE---EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C----eecCCCCcccccccCCCCeE
Q 029207 1 MKLTVKTLKGSHF---EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G----KVLKDETTLADNKVSEDGFL 70 (197)
Q Consensus 1 M~I~Vk~~~g~~~---~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~---G----k~L~D~~tL~~~~I~~~~~I 70 (197)
|+|+|+..+|+.+ +|+++++.||++||++|++..+. +++++|||++. | +.|+|+++|+++|++++++|
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 8999998889887 79999999999999999999872 48999999983 3 47899999999999999988
Q ss_pred EE
Q 029207 71 VV 72 (197)
Q Consensus 71 ~l 72 (197)
++
T Consensus 79 y~ 80 (308)
T PLN02560 79 VF 80 (308)
T ss_pred EE
Confidence 76
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=98.96 E-value=2.7e-09 Score=78.68 Aligned_cols=73 Identities=19% Similarity=0.228 Sum_probs=61.0
Q ss_pred CEEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccccc-------CCCCeEEE
Q 029207 1 MKLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKV-------SEDGFLVV 72 (197)
Q Consensus 1 M~I~Vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I-------~~~~~I~l 72 (197)
|-++++.. ...++.+++.++.||.+||++|+.... .|+++|||+..+.+|+|+++|+|||+ +...+|-|
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 34444433 445678899999999999999999999 99999999977789999999999999 66778888
Q ss_pred Eecc
Q 029207 73 MLSK 76 (197)
Q Consensus 73 ~~~~ 76 (197)
.+++
T Consensus 78 a~r~ 81 (119)
T cd01788 78 AFRS 81 (119)
T ss_pred EEec
Confidence 7775
No 46
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.92 E-value=5.2e-09 Score=74.27 Aligned_cols=72 Identities=24% Similarity=0.292 Sum_probs=57.8
Q ss_pred EEEEEeCCC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----C---eec-CCCCcccccccCCCCeEE
Q 029207 2 KLTVKTLKG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----G---KVL-KDETTLADNKVSEDGFLV 71 (197)
Q Consensus 2 ~I~Vk~~~g--~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~----G---k~L-~D~~tL~~~~I~~~~~I~ 71 (197)
+|+|..... ..++..++.++||.+||.+|+..+| ++++.|+|.+. + ..| +|..+|++||+++|..||
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 567776544 4888999999999999999999999 99999999876 1 124 567899999999999999
Q ss_pred EEecc
Q 029207 72 VMLSK 76 (197)
Q Consensus 72 l~~~~ 76 (197)
|.=..
T Consensus 80 V~D~~ 84 (87)
T PF14560_consen 80 VVDTN 84 (87)
T ss_dssp EEE-T
T ss_pred EEeCC
Confidence 97544
No 47
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=98.92 E-value=4.1e-09 Score=73.19 Aligned_cols=69 Identities=26% Similarity=0.264 Sum_probs=54.5
Q ss_pred EEEEEeCC-CcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCCCCcccccccCCCCeEEE
Q 029207 2 KLTVKTLK-GSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~-g~~~~iev~-~~~TV~~LK~~I~~~~g~~~~p~~~qrL--i~~Gk~L~D~~tL~~~~I~~~~~I~l 72 (197)
.|.++..+ .....++++ ++.||.+||+.|+...+. +++++||| .+.|++|.|+.+|.+|||+++++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~--~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQ--LTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCC--CCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 46666555 333334444 788999999999988752 57899888 58999999999999999999998876
No 48
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.73 E-value=2.6e-08 Score=69.87 Aligned_cols=69 Identities=28% Similarity=0.365 Sum_probs=44.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eec--CCCCcccccccCCCCeEEEE
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVL--KDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G---k~L--~D~~tL~~~~I~~~~~I~l~ 73 (197)
|-|.||+.+| .+.|++++++|+.+||++|.+..+ ++.+.|.|..+- ..| .++++|+++||+.||.|+|-
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 6788998877 789999999999999999999999 888888885332 244 46789999999999999863
No 49
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.66 E-value=1.7e-07 Score=59.24 Aligned_cols=67 Identities=34% Similarity=0.447 Sum_probs=60.5
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 5 Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+..+|..+.+.+..+.||.+||++|..+.| ++++.++|+++|..+.+...+.++++.+++.|+++.
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 899999999999999999888899999999998864
No 50
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=98.46 E-value=1.2e-06 Score=59.85 Aligned_cols=71 Identities=23% Similarity=0.369 Sum_probs=61.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC---C--eecCCCCcccccccCCCCeEEEEec
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN---G--KVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~---G--k~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
++|+|+-..+..+.+.|+|..+|..||++|....| ++ ..|||-|. | ..|.+..+|++|||-.+-.|.|+..
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~---~~-g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT 76 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRN---CS-GLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET 76 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhC---cc-cceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence 58999999999999999999999999999999999 54 59999986 3 3578999999999998777777754
No 51
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=3.6e-07 Score=78.40 Aligned_cols=74 Identities=24% Similarity=0.398 Sum_probs=63.8
Q ss_pred CEEEEEeC-CC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 1 MKLTVKTL-KG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 1 M~I~Vk~~-~g--~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|.+.|+.. +| ..+.|+|+.+..|.+||+.++...| +|++++|+||.||.|.|+.++..+.+...+.+|+|+-++
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 66777754 22 3478899999999999999999999 999999999999999999999999888889999885443
No 52
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.1e-06 Score=78.92 Aligned_cols=71 Identities=18% Similarity=0.336 Sum_probs=65.8
Q ss_pred EEEEeCCCcEEEEE-eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 3 LTVKTLKGSHFEIR-VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 3 I~Vk~~~g~~~~ie-v~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
|.|| +.|+.+.++ ++.++|+..||.+|...+| ++|++||++++|+.+.|+-.+..++|+++.+|+||...-
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 6666 789999987 9999999999999999999 999999999999999999999999999999999997653
No 53
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.8e-07 Score=62.14 Aligned_cols=69 Identities=20% Similarity=0.263 Sum_probs=60.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
.+.+...-|++..+.+.+++||+++|+.|+.+.| ..++.+.|--.+.+++|.-+|++|.|++|-.+-+.
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 4566667799999999999999999999999999 77888888777788999999999999998777653
No 54
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=3.9e-07 Score=84.61 Aligned_cols=42 Identities=36% Similarity=0.652 Sum_probs=39.5
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC-cC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS-IS 195 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~-~~ 195 (197)
+..|+.|..|++|| |+|.|+++||++.+||++|||||+++ ++
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 46799999999999 99999999999999999999999998 54
No 55
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2.5e-05 Score=56.42 Aligned_cols=72 Identities=18% Similarity=0.282 Sum_probs=64.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
+|.|+.-++....+.|..+.....|+...++..| +....+|++|+|+.+.+.+|-.++++++++.|-++...
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 4666765666778899999999999999999999 89999999999999999999999999999999988643
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=98.02 E-value=8.5e-06 Score=58.39 Aligned_cols=60 Identities=25% Similarity=0.374 Sum_probs=49.9
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC-eecCCCCcccccccCC
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NG-KVLKDETTLADNKVSE 66 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~-~G-k~L~D~~tL~~~~I~~ 66 (197)
|.|| ....++.++.+++.||.+||.+++.... -|++.|||+. .. ..|+|.++|+|+|...
T Consensus 5 ~~Vr-R~kttif~da~es~tV~elK~~l~gi~~---~Pvn~qrL~kmd~eqlL~D~ktL~d~gfts 66 (110)
T KOG4495|consen 5 LRVR-RHKTTIFTDAKESSTVFELKRKLEGILK---RPVNEQRLYKMDTEQLLDDGKTLGDCGFTS 66 (110)
T ss_pred eeee-ecceeEEeecCccccHHHHHHHHHHHHh---CCCcchheeecCHHHHhhccchhhhccccc
Confidence 4455 3455778899999999999999999998 8999999976 33 6789999999998753
No 57
>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=97.96 E-value=2.3e-05 Score=56.87 Aligned_cols=60 Identities=22% Similarity=0.288 Sum_probs=46.8
Q ss_pred EEEEEeCCC-cEEEEEeC--CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 029207 2 KLTVKTLKG-SHFEIRVQ--PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (197)
Q Consensus 2 ~I~Vk~~~g-~~~~iev~--~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~ 62 (197)
.|+||..++ ..+.|+|. .+.||..||.+|.+..+.+ ..-.++||||+||+|.|+..|...
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 7889999999999998533 566789999999999998877664
No 58
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=97.83 E-value=4.5e-05 Score=46.72 Aligned_cols=37 Identities=35% Similarity=0.526 Sum_probs=34.0
Q ss_pred HHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~M--G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++.|++|.+| . |+++.+.++|++..+|+|+|+++|+.
T Consensus 2 ~~~v~~L~~mFP~---~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPD---LDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSS---S-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 6789999999 7 99999999999999999999999984
No 59
>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=97.72 E-value=8.6e-05 Score=51.62 Aligned_cols=71 Identities=23% Similarity=0.324 Sum_probs=50.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEEE-eCCeecCCCCcccccccCCCCeEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLLI-HNGKVLKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~---~qrLi-~~Gk~L~D~~tL~~~~I~~~~~I~l 72 (197)
+|+|...+|+.+.+.+..+.+|.+|...|.+..+....... ..+|. -+|..|+++++|.++||.+|+.|++
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 56777655688999999999999999999998873212222 35676 7899999999999999999999986
No 60
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=4e-06 Score=72.43 Aligned_cols=78 Identities=22% Similarity=0.176 Sum_probs=57.9
Q ss_pred EEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCC--CCeEEEEeccc
Q 029207 2 KLTVKTLKGSH--FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSE--DGFLVVMLSKS 77 (197)
Q Consensus 2 ~I~Vk~~~g~~--~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~--~~~I~l~~~~~ 77 (197)
.+.||..+.+. ..|..+..+||++||..++..+..+ --..+|||||+||.|.|...|.|.-+|. ...+||++..+
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 46778777654 4566678899999999999987633 3356899999999999999999986554 34666666544
Q ss_pred CCC
Q 029207 78 KTL 80 (197)
Q Consensus 78 ~~~ 80 (197)
...
T Consensus 90 ~v~ 92 (391)
T KOG4583|consen 90 EVV 92 (391)
T ss_pred CCC
Confidence 433
No 61
>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=97.67 E-value=0.00045 Score=47.97 Aligned_cols=68 Identities=26% Similarity=0.302 Sum_probs=57.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEE--eCCeecCCC--CcccccccCCCCeEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLI--HNGKVLKDE--TTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~-qrLi--~~Gk~L~D~--~tL~~~~I~~~~~I~l 72 (197)
+|.||..+|+.+...+..++||.+|...|..... .+... ..|+ |-.+.|.++ ++|+++|+..+..|+|
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~---~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF---SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH---CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC---CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 6889999999999999999999999999998877 44443 7776 667888543 6999999999888876
No 62
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.56 E-value=0.00064 Score=47.23 Aligned_cols=68 Identities=19% Similarity=0.187 Sum_probs=55.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D---~~tL~~~~I~~~~~I~l 72 (197)
+|.||..+|+.+...+..++||.+|.+.|....+ .......|+ |-.|.|.+ +++|.++|+..+.+|+|
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~---~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT---DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc---CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 6889999999999999999999999999966555 445567775 66788854 47999999988777765
No 63
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.51 E-value=0.00012 Score=65.30 Aligned_cols=40 Identities=30% Similarity=0.484 Sum_probs=37.7
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++..+.|++|++|| |+|+.|+.|-.|+..|-+.|+.|||.
T Consensus 335 ~eE~~AIeRL~~LG---F~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 335 PEEKEAIERLCALG---FDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 45678999999999 99999999999999999999999996
No 64
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=0.00015 Score=57.98 Aligned_cols=45 Identities=18% Similarity=0.210 Sum_probs=42.2
Q ss_pred cccCCCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 146 NLVAGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 146 ~l~~g~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.+..+..+...|.+|.+|| |+|+.++.+|+-...|.++|.|+|++
T Consensus 155 ~~~~~~~~~~~v~~l~~mG---f~~~~~i~~L~~~~w~~~~a~~~~~s 199 (200)
T KOG0418|consen 155 RLPDDPWDKKKVDSLIEMG---FSELEAILVLSGSDWNLADATEQLLS 199 (200)
T ss_pred CCCCCchhHHHHHHHHHhc---ccHHHHHHHhhccccchhhhhHhhcc
Confidence 3677888999999999999 99999999999999999999999986
No 65
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=97.45 E-value=0.0013 Score=45.25 Aligned_cols=67 Identities=21% Similarity=0.335 Sum_probs=53.4
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D---~~tL~~~~I~~~~~I~l~ 73 (197)
+|.||..+|+.+...+..++||.+|.+.|..... ......|+ |-.|.|.| +.+|.++|+. .+.+++.
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 24556776 56788854 7899999999 4555543
No 66
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.45 E-value=0.0011 Score=46.23 Aligned_cols=67 Identities=18% Similarity=0.290 Sum_probs=53.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCCCeEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSEDGFLV 71 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D-~~tL~~~~I~~~~~I~ 71 (197)
+|.||..+|+.+...+..++||.+|.+.|....+. .......|+ |-.|.|.| +.||+|.|+.+ +.|+
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~--~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~-s~v~ 75 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE--FAARPFTLMTAFPVKELSDESLTLKEANLLN-AVIV 75 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC--CCCCCEEEecCCCCcccCCCCCcHHHCCCcC-cEEE
Confidence 68899999999999999999999999999987641 223566775 77888854 77999999986 4443
No 67
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.41 E-value=0.0011 Score=45.54 Aligned_cols=68 Identities=10% Similarity=0.210 Sum_probs=56.0
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCC--CCCCCeEEEeCCeecCCCCcccccccCCCCeEEE
Q 029207 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDN--YPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 5 Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~--~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l 72 (197)
++..+|.+|.+.+....+|+.|-..+-+....+. ..-..+|+.-++++|.+++.|.+|+|.+|+.+.+
T Consensus 11 ~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 11 FTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred eEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 4667899999999999999999988777665321 2224679999999999999999999999999875
No 68
>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=97.40 E-value=0.00083 Score=45.19 Aligned_cols=63 Identities=19% Similarity=0.189 Sum_probs=46.6
Q ss_pred eCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEE
Q 029207 7 TLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 7 ~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l 72 (197)
..+++.+.+.|.++.++.++-+....++| +.+++..|.|++|.|+-+.++.-.|+-+|..+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~---l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFG---LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT-----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcC---CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 46789999999999999999999999999 8899999999999999999999999999988754
No 69
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.34 E-value=0.0019 Score=44.86 Aligned_cols=67 Identities=21% Similarity=0.362 Sum_probs=55.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC---CCcccccccCCCCeEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD---ETTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D---~~tL~~~~I~~~~~I~l 72 (197)
+|.||..+|+.+...+..++||.+|.+.|....+ . .....|+ |-.|.+.+ +++|.++|+.+..+|+|
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 6889999999999999999999999999987654 2 2556776 67788854 47999999998877765
No 70
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.28 E-value=0.00058 Score=55.70 Aligned_cols=62 Identities=24% Similarity=0.310 Sum_probs=54.7
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
.++.|.+.+..-+||+++|.++....| +.+-.|+++|+|++|.|...|.+|+|..+...+|.
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg---~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlq 216 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG---VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQ 216 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc---cchhhheeeccCCceeccccceeeeecCCCEEEEE
Confidence 466788888899999999999999999 77889999999999999999999999998544443
No 71
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=0.0013 Score=46.85 Aligned_cols=69 Identities=14% Similarity=0.228 Sum_probs=59.8
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
+.|-.-+|..+.+.|..+.+...|.+..+...| -..+..|++|+|+.++-++|-+++++.+++.|-++.
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 445555778888999999999999999999999 568999999999999999999999999998876543
No 72
>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=97.17 E-value=0.0012 Score=40.45 Aligned_cols=38 Identities=24% Similarity=0.437 Sum_probs=35.1
Q ss_pred hHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~M--G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.++.|..|.+| . ++++.+++.|+...||+|+|++.|+.
T Consensus 2 ~~~~v~~L~~mFP~---l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 2 NDEALHDLKDMFPN---LDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred hHHHHHHHHHHCCC---CCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 36789999999 7 89999999999999999999999985
No 73
>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=97.01 E-value=0.0073 Score=42.46 Aligned_cols=69 Identities=17% Similarity=0.327 Sum_probs=58.8
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCcccccccCCCCeEEEEe
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK---DETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~---D~~tL~~~~I~~~~~I~l~~ 74 (197)
+|.||..+|+...-.+..+.++.+|-..|.. .| .+.+..+|+ |--|.+. .+.+|.++|+....+|+|--
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 678889987 6677773 35799999999998888753
No 74
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.92 E-value=0.002 Score=53.97 Aligned_cols=70 Identities=19% Similarity=0.170 Sum_probs=52.8
Q ss_pred CEEEEEeCCCc-EEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCe----EEEeCCeecCCCCcccccccCCCCeEEE
Q 029207 1 MKLTVKTLKGS-HFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ----LLIHNGKVLKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 1 M~I~Vk~~~g~-~~~-iev~~~~TV~~LK~~I~~~~g~~~~p~~~q----rLi~~Gk~L~D~~tL~~~~I~~~~~I~l 72 (197)
|.|++.+.++. ..+ ++.....||.|+++.|..+... +.+..+ |+--+||.|.|+.+|++|+..++.+|.+
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 78999877652 333 6677889999999888776543 445444 3345799999999999999999877765
No 75
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.86 E-value=0.011 Score=41.72 Aligned_cols=67 Identities=19% Similarity=0.201 Sum_probs=54.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC--------CCCcccccccCCCCeEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLK--------DETTLADNKVSEDGFLV 71 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G--k~L~--------D~~tL~~~~I~~~~~I~ 71 (197)
+|.||..+|+.+.-.+..++||.+|...|.. .+ ..++...|+++= |.|. .+.||++.|+....+|.
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 44 456888888643 7775 36799999999877776
Q ss_pred E
Q 029207 72 V 72 (197)
Q Consensus 72 l 72 (197)
|
T Consensus 82 V 82 (85)
T cd01774 82 V 82 (85)
T ss_pred E
Confidence 5
No 76
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=96.79 E-value=0.0016 Score=56.52 Aligned_cols=40 Identities=28% Similarity=0.437 Sum_probs=37.9
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++..++|.+|.+|| |+|.-|+.|--|+.-|=+-|++||++
T Consensus 296 pee~eAIeRL~alG---F~ralViqayfACdKNEelAAN~Ll~ 335 (340)
T KOG0011|consen 296 PEEKEAIERLEALG---FPRALVIQAYFACDKNEELAANYLLS 335 (340)
T ss_pred HHHHHHHHHHHHhC---CcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 45678999999999 99999999999999999999999997
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=96.72 E-value=0.0046 Score=37.93 Aligned_cols=37 Identities=27% Similarity=0.423 Sum_probs=31.3
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++.|+++|++ | -+++.++.-|+.+.+|+++||+.-+.
T Consensus 1 ~e~i~~F~~iTg---~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 1 DEKIAQFMSITG---ADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHC---cCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 5789999997 7 79999999999999999999987654
No 78
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=96.58 E-value=0.019 Score=45.28 Aligned_cols=74 Identities=18% Similarity=0.273 Sum_probs=53.0
Q ss_pred CEEEEEeCCC----cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe-EEEe-CCeec--CCCCcccccccCCC--C--
Q 029207 1 MKLTVKTLKG----SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIH-NGKVL--KDETTLADNKVSED--G-- 68 (197)
Q Consensus 1 M~I~Vk~~~g----~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~q-rLi~-~Gk~L--~D~~tL~~~~I~~~--~-- 68 (197)
|+|.|++++| .++.+.+..+.||.+|+..|....+ ++...+ .|.+ .++.| .++..++.+.-.+. +
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 5888999999999999999999999 776663 3444 34444 55666777654433 2
Q ss_pred eEEEEeccc
Q 029207 69 FLVVMLSKS 77 (197)
Q Consensus 69 ~I~l~~~~~ 77 (197)
.|.|..+..
T Consensus 78 ~l~l~~rl~ 86 (162)
T PF13019_consen 78 TLRLSLRLR 86 (162)
T ss_pred EEEEEEecc
Confidence 344444443
No 79
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.57 E-value=0.025 Score=39.46 Aligned_cols=68 Identities=24% Similarity=0.312 Sum_probs=57.1
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecC---CCCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLK---DETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~---D~~tL~~~~I~~~~~I~l~ 73 (197)
+|.||..+|+.+.-.+..++++.+|-..|... | ++....+|+ |--|.+. .+.+|.+.|+....+|+|-
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 68899999999999999999999999999864 6 667788886 6678874 2569999999988888764
No 80
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.0022 Score=58.78 Aligned_cols=39 Identities=15% Similarity=0.244 Sum_probs=37.6
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
-+|..++.|++|| |.-.+|++||-..++|.+|+|+|.+|
T Consensus 620 VdE~~~~Slle~G---ln~n~~Rkal~~~n~d~~r~V~w~~N 658 (749)
T COG5207 620 VDESKARSLLENG---LNPNLCRKALMDMNTDSKRRVVWCIN 658 (749)
T ss_pred ccHHHHHHHHHcC---CCHHHHHHHHHHccCCchheEEEEEe
Confidence 3789999999999 99999999999999999999999999
No 81
>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=96.21 E-value=0.0053 Score=39.77 Aligned_cols=25 Identities=20% Similarity=0.468 Sum_probs=20.3
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 154 EQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 154 ~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
...|+++++|| |+|+.|+.|||.-.
T Consensus 10 ~~lVd~F~~mG---F~~dkVvevlrrlg 34 (55)
T PF09288_consen 10 KDLVDQFENMG---FERDKVVEVLRRLG 34 (55)
T ss_dssp HHHHHHHHHHT-----HHHHHHHHHHS-
T ss_pred HHHHHHHHHcC---CcHHHHHHHHHHhC
Confidence 67999999999 99999999999643
No 82
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=96.19 E-value=0.0077 Score=54.86 Aligned_cols=40 Identities=30% Similarity=0.478 Sum_probs=36.9
Q ss_pred CchHHHHHHHHHcCCCCC-CHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTW-DKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~-~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
..|..-.++|-+|| | +|++-.+||++.++|+++|||-|+.
T Consensus 452 ~r~q~QLeQL~~MG---F~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMG---FLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHHHHhcC---CccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 34888999999999 9 9999999999999999999999874
No 83
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.19 E-value=0.016 Score=47.37 Aligned_cols=70 Identities=20% Similarity=0.236 Sum_probs=54.3
Q ss_pred EEEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCC-----eecC-CCCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNG-----KVLK-DETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~g~-~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL-i~~G-----k~L~-D~~tL~~~~I~~~~~I~l~ 73 (197)
+|.|.+...+ .+......+.||.+||.+++...| .+++.++| +|.| -.|+ ++..|..|+..+|-.||++
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 4556543222 245567889999999999999999 89999998 5766 2464 5679999999999999987
Q ss_pred e
Q 029207 74 L 74 (197)
Q Consensus 74 ~ 74 (197)
=
T Consensus 80 D 80 (234)
T KOG3206|consen 80 D 80 (234)
T ss_pred e
Confidence 4
No 84
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=96.12 E-value=0.0059 Score=55.16 Aligned_cols=59 Identities=22% Similarity=0.157 Sum_probs=50.6
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
.++.....|-.+|...|.++.| ++-...|.|.+||+|.-.+||.+-|++.+..+.+++.
T Consensus 53 l~k~sL~i~Gselqa~iakklg---i~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLG---IKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhhcccccccHHHHHHHHHHcC---CchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 3455666788899999999999 8888999999999999999999999998777666654
No 85
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=95.74 E-value=0.017 Score=39.88 Aligned_cols=56 Identities=25% Similarity=0.322 Sum_probs=45.9
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc-ccCCCCeEEEEe
Q 029207 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN-KVSEDGFLVVML 74 (197)
Q Consensus 17 v~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~-~I~~~~~I~l~~ 74 (197)
|.++++|.+|++.|...... ..-....|.++|+.|+|...|+++ |++++..|.|+.
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 56789999999998876542 445677899999999999999888 688888888774
No 86
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=95.68 E-value=0.031 Score=36.66 Aligned_cols=40 Identities=28% Similarity=0.387 Sum_probs=36.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.-..||.|-|.-|+ ++.+++...|+-.+++|+.|++-||+
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 35789999998655 89999999999999999999999998
No 87
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=95.58 E-value=0.018 Score=53.00 Aligned_cols=37 Identities=35% Similarity=0.653 Sum_probs=34.4
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHhcC-CHHHHHHHhhC
Q 029207 154 EQTIQQIMDMGGGTWDKETVTRALQAAYN-NPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~MG~~~~~~~~~~~aL~~~~~-N~~~A~EyL~~ 193 (197)
...|.+|++|| |+.+.+.|||-+..| +-+.|+.||+.
T Consensus 559 qs~I~qL~~mG---fp~~~~~rAL~~tgNqDaEsAMNWLFq 596 (749)
T COG5207 559 QSLIRQLVDMG---FPEEDAARALGITGNQDAESAMNWLFQ 596 (749)
T ss_pred HHHHHHHHHcC---CCHHHHHHHHhhccCcchHHHHHHHHh
Confidence 56899999999 999999999998877 89999999987
No 88
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.018 Score=54.32 Aligned_cols=38 Identities=29% Similarity=0.460 Sum_probs=35.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHh-cCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAA-YNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~-~~N~~~A~EyL~~ 193 (197)
++..|.+|++|| |+.+.|.|||-.. +.+.+.|..||+.
T Consensus 571 d~s~i~qL~~MG---Fp~eac~rAly~tgN~~aEaA~NWl~~ 609 (763)
T KOG0944|consen 571 DRSVISQLVEMG---FPEEACRRALYYTGNSGAEAASNWLME 609 (763)
T ss_pred hHHHHHHHHHcC---CCHHHHHHHHhhhcCccHHHHHHHHHH
Confidence 578999999999 9999999999999 5699999999997
No 89
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=95.53 E-value=0.057 Score=35.31 Aligned_cols=56 Identities=21% Similarity=0.382 Sum_probs=39.5
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
|+|+|. |+ .+++..+.|+.+||.++.. +.=.+||+|-..+++. -++++|.|+++.|
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~---------~~DI~I~NGF~~~~d~-----~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKP---------DADIVILNGFPTKEDI-----ELKEGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCC---------CCCEEEEcCcccCCcc-----ccCCCCEEEEEeC
Confidence 566654 44 4666788899999987543 2227899998887654 5567899988743
No 90
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=95.45 E-value=0.016 Score=52.50 Aligned_cols=38 Identities=24% Similarity=0.368 Sum_probs=35.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
+...|.+|+.|| |++-.++.||++..||.+.|.++|+-
T Consensus 429 d~~~la~Lv~mG---F~e~~A~~ALe~~gnn~~~a~~~L~~ 466 (568)
T KOG2561|consen 429 DGISLAELVSMG---FEEGKARSALEAGGNNEDTAQRLLSA 466 (568)
T ss_pred chhhHHHHHHhc---cccchHHHHHHhcCCcHHHHHHHHHH
Confidence 367899999999 99999999999999999999999976
No 91
>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=95.33 E-value=0.022 Score=40.31 Aligned_cols=34 Identities=32% Similarity=0.555 Sum_probs=29.9
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 157 IQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 157 i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
|+.+.+.| |+++.|.+||.++.+++..|..|+++
T Consensus 1 i~~~~~~g---~~~~~v~~aL~~tSgd~~~a~~~vl~ 34 (87)
T PF11626_consen 1 IKHYEELG---YSREFVTHALYATSGDPELARRFVLN 34 (87)
T ss_dssp -HHHHHHT---B-HHHHHHHHHHTTTBHHHHHHHHHH
T ss_pred CchHHHhC---CCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 56688999 99999999999999999999998876
No 92
>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=95.09 E-value=0.023 Score=35.48 Aligned_cols=37 Identities=22% Similarity=0.497 Sum_probs=27.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
.++.+..|+.+| |.+.++.+|++....+++.-+|.++
T Consensus 3 ~~d~~~AL~~LG---y~~~e~~~av~~~~~~~~~~~e~~i 39 (47)
T PF07499_consen 3 LEDALEALISLG---YSKAEAQKAVSKLLEKPGMDVEELI 39 (47)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHHHSTTS-HHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhcCCCCCHHHHH
Confidence 478999999999 9999999999988644444455543
No 93
>PRK06437 hypothetical protein; Provisional
Probab=95.03 E-value=0.24 Score=33.25 Aligned_cols=54 Identities=19% Similarity=0.234 Sum_probs=43.1
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
.++...++++...||.+|-+. .| ++++...+..+|+++. .++-+++||.|-++-
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lg---i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LG---LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cC---CCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 456678888888999988765 46 7788889999999997 566778899988763
No 94
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=94.95 E-value=0.22 Score=33.91 Aligned_cols=67 Identities=18% Similarity=0.152 Sum_probs=50.5
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe----CC--eecCCCCcccccccCCCCeEEEE
Q 029207 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH----NG--KVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 5 Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~----~G--k~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
|+.++|...+++|+.+.|+.+|=+.|+...|. ...+-.-|.| +| .-|+.+++|.+..........+.
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 67789999999999999999999999999993 3455567777 23 34788889999877733443333
No 95
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=94.65 E-value=0.063 Score=47.29 Aligned_cols=70 Identities=20% Similarity=0.151 Sum_probs=60.2
Q ss_pred CEEEEEeC--CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC--CCcccccccCCCCeEEEE
Q 029207 1 MKLTVKTL--KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKD--ETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 1 M~I~Vk~~--~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D--~~tL~~~~I~~~~~I~l~ 73 (197)
|.++|.+. ..++|.|+|..+.....|+..+....| +..+..-|+|+++.|.+ .+.|..||+++++++.+-
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 66776654 567889999999999999999999999 88999999999999965 468999999999988654
No 96
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.40 E-value=0.21 Score=34.43 Aligned_cols=66 Identities=11% Similarity=0.144 Sum_probs=45.2
Q ss_pred CEEEEEeCC------C-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--CCeEEEeCCeecCCCCcccccccCCCCeEE
Q 029207 1 MKLTVKTLK------G-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC--GQQLLIHNGKVLKDETTLADNKVSEDGFLV 71 (197)
Q Consensus 1 M~I~Vk~~~------g-~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~--~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~ 71 (197)
|+|+|+... | ....+++....||.+|++.|...... +.. ....+..+|+...+ +.-+++|+.|.
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 678887654 4 45677888889999999999776521 111 22346678887653 34577899998
Q ss_pred EE
Q 029207 72 VM 73 (197)
Q Consensus 72 l~ 73 (197)
++
T Consensus 75 i~ 76 (82)
T PLN02799 75 II 76 (82)
T ss_pred Ee
Confidence 86
No 97
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=93.77 E-value=0.65 Score=31.25 Aligned_cols=53 Identities=23% Similarity=0.386 Sum_probs=40.5
Q ss_pred CCc--EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 9 KGS--HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 9 ~g~--~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
+|+ ...++++...||.+|-+.+ + ++.....+..+|+++.. +.-+++||.|-++
T Consensus 10 ng~~~~~~~~~~~~~tv~~ll~~l----~---~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 10 IGRGIEKEIEWRKGMKVADILRAV----G---FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred eccccceEEEcCCCCcHHHHHHHc----C---CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 454 5677888889999988765 5 66677788899999853 5557888988876
No 98
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=93.51 E-value=0.34 Score=34.37 Aligned_cols=45 Identities=20% Similarity=0.211 Sum_probs=38.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEEEeC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLLIHN 49 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~---~~qrLi~~ 49 (197)
.+++|...|+.+.+.+.++..+.+|+..|.++.| +.. ....|.|-
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~---~d~~~~~~~~L~Yl 49 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLG---DDDFETHLYALSYV 49 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhC---CccccCCcccEEEE
Confidence 4678899999999999999999999999999999 444 46677664
No 99
>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=93.50 E-value=0.48 Score=32.08 Aligned_cols=57 Identities=12% Similarity=0.131 Sum_probs=41.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC-CCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGK-DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~-~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
...++++...||.+|.+.+...++. .........+..+|+... .+.-+++++.|.++
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 4567887789999999999987541 001234567778999887 34568889999887
No 100
>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=93.47 E-value=0.41 Score=33.45 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=34.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk 51 (197)
++.|.|.+..+..+|.++|.++.+ ++.+..+|-|+..
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLk---l~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLE---LPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC---CCchhcEEEeccC
Confidence 888999999999999999999999 9999999999864
No 101
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=93.12 E-value=0.6 Score=33.24 Aligned_cols=62 Identities=16% Similarity=0.238 Sum_probs=42.7
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----C-eecCC-CCcccccccCCCCeEEEEecc
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----G-KVLKD-ETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~----G-k~L~D-~~tL~~~~I~~~~~I~l~~~~ 76 (197)
..++..+...+||..++..+.+.+. + ..+.||.-. + ..|.+ +.||.+.||.+|-.|++-.+.
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 3567788999999999999999999 8 677888532 2 24644 579999999999888776654
No 102
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=93.07 E-value=0.54 Score=30.99 Aligned_cols=60 Identities=18% Similarity=0.269 Sum_probs=42.3
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+.+ + ..||.+|.+.+ + +..+...+-++|+++. .....+.-+++||.|-++-
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~---~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----D---YEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----C---CCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence 55554 4777776 3 35899888764 5 5566677889999986 3345567788999998763
No 103
>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=92.11 E-value=0.52 Score=33.31 Aligned_cols=61 Identities=15% Similarity=0.183 Sum_probs=43.1
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
+...++=...+..||..++.+.+ +.-+...+...+..|+.+++|-+-|++-...+.+.+--
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~---~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLG---ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH----S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhC---CCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 34456667789999999999999 77888888889988999999999999998888887644
No 104
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=92.04 E-value=0.37 Score=35.96 Aligned_cols=37 Identities=27% Similarity=0.351 Sum_probs=33.6
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++.|+-+++- | -+|+++++||+.++|++-.|+-||..
T Consensus 77 ~edI~lv~~q~g---vs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 77 EEDIELVAEQTG---VSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred HHHHHHHHHHHC---cCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 6789999986 8 99999999999999999999999863
No 105
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=91.52 E-value=0.069 Score=37.07 Aligned_cols=26 Identities=38% Similarity=0.515 Sum_probs=22.9
Q ss_pred C-CHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 168 W-DKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 168 ~-~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
. ++.+++.||...++|+++||.||++
T Consensus 43 ~~~e~~i~eal~~~~fDvekAl~~Ll~ 69 (79)
T PF08938_consen 43 VPPEEQIKEALWHYYFDVEKALDYLLS 69 (79)
T ss_dssp C--CCHHHHHHHHTTT-CCHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 5 8999999999999999999999997
No 106
>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=91.41 E-value=0.46 Score=35.49 Aligned_cols=36 Identities=28% Similarity=0.299 Sum_probs=32.7
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 154 ~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
++.|.-+++- | -+|+++++||+.++||+-.|+-||.
T Consensus 79 ~eDI~lV~eq~g---vs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 79 EDDIELVMKQCN---VSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred HHHHHHHHHHhC---cCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 6788888886 7 8999999999999999999998884
No 107
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=91.29 E-value=0.38 Score=42.84 Aligned_cols=65 Identities=17% Similarity=0.270 Sum_probs=51.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCC-CCcccccccCCCC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKD-ETTLADNKVSEDG 68 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D-~~tL~~~~I~~~~ 68 (197)
.|.||..+|+.....++...||.+|+..|...... .....+.|+ |--|.|.| +.||++-|+.+..
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 47899999999999999999999999999988763 334456665 55688855 6799999998743
No 108
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=91.07 E-value=0.064 Score=46.41 Aligned_cols=61 Identities=21% Similarity=0.369 Sum_probs=0.0
Q ss_pred EEEEEeCCCcEEEEEeC---C--CCCHHHHHHHHHH----------HhCCCCCCCCCeE-----EEeCCeecCCCCcccc
Q 029207 2 KLTVKTLKGSHFEIRVQ---P--SDTVMAVKKNIED----------VQGKDNYPCGQQL-----LIHNGKVLKDETTLAD 61 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~---~--~~TV~~LK~~I~~----------~~g~~~~p~~~qr-----Li~~Gk~L~D~~tL~~ 61 (197)
.|++|.+-.-.+.|.+. + +.+|.+||..++. ..+ +|.+.+| |+|+.|.+.|.++|.+
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 35556554444444332 2 5789999999999 777 8999999 9999999999998888
Q ss_pred cccC
Q 029207 62 NKVS 65 (197)
Q Consensus 62 ~~I~ 65 (197)
..-.
T Consensus 157 ~l~~ 160 (309)
T PF12754_consen 157 VLAD 160 (309)
T ss_dssp ----
T ss_pred HHhc
Confidence 7433
No 109
>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=90.92 E-value=1.4 Score=29.96 Aligned_cols=45 Identities=9% Similarity=0.097 Sum_probs=37.5
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
+|+++. +|..+.+.+..+.|..+|+.+|...++ ......+|-|..
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 456664 677888999999999999999999999 666788888874
No 110
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=90.81 E-value=1.4 Score=29.55 Aligned_cols=67 Identities=16% Similarity=0.216 Sum_probs=51.3
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE-eCCeecCCCCcccccccCCCCeEEEEec
Q 029207 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi-~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
+|+-..++.+.+..+.-+..+--+..|...-|++...|- -+|.+|+-++.++|||+.++-++++.++
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 577788888888877777776666555322677777665 4688999999999999999999888764
No 111
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=90.72 E-value=1.9 Score=29.40 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=41.6
Q ss_pred Cc-EEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 10 GS-HFEIRVQPS-DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 10 g~-~~~iev~~~-~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
|+ ...+++..+ .||.+|++.+.+.++.-.-....+.+..+|+...+ +.-|++++.|.++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 44 357888876 89999999999886410001134567788888774 4678889999887
No 112
>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=90.66 E-value=1.4 Score=30.83 Aligned_cols=46 Identities=13% Similarity=0.073 Sum_probs=36.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNG 50 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~-~~qrLi~~G 50 (197)
|+|++. .+|..+.+.+.++.+..+|+..|.+.++ +.. ....|-|..
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~---~~~~~~f~LkY~D 47 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFK---LDDMSAFDLKYLD 47 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhC---CCCCCeeEEEEEC
Confidence 455655 4778899999999999999999999998 543 466776654
No 113
>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=90.29 E-value=0.83 Score=30.60 Aligned_cols=59 Identities=15% Similarity=0.169 Sum_probs=46.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
...+.+....||.+|.+.+...++.- .......+..+|+.+.+ ...+.-+++++.|.++
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~-~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ 71 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPEL-ALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAIL 71 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGG-HTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhcccc-ccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEE
Confidence 56788889999999999998886410 12367788999999988 3666678899999887
No 114
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=89.87 E-value=2.2 Score=29.53 Aligned_cols=59 Identities=12% Similarity=0.215 Sum_probs=40.5
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCC---CCC-----CCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKD---NYP-----CGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~---~~p-----~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
....+++. ..||.+|.+.|.+.++.- .+. .....+..+|+..+++.. .-+++|+.|.++
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 34677776 889999999998876410 011 123567788888765432 568899999887
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=89.33 E-value=4.2 Score=32.10 Aligned_cols=61 Identities=25% Similarity=0.211 Sum_probs=45.6
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeC---C---eecCCCCcccccccC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHN---G---KVLKDETTLADNKVS 65 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~-~~qrLi~~---G---k~L~D~~tL~~~~I~ 65 (197)
.|.|..++|....+.++.+.||.+|...|+.+.| +.. ...-|.+. + ..|+...+|.+...+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~---l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG---IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC---CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 5788889999999999999999999999999999 532 22344332 1 346666777776654
No 116
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=88.78 E-value=1.8 Score=28.65 Aligned_cols=60 Identities=22% Similarity=0.248 Sum_probs=42.1
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+.+. ...||.+|-.. .+ ++....-+.++|.++..+.- ..+ +++||.|-++.
T Consensus 1 m~i~v---NG~~~~~~--~~~tl~~ll~~----l~---~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVV---NEEQVEVD--EQTTVAALLDS----LG---FPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEEEcC--CCCcHHHHHHH----cC---CCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence 45554 47665554 67788777654 46 78889999999998854332 245 89999998764
No 117
>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=88.19 E-value=1.8 Score=29.58 Aligned_cols=45 Identities=18% Similarity=0.082 Sum_probs=38.5
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
+.|-..+|+.-.+.|.+..||.++-.++.++.| +.++...|.+.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~---l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG---LNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC---CCHHHEEEEEec
Confidence 456777999999999999999999999999999 878877766554
No 118
>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=88.14 E-value=3 Score=29.55 Aligned_cols=45 Identities=16% Similarity=0.223 Sum_probs=35.8
Q ss_pred EEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 029207 3 LTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (197)
Q Consensus 3 I~Vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk 51 (197)
|+||.. +|..+.|.|.++.+..+|..+|.++++ +. ...+|-|...
T Consensus 3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~---~~-~~~~iKykDE 48 (86)
T cd06408 3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFG---FK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhC---CC-CceEEEEEcC
Confidence 455543 788999999999999999999999999 63 5666666654
No 119
>smart00455 RBD Raf-like Ras-binding domain.
Probab=87.54 E-value=3 Score=28.14 Aligned_cols=49 Identities=18% Similarity=0.165 Sum_probs=41.7
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLK 54 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G--k~L~ 54 (197)
+.|-..+|+...+.+.+..||.++-..+.++.| +.++...|.+.| |.|+
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 889988888855 4554
No 120
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=87.54 E-value=3.6 Score=26.89 Aligned_cols=61 Identities=15% Similarity=0.276 Sum_probs=41.9
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+ ++....||.+|-.. .+ ++....-+.++|+++..+ ...+.-+++||.|-++-
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 55544 47655 55567888887754 46 778888888999888643 23444578899888763
No 121
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=87.29 E-value=2.5 Score=38.17 Aligned_cols=73 Identities=19% Similarity=0.241 Sum_probs=57.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----Cee--cCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GKV--LKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~----Gk~--L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|.+.+|+..| ...+++.++++.+.|-.+|-.....+ +.++++.+.-+ |.+ +..++++.++|++.|..|+|-.
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 7788997776 57899999999999988887766533 67777777643 332 3567899999999999999877
Q ss_pred c
Q 029207 75 S 75 (197)
Q Consensus 75 ~ 75 (197)
+
T Consensus 79 s 79 (571)
T COG5100 79 S 79 (571)
T ss_pred c
Confidence 3
No 122
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=87.02 E-value=5.1 Score=26.42 Aligned_cols=61 Identities=11% Similarity=0.154 Sum_probs=41.4
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+.+ ....||.+|.+. .+ +......+-.+++++.. ....++-+++||.|.++-
T Consensus 1 m~i~v---Ng~~~~~--~~~~tl~~ll~~----l~---~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILF---NDQPMQC--AAGQTVHELLEQ----LN---QLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEE---CCeEEEc--CCCCCHHHHHHH----cC---CCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEE
Confidence 55555 4766555 467789988865 34 44566788899999842 234455688899988763
No 123
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=86.18 E-value=2 Score=32.42 Aligned_cols=60 Identities=15% Similarity=0.165 Sum_probs=42.6
Q ss_pred EeCC-CCCHHHHHHHHHHHhCCC-CC------CCCCeEEEeCC-----------------eec---CCCCcccccccCCC
Q 029207 16 RVQP-SDTVMAVKKNIEDVQGKD-NY------PCGQQLLIHNG-----------------KVL---KDETTLADNKVSED 67 (197)
Q Consensus 16 ev~~-~~TV~~LK~~I~~~~g~~-~~------p~~~qrLi~~G-----------------k~L---~D~~tL~~~~I~~~ 67 (197)
.|+. +.||++|++.+.+..... .+ .-+.+||++.. .+| +++++|.++||.+.
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 889999999988765311 02 23456666541 456 67889999999999
Q ss_pred CeEEEEec
Q 029207 68 GFLVVMLS 75 (197)
Q Consensus 68 ~~I~l~~~ 75 (197)
..|-+..+
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 88887754
No 124
>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=85.85 E-value=3.9 Score=27.57 Aligned_cols=45 Identities=18% Similarity=0.113 Sum_probs=35.1
Q ss_pred EEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 2 KLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~-~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
+|+++ .+|..+.+.+. .+.|..+|+.+|...++ ......+|-|..
T Consensus 2 ~vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVK-YGGEIRRFVVVSRSISFEDLRSKIAEKFG---LDAVSFKLKYPD 47 (81)
T ss_pred cEEEE-ecCCCEEEEEecCCCCHHHHHHHHHHHhC---CCCCcEEEEeeC
Confidence 45566 34678888888 89999999999999999 555666777765
No 125
>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=85.74 E-value=3.4 Score=28.08 Aligned_cols=45 Identities=13% Similarity=0.144 Sum_probs=35.6
Q ss_pred EEEEEeCCCcEEE-EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 2 KLTVKTLKGSHFE-IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 2 ~I~Vk~~~g~~~~-iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
+|+++ .+|..+. +.+..+.+..+|+.+|...++ ......+|.|..
T Consensus 3 ~vK~~-~~~~~~~~~~~~~~~s~~~L~~~i~~~~~---~~~~~~~l~Y~D 48 (84)
T PF00564_consen 3 RVKVR-YGGDIRRIISLPSDVSFDDLRSKIREKFG---LLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-ETTEEEEEEEECSTSHHHHHHHHHHHHHT---TSTSSEEEEEEE
T ss_pred EEEEE-ECCeeEEEEEcCCCCCHHHHHHHHHHHhC---CCCccEEEEeeC
Confidence 34444 3555666 899999999999999999999 667888998864
No 126
>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=85.62 E-value=1.1 Score=39.90 Aligned_cols=27 Identities=15% Similarity=0.366 Sum_probs=22.5
Q ss_pred ccCCCchHHHHHHHHHcCCCCCCHHHHHHH
Q 029207 147 LVAGNDLEQTIQQIMDMGGGTWDKETVTRA 176 (197)
Q Consensus 147 l~~g~~~~~~i~~l~~MG~~~~~~~~~~~a 176 (197)
....--+++.|+.++.|| |.||+|+.-
T Consensus 315 ~~~~~p~ddvidKv~~MG---f~rDqV~a~ 341 (358)
T PF07223_consen 315 SGNRHPYDDVIDKVASMG---FRRDQVRAT 341 (358)
T ss_pred ccccCcHHHHHHHHHHcC---CcHHHHHHH
Confidence 344455899999999999 999999863
No 127
>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=85.47 E-value=0.17 Score=31.51 Aligned_cols=25 Identities=24% Similarity=0.553 Sum_probs=15.7
Q ss_pred HHHHHHHH-cCCCCCCHHHHHHHHHHhcC
Q 029207 155 QTIQQIMD-MGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 155 ~~i~~l~~-MG~~~~~~~~~~~aL~~~~~ 182 (197)
..|..|-. || |+|+++..||+..-.
T Consensus 4 ~vv~~Ls~tMG---Y~kdeI~eaL~~~~~ 29 (46)
T PF08587_consen 4 DVVSKLSKTMG---YDKDEIYEALESSEP 29 (46)
T ss_dssp CCHHHHHCTT------HHHHHHHCCSSS-
T ss_pred HHHHHHHHHhC---CCHHHHHHHHHcCCC
Confidence 34555544 99 999999999998544
No 128
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=85.42 E-value=7.3 Score=25.25 Aligned_cols=60 Identities=13% Similarity=0.142 Sum_probs=38.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+ ++....||.+|.+.+ + +. ....+.++|+++..+. ..+.-+++||.|.++-
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 55554 46654 455678999888764 3 33 3467788999875332 3333478899998873
No 129
>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=85.10 E-value=4.4 Score=26.53 Aligned_cols=56 Identities=14% Similarity=0.263 Sum_probs=39.9
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
++|+.+. ++...||.+|.+.+ + ++.+...+.++|+++..+ ...+.-+++||.|.++
T Consensus 4 iNg~~~~--~~~~~tv~~ll~~l----~---~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii 59 (65)
T cd00565 4 VNGEPRE--VEEGATLAELLEEL----G---LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIV 59 (65)
T ss_pred ECCeEEE--cCCCCCHHHHHHHc----C---CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 4565554 44678999988764 4 567788889999988543 3344568889998876
No 130
>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=85.06 E-value=1.9 Score=34.92 Aligned_cols=28 Identities=14% Similarity=0.430 Sum_probs=25.0
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
..++.+..|+.+| |++.++.+|++....
T Consensus 146 ~~~e~~~aL~~LG---y~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 146 ARDELFEALVSLG---YKPQEIQQALKKIKN 173 (191)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3578999999999 999999999999864
No 131
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=85.05 E-value=1.4 Score=31.95 Aligned_cols=30 Identities=20% Similarity=0.309 Sum_probs=21.3
Q ss_pred EEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 45 LLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 45 rLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
.|.|.||.|.++++|++| |..+...-|+++
T Consensus 3 ~LW~aGK~l~~~k~l~dy-~GkNEKtKiivK 32 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDY-IGKNEKTKIIVK 32 (98)
T ss_pred eEEeccccccCCCcHHHh-cCCCcceeEEEE
Confidence 588999999999999999 333333333333
No 132
>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=84.53 E-value=2.9 Score=26.31 Aligned_cols=37 Identities=30% Similarity=0.327 Sum_probs=31.1
Q ss_pred HHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~M--G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
|+.|.+.... | -+|+-+++-|+-.+-|++.||.-|++
T Consensus 10 edlI~q~q~VLqg---ksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 10 EDLINQAQVVLQG---KSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp HHHHHHHHHHSTT---S-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 6777776664 9 99999999999999999999999998
No 133
>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=84.24 E-value=7.2 Score=35.77 Aligned_cols=72 Identities=17% Similarity=0.254 Sum_probs=54.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCC---CCCCCeEEE-eCCeecCCCCcccccccCCCCeEEEEe
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDN---YPCGQQLLI-HNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~---~p~~~qrLi-~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
+|+|...+ +..++-+..+..|.+|-..|-+..+.+. .....-.|. -+|..|+.+++|.+.||.||+.+++.-
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 57777543 4577778888999999999999887420 112233443 467899999999999999999999864
No 134
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=83.66 E-value=5.8 Score=27.82 Aligned_cols=57 Identities=9% Similarity=0.159 Sum_probs=40.8
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
++|+.+.+ +...||.+|-+. .+ ++....-+-++|.++. .....++-+++||.|-++.
T Consensus 23 VNG~~~~~--~~~~tl~~LL~~----l~---~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 23 INDQSIQV--DISSSLAQIIAQ----LS---LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred ECCeEEEc--CCCCcHHHHHHH----cC---CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 45665444 467788877664 35 7777778889999984 3456677789999998874
No 135
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=83.00 E-value=1.9 Score=29.77 Aligned_cols=38 Identities=26% Similarity=0.468 Sum_probs=31.3
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHhcCC-HHHHHHHhhC
Q 029207 156 TIQQIMDMGGGTWDKETVTRALQAAYNN-PERAVDYLYS 193 (197)
Q Consensus 156 ~i~~l~~MG~~~~~~~~~~~aL~~~~~N-~~~A~EyL~~ 193 (197)
-+-.||=+|+|.|+-++-..|++.|-.+ -.+.++||+.
T Consensus 20 eLvALmwiGRGd~~~eew~~a~~~A~~~~~~~ta~YLl~ 58 (75)
T PF12616_consen 20 ELVALMWIGRGDFEAEEWEEAVAEARERASARTADYLLG 58 (75)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHhccchHHHHHHc
Confidence 4556788899999999999999888665 5578899987
No 136
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=82.77 E-value=1.1 Score=26.94 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+++-+..||+.+.+|..+|.+.|
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 678899999999999999999887
No 137
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=82.34 E-value=9.4 Score=25.70 Aligned_cols=63 Identities=21% Similarity=0.314 Sum_probs=42.8
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|.++|. ++|+. +++....|+.+|-.. .+ ++.+..-+.++|.++..+ ...+.-++++|.|-++.
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 45655 445556899988764 55 778888889999998643 33455677788887763
No 138
>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=81.03 E-value=12 Score=26.44 Aligned_cols=67 Identities=13% Similarity=0.135 Sum_probs=45.9
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE------eCCeecCCCCccccc----ccCCCCeEE
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI------HNGKVLKDETTLADN----KVSEDGFLV 71 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi------~~Gk~L~D~~tL~~~----~I~~~~~I~ 71 (197)
|+|-..+|....|.|+...|+.++-+.+..+.++ .+...--|+ +=.+.|+|+..|-++ ++..+..++
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 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHC--QDDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLF 81 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCC--CCCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEE
Confidence 5566678999999999999999999999999884 222333333 124677888765444 554444443
No 139
>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=80.97 E-value=11 Score=25.42 Aligned_cols=57 Identities=14% Similarity=0.022 Sum_probs=41.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC--CeecCCCCccccc
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN--GKVLKDETTLADN 62 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~--Gk~L~D~~tL~~~ 62 (197)
+.|-..+|+.-.+.+.+..||.++-.++.++.| +.++...+... .+.|+-++....+
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~---L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG---LNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT-----CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC---CCHHHEEEEEcCCCccccCCCceeee
Confidence 456677899999999999999999999999999 77777665443 4566656555544
No 140
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=80.79 E-value=2.5 Score=34.46 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=25.8
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNN 183 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N 183 (197)
..++.+..|+++| |.+.++.+|++...++
T Consensus 143 ~~~ea~~AL~~LG---y~~~ea~~al~~v~~~ 171 (196)
T PRK13901 143 KFKELEQSIVNMG---FDRKLVNSAIKEIMLL 171 (196)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhcc
Confidence 3688999999999 9999999999987664
No 141
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=80.53 E-value=2.5 Score=29.79 Aligned_cols=52 Identities=10% Similarity=0.027 Sum_probs=27.7
Q ss_pred CCCCHHHHHHHHHH-HhCCCCCCCC----CeEEEeCCee----cCCCCcccccccCCCCeEEEE
Q 029207 19 PSDTVMAVKKNIED-VQGKDNYPCG----QQLLIHNGKV----LKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 19 ~~~TV~~LK~~I~~-~~g~~~~p~~----~qrLi~~Gk~----L~D~~tL~~~~I~~~~~I~l~ 73 (197)
...|+++|-++|-. +.| +..- .-++||.... -...++|+++||++|++|.+.
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 35699999987654 445 2221 2344444332 122478999999999998764
No 142
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=80.38 E-value=12 Score=24.83 Aligned_cols=61 Identities=18% Similarity=0.282 Sum_probs=41.1
Q ss_pred CEEEEEeCCCcEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTLKGSHFEIRVQPS-DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~-~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|+| +|+.+.+ ... .||.+|-+. .+ +++...-+-++|+++.. ....++-+++||.|-++.
T Consensus 1 m~I~v---NG~~~~~--~~~~~tv~~lL~~----l~---~~~~~vav~vN~~iv~r-~~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKI---NGNQIEV--PESVKTVAELLTH----LE---LDNKIVVVERNKDILQK-DDHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEE---CCEEEEc--CCCcccHHHHHHH----cC---CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 45554 4776654 344 577777653 45 66777788899999853 345556688999988764
No 143
>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=80.27 E-value=8.1 Score=25.17 Aligned_cols=57 Identities=16% Similarity=0.278 Sum_probs=39.9
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
++|+.+.+ ....||.+|.+.+ + ++++...+.++|+++..+ ...++-+++||.|-++-
T Consensus 3 iNg~~~~~--~~~~tv~~ll~~l----~---~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 3 VNGEPVEV--EDGLTLAALLESL----G---LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred ECCeEEEc--CCCCcHHHHHHHc----C---CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 46665555 4677899988754 4 667777888999988432 23445688899988763
No 144
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=79.50 E-value=7.6 Score=37.46 Aligned_cols=71 Identities=20% Similarity=0.328 Sum_probs=49.3
Q ss_pred EEEEe-CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCcccccccCCCCeEEEEecccC
Q 029207 3 LTVKT-LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--KDETTLADNKVSEDGFLVVMLSKSK 78 (197)
Q Consensus 3 I~Vk~-~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L--~D~~tL~~~~I~~~~~I~l~~~~~~ 78 (197)
|+|=. .++..+.+-++++.|+..|+..|...+| +|.+.|-|+|.|... .|..+..--| -.+-|+++....+
T Consensus 316 vhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tg---ipe~~qeLL~e~~~~h~~~~~Q~~~dg--~~~~l~l~~~~~~ 389 (732)
T KOG4250|consen 316 VHIFSMVQATSHEYYVHADNTLHSLIERISKQTG---IPEGKQELLFEGGLSHLEDSAQCIPDG--LDSPLYLVSDQDK 389 (732)
T ss_pred eEEEeeccceEEEEecChhhhHHHHHHHHHHhhC---CCCccceeeeecCccccCcccccCCCC--CCCceEEEecCCC
Confidence 44433 3566788899999999999999999999 999999999998654 4422221223 2345666654433
No 145
>PRK07440 hypothetical protein; Provisional
Probab=79.28 E-value=13 Score=24.87 Aligned_cols=57 Identities=12% Similarity=0.191 Sum_probs=40.4
Q ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 8 LKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
++|+. +++....||.+|-+. .+ +.....-+-++|+++.- ....++-+++||.|-++.
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 445567888887753 45 66788888899999852 344556688899888764
No 146
>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=79.09 E-value=10 Score=28.07 Aligned_cols=58 Identities=22% Similarity=0.179 Sum_probs=41.1
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCCCCCCCe-EEEeCCeecCCCCccccc--ccC-CCCeEEEEecc
Q 029207 16 RVQPSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIHNGKVLKDETTLADN--KVS-EDGFLVVMLSK 76 (197)
Q Consensus 16 ev~~~~TV~~LK~~I~~~~g~~~~p~~~q-rLi~~Gk~L~D~~tL~~~--~I~-~~~~I~l~~~~ 76 (197)
-|..+.||.+|...|....+ +.+++- =|..++.....+.+++++ .-+ ++++|+|..+.
T Consensus 46 lVp~~~tv~~f~~~irk~l~---l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyl~Ys~ 107 (112)
T cd01611 46 LVPSDLTVGQFVYIIRKRIQ---LRPEKALFLFVNNSLPPTSATMSQLYEEHKDEDGFLYMTYSS 107 (112)
T ss_pred EecCCCCHHHHHHHHHHHhC---CCccceEEEEECCccCCchhHHHHHHHHhCCCCCEEEEEEec
Confidence 48899999999999999988 666654 444455455667777766 233 37788887643
No 147
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=78.58 E-value=9.1 Score=28.84 Aligned_cols=59 Identities=20% Similarity=0.260 Sum_probs=44.2
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc---ccCCCCeEEEEec
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN---KVSEDGFLVVMLS 75 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~---~I~~~~~I~l~~~ 75 (197)
.+=|..+.||++|...|....+ +.+++.-|..++.++.-+.+++++ .-.++.+|++..+
T Consensus 44 fllVP~d~tV~qF~~iIRkrl~---l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 44 FLALPRDATVAELEAAVRQALG---TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEEcCCCCcHHHHHHHHHHHcC---CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 3468899999999999999998 888885555566566777788776 2235778888754
No 148
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=78.35 E-value=7 Score=34.37 Aligned_cols=62 Identities=15% Similarity=0.179 Sum_probs=43.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
|+|+| +|+.+. +....||.+|-+. .+ ++.+..-+.++|+++. .....++-+++||.|-++--
T Consensus 1 M~I~V---NGk~~e--l~e~~TL~dLL~~----L~---i~~~~VAVeVNgeIVp-r~~w~~t~LkeGD~IEII~~ 62 (326)
T PRK11840 1 MRIRL---NGEPRQ--VPAGLTIAALLAE----LG---LAPKKVAVERNLEIVP-RSEYGQVALEEGDELEIVHF 62 (326)
T ss_pred CEEEE---CCEEEe--cCCCCcHHHHHHH----cC---CCCCeEEEEECCEECC-HHHcCccccCCCCEEEEEEE
Confidence 55554 476544 4567788887754 46 7788899999999984 23455666888888887754
No 149
>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=78.24 E-value=11 Score=26.42 Aligned_cols=35 Identities=20% Similarity=0.210 Sum_probs=28.6
Q ss_pred EEEEEeCCCcEEEEEeCC--CCCHHHHHHHHHHHhCCCCCC
Q 029207 2 KLTVKTLKGSHFEIRVQP--SDTVMAVKKNIEDVQGKDNYP 40 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~--~~TV~~LK~~I~~~~g~~~~p 40 (197)
+|++. .+|.+..+.+++ +.+..+|++.|...++ ++
T Consensus 2 ~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~---l~ 38 (81)
T cd06396 2 NLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFG---LN 38 (81)
T ss_pred EEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhC---CC
Confidence 34444 578888888888 7799999999999999 66
No 150
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=77.52 E-value=6.1 Score=29.76 Aligned_cols=35 Identities=29% Similarity=0.409 Sum_probs=30.8
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 154 ~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+-|.-+|+- | -+|+++++||.++.+++-.|+=-|
T Consensus 85 eeDIkLV~eQa~---VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 85 EEDIKLVMEQAG---VSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred HHHHHHHHHHhC---CCHHHHHHHHHHcCCcHHHHHHHh
Confidence 6788888885 8 999999999999999999988544
No 151
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=77.45 E-value=4.4 Score=36.85 Aligned_cols=76 Identities=21% Similarity=0.276 Sum_probs=60.0
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE--EeCCeecCC---CCcccccccCCCCeEEEEecc
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL--IHNGKVLKD---ETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL--i~~Gk~L~D---~~tL~~~~I~~~~~I~l~~~~ 76 (197)
+|.||..+|..|+-++..+.-+..++..|....+ +.....-| .|--|+..| +++|.++.+.+...|+|+-++
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 6889999999999999888888999999987777 66666655 588888744 469999999998888777655
Q ss_pred cCCC
Q 029207 77 SKTL 80 (197)
Q Consensus 77 ~~~~ 80 (197)
+...
T Consensus 393 r~t~ 396 (506)
T KOG2507|consen 393 RATV 396 (506)
T ss_pred Ccce
Confidence 4433
No 152
>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=77.22 E-value=12 Score=25.99 Aligned_cols=36 Identities=8% Similarity=0.083 Sum_probs=32.3
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
++.|.+.+..+..+|..+|+++.. .+++..+|-|.-
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~---l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALP---QQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhc---CChhhcEEEecC
Confidence 456788999999999999999999 899999999974
No 153
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=75.91 E-value=6.1 Score=32.13 Aligned_cols=27 Identities=11% Similarity=0.226 Sum_probs=24.2
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
.++.+..|+.+| |++.++.+|++....
T Consensus 149 ~~e~~~aL~~LG---y~~~ea~~ai~~i~~ 175 (195)
T PRK14604 149 DRELSEILISLG---YSAAEAAAAIAALPS 175 (195)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 478999999999 999999999998743
No 154
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=75.35 E-value=8.3 Score=33.07 Aligned_cols=70 Identities=11% Similarity=0.140 Sum_probs=51.2
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCC---CCcccccccCCCCeEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKD---ETTLADNKVSEDGFLVV 72 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D---~~tL~~~~I~~~~~I~l 72 (197)
.|.||..+|+++...+....|+.+|...|....+.+ ..|-.+.--|--+.+.+ .++|..+++-...+|++
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~-~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDG-LDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCC-CCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 578998899999999999999999999999998832 21222222244455532 36899999988777654
No 155
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=75.32 E-value=5.8 Score=27.86 Aligned_cols=55 Identities=18% Similarity=0.204 Sum_probs=37.6
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCC-------CeEEEeCCe-ec------CCCCcccccccCCCCeEEEE
Q 029207 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCG-------QQLLIHNGK-VL------KDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~g~~~~p~~-------~qrLi~~Gk-~L------~D~~tL~~~~I~~~~~I~l~ 73 (197)
|+|++++|+.+|-+.+++... +... .-.|++.+- .| .=+++|.++ +.+|+.|+|-
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 688999999999999998743 2223 334444442 12 125789999 8999988873
No 156
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=74.54 E-value=7.4 Score=34.04 Aligned_cols=40 Identities=20% Similarity=0.316 Sum_probs=34.7
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
...++.++-|.+-| .+.+++..+++.+.++|.+|++|+-.
T Consensus 172 ~~~~~~~~~L~~~~---~~~~~a~~~~~l~~G~p~~A~~~~~~ 211 (319)
T PRK08769 172 PPAHEALAWLLAQG---VSERAAQEALDAARGHPGLAAQWLRE 211 (319)
T ss_pred cCHHHHHHHHHHcC---CChHHHHHHHHHcCCCHHHHHHHhcC
Confidence 34578888888889 99999999999999999999998754
No 157
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.51 E-value=4 Score=35.94 Aligned_cols=54 Identities=17% Similarity=0.180 Sum_probs=42.9
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe---CCeec-----CCCCcccccccCCCCeEEEE
Q 029207 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH---NGKVL-----KDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 17 v~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~---~Gk~L-----~D~~tL~~~~I~~~~~I~l~ 73 (197)
|.-.-||.|||+++..+.| +.+.++||+| .||.- +-++.|-.|+|++|+.+.+-
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 3345699999999999999 8999999987 34432 33567889999999988764
No 158
>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=74.47 E-value=7.6 Score=36.29 Aligned_cols=19 Identities=16% Similarity=0.309 Sum_probs=9.2
Q ss_pred cccCCCchHHHHHHHHHcC
Q 029207 146 NLVAGNDLEQTIQQIMDMG 164 (197)
Q Consensus 146 ~l~~g~~~~~~i~~l~~MG 164 (197)
+..+|..-.+....|+.-|
T Consensus 351 QV~tGeae~~~~e~Iv~~~ 369 (574)
T PF07462_consen 351 QVTTGEAENAQPENIVPEG 369 (574)
T ss_pred cceeccccccchhhhhcCc
Confidence 3444444344455555555
No 159
>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=74.22 E-value=7.2 Score=36.59 Aligned_cols=65 Identities=29% Similarity=0.432 Sum_probs=41.9
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CCCeEEE--eC--Ce-ecCCC-------------CcccccccCC
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYP------CGQQLLI--HN--GK-VLKDE-------------TTLADNKVSE 66 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p------~~~qrLi--~~--Gk-~L~D~-------------~tL~~~~I~~ 66 (197)
..+.+.|-..|||.++|++|-+..-++ .| +++.-|- .+ |+ +|.|. .||.+|+|.+
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 457788888999999999998765322 22 3344442 22 23 55543 3689999999
Q ss_pred CCeEEEEecc
Q 029207 67 DGFLVVMLSK 76 (197)
Q Consensus 67 ~~~I~l~~~~ 76 (197)
|++|.++-+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9999888655
No 160
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=74.21 E-value=3.5 Score=36.45 Aligned_cols=66 Identities=12% Similarity=0.073 Sum_probs=52.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC---eecC--CCCcccccccCCCCe
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG---KVLK--DETTLADNKVSEDGF 69 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G---k~L~--D~~tL~~~~I~~~~~ 69 (197)
.|.||..+|+.+...+-.+++|..|-..+...... .+-+..+|+++= |.|. -+.||.++||.+..+
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 48899999998888888899999998877766543 667788998776 6664 357999999998654
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=73.83 E-value=28 Score=25.34 Aligned_cols=74 Identities=18% Similarity=0.125 Sum_probs=46.0
Q ss_pred EEEEeCC-CcEEEEEeCCCCCHHHHHHHHHHHh--CCCC-CCCC-CeEEEeCCe--ecCCCCccccc-----ccCCCCeE
Q 029207 3 LTVKTLK-GSHFEIRVQPSDTVMAVKKNIEDVQ--GKDN-YPCG-QQLLIHNGK--VLKDETTLADN-----KVSEDGFL 70 (197)
Q Consensus 3 I~Vk~~~-g~~~~iev~~~~TV~~LK~~I~~~~--g~~~-~p~~-~qrLi~~Gk--~L~D~~tL~~~-----~I~~~~~I 70 (197)
|.|...+ ...+++.+++++|+.+|.+.+-.+. ..+. -+.+ +..|--.|+ .|..+..|.+| .++.+..+
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 4444332 4568999999999999999877762 1110 1222 456655664 35556666666 46677777
Q ss_pred EEEecc
Q 029207 71 VVMLSK 76 (197)
Q Consensus 71 ~l~~~~ 76 (197)
+|++..
T Consensus 100 ~L~L~~ 105 (108)
T smart00144 100 HLVLMT 105 (108)
T ss_pred eEEEEe
Confidence 777654
No 162
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=73.74 E-value=8.9 Score=31.31 Aligned_cols=27 Identities=11% Similarity=0.370 Sum_probs=24.5
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
..++.+..|+.+| |++.++.+|++...
T Consensus 154 ~~~ea~~AL~~LG---y~~~ea~~av~~~~ 180 (203)
T PRK14602 154 VFRDALAGLANLG---YGEEEARPVLKEVL 180 (203)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHh
Confidence 3578999999999 99999999999884
No 163
>PF15652 Tox-SHH: HNH/Endo VII superfamily toxin with a SHH signature
Probab=73.53 E-value=4.9 Score=29.19 Aligned_cols=29 Identities=28% Similarity=0.571 Sum_probs=25.9
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
.|+..+.++|.+-| |+++...++|+++|.
T Consensus 69 ~Ef~~~~~eM~dAG---V~~~~~~~~l~~~Yk 97 (100)
T PF15652_consen 69 EEFNNSYREMFDAG---VSKECRKKALKAQYK 97 (100)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHHHHHh
Confidence 56788899999999 999999999999875
No 164
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=73.08 E-value=5 Score=32.43 Aligned_cols=28 Identities=11% Similarity=0.449 Sum_probs=25.0
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
..++.+..|+.+| |.+.++.+|++....
T Consensus 142 ~~~e~~~AL~~LG---y~~~ea~~av~~~~~ 169 (188)
T PRK14606 142 IYHESLEALVSLG---YPEKQAREAVKHVYR 169 (188)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHhh
Confidence 3578999999999 999999999998854
No 165
>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=73.02 E-value=26 Score=23.77 Aligned_cols=54 Identities=26% Similarity=0.222 Sum_probs=37.5
Q ss_pred EEEEeCCCc----EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE----eCC--eecCCCC
Q 029207 3 LTVKTLKGS----HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI----HNG--KVLKDET 57 (197)
Q Consensus 3 I~Vk~~~g~----~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi----~~G--k~L~D~~ 57 (197)
|.|-..++. ...|.|..+.|+.+|-..+.++++.. -.+....|+ ..| +.|.|+.
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~-~~~~~y~L~~~~~~~~~er~L~~~E 68 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLA-EDPSDYCLVEVEESGGEERPLDDDE 68 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTS-SSGGGEEEEEEECTTTEEEEETTTS
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCC-CCCCCEEEEEEEcCCCEEEEcCCCC
Confidence 455555565 77899999999999999999999921 244556663 223 5676554
No 166
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=72.55 E-value=8.9 Score=30.92 Aligned_cols=27 Identities=15% Similarity=0.380 Sum_probs=24.5
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
.++.+..|+.+| |++.++.+||+....
T Consensus 145 ~~e~~~aL~~LG---y~~~ea~~al~~v~~ 171 (186)
T PRK14600 145 NDDALAALISLG---YEKTKAFNAIQKIKP 171 (186)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhhc
Confidence 578999999999 999999999998754
No 167
>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=72.35 E-value=15 Score=25.23 Aligned_cols=63 Identities=21% Similarity=0.246 Sum_probs=39.9
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe------CCeecCCCCcccccccCCCCeEEEEecc
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH------NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~------~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
++|-+=.+++.|+.+|+..|.+++.+ +.|....+.- .|--|+.+-.+++. ...++.|.++++.
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 45666678999999999999999874 3344333321 12334444555554 3467777777653
No 168
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=71.73 E-value=15 Score=30.14 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=31.1
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEE--EeCCee---cCCCCccccc
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLL--IHNGKV---LKDETTLADN 62 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~---~qrL--i~~Gk~---L~D~~tL~~~ 62 (197)
.+.+-|..+.||.||.+.+..+.+ ++.+ .+|| ++++|+ +..+..|.++
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 467888999999999999999988 5444 5565 478875 6777888877
No 169
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=70.79 E-value=12 Score=30.39 Aligned_cols=27 Identities=11% Similarity=0.342 Sum_probs=24.2
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
..++.+..|+.+| |.+.++.+|++...
T Consensus 151 ~~~ea~~AL~~LG---y~~~ea~~al~~i~ 177 (197)
T PRK14603 151 AAEDAVLALLALG---FREAQVRSVVAELL 177 (197)
T ss_pred cHHHHHHHHHHcC---CCHHHHHHHHHHHH
Confidence 3578999999999 99999999999873
No 170
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=70.26 E-value=5.9 Score=31.89 Aligned_cols=26 Identities=12% Similarity=0.464 Sum_probs=23.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
.++.+..|+.+| |++.++.+|++...
T Consensus 142 ~~ea~~AL~~LG---y~~~ea~~a~~~~~ 167 (183)
T PRK14601 142 KSEALAALLTLG---FKQEKIIKVLASCQ 167 (183)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHhcc
Confidence 578999999999 99999999999874
No 171
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=70.20 E-value=4.5 Score=33.14 Aligned_cols=28 Identities=14% Similarity=0.571 Sum_probs=24.4
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNN 183 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N 183 (197)
.++.|..|+.|| |.+.++.+|+....-+
T Consensus 156 ~~~~v~AL~~LG---y~~~e~~~av~~v~~~ 183 (201)
T COG0632 156 LEEAVEALVALG---YKEKEIKKAVKKVLKE 183 (201)
T ss_pred hhHHHHHHHHcC---CCHHHHHHHHHHHHhc
Confidence 355599999999 9999999999988765
No 172
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=69.94 E-value=5.9 Score=26.03 Aligned_cols=21 Identities=14% Similarity=0.493 Sum_probs=18.4
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHh
Q 029207 157 IQQIMDMGGGTWDKETVTRALQAA 180 (197)
Q Consensus 157 i~~l~~MG~~~~~~~~~~~aL~~~ 180 (197)
-+.||+|| |...++.+=+|-|
T Consensus 6 k~dLi~lG---f~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELG---FSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcC---CCHHHHHHHHHHH
Confidence 36799999 9999999988876
No 173
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=69.65 E-value=11 Score=33.02 Aligned_cols=38 Identities=13% Similarity=0.165 Sum_probs=31.2
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.++..+-|.+- | .+.+++..+++.+.|+|.+|++||-+
T Consensus 169 ~~~~~~~L~~~~~---~~~~~a~~~~~la~G~~~~Al~l~~~ 207 (334)
T PRK07993 169 EQYALTWLSREVT---MSQDALLAALRLSAGAPGAALALLQP 207 (334)
T ss_pred HHHHHHHHHHccC---CCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence 35556667665 8 99999999999999999999998754
No 174
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=69.48 E-value=17 Score=25.21 Aligned_cols=65 Identities=15% Similarity=0.221 Sum_probs=41.7
Q ss_pred EEEEeCCC-cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe--CCeecCCCCcccccccCCCCeEEEEecc
Q 029207 3 LTVKTLKG-SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH--NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 3 I~Vk~~~g-~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~--~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
+.|++.+. ..+-|-. .++.+|+.+..+..+ ++.+..+|+. .|.+++|+.-+..+ . .+++.|++.+
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~---~~~~~~~lvL~eDGT~VddEeyF~tL--p-~nT~lm~L~~ 72 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQ---LPEEPVRLVLEEDGTEVDDEEYFQTL--P-DNTVLMLLEK 72 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT----SSSTCEEEETTTTCBESSCHHHCCS--S-SSEEEEEEES
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhC---CCCcCcEEEEeCCCcEEccHHHHhhC--C-CCCEEEEECC
Confidence 34555543 3444554 489999999999999 8777777765 78888877555443 2 3455555443
No 175
>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=68.00 E-value=25 Score=25.32 Aligned_cols=40 Identities=13% Similarity=0.095 Sum_probs=32.4
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe
Q 029207 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH 48 (197)
Q Consensus 5 Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~ 48 (197)
++..+|++.-+.|+.+.+..+|+.++.+..+ +... +.|-|
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 55544
No 176
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=67.89 E-value=30 Score=24.04 Aligned_cols=52 Identities=25% Similarity=0.319 Sum_probs=39.3
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCcccccccCCCCeEEEE
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~-~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
+..+.+.++...||+++-+. .| +|..+..+|+ +|+...= +|-+++|+.|.+.
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG---VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG---VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVY 74 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC---CChHHeEEEEECCEECCC-----cccCCCCCEEEEE
Confidence 34677888999999887653 68 9999987765 8886643 3677889998876
No 177
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=67.12 E-value=37 Score=23.10 Aligned_cols=49 Identities=20% Similarity=0.253 Sum_probs=34.4
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eCC----eecCCC-Ccc
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HNG----KVLKDE-TTL 59 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~G----k~L~D~-~tL 59 (197)
+....|.|..++|..++-..+.++++.+. .+....|+ +.+ +.|.|+ ..+
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~-~~~~y~L~ev~~~~~~er~L~~~e~pl 67 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDD-DPEDYALVEVLGDGGLERLLLPDECPL 67 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcC-CcccEEEEEEECCceEEEEeCCCCChH
Confidence 56678999999999999999999999321 35555554 232 456554 444
No 178
>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=66.85 E-value=20 Score=26.23 Aligned_cols=56 Identities=25% Similarity=0.201 Sum_probs=40.5
Q ss_pred eCCCCCHHHHHHHHHHHhCCCCCCCCC-eEEEeCCeecCCCCccccc---ccCCCCeEEEEec
Q 029207 17 VQPSDTVMAVKKNIEDVQGKDNYPCGQ-QLLIHNGKVLKDETTLADN---KVSEDGFLVVMLS 75 (197)
Q Consensus 17 v~~~~TV~~LK~~I~~~~g~~~~p~~~-qrLi~~Gk~L~D~~tL~~~---~I~~~~~I~l~~~ 75 (197)
|..+.||.+|...|..... +.+++ +-|+.++..+..+.+++++ .-.++++|++...
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 5678999999999999988 65554 5566677667888888876 2245788888654
No 179
>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=66.13 E-value=33 Score=24.61 Aligned_cols=75 Identities=15% Similarity=0.096 Sum_probs=45.3
Q ss_pred EEEEEeC-CCcEEEEEeCCCCCHHHHHHHHHHHh--CCCCCCCC-CeEEEeCCe--ecCCCCccccc-----ccCCCCeE
Q 029207 2 KLTVKTL-KGSHFEIRVQPSDTVMAVKKNIEDVQ--GKDNYPCG-QQLLIHNGK--VLKDETTLADN-----KVSEDGFL 70 (197)
Q Consensus 2 ~I~Vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~--g~~~~p~~-~qrLi~~Gk--~L~D~~tL~~~-----~I~~~~~I 70 (197)
.|.|... .+..++|.++.+.|+.+|...+-.+. +....... +..|--.|+ -|..+..|.+| .++.+..+
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 4566665 56678999999999999999877762 21101112 456655664 46677788887 45666677
Q ss_pred EEEecc
Q 029207 71 VVMLSK 76 (197)
Q Consensus 71 ~l~~~~ 76 (197)
+|++..
T Consensus 98 ~L~Lv~ 103 (106)
T PF00794_consen 98 HLVLVH 103 (106)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 766543
No 180
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=64.04 E-value=11 Score=22.73 Aligned_cols=25 Identities=12% Similarity=0.182 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
-.|+.....|+...+|+-+|+|.++
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHhC
Confidence 4688899999999999999999874
No 181
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=64.04 E-value=7.7 Score=29.85 Aligned_cols=31 Identities=23% Similarity=0.296 Sum_probs=25.8
Q ss_pred eecCCCCcccccccCCCCeEEEEecccCCCC
Q 029207 51 KVLKDETTLADNKVSEDGFLVVMLSKSKTLG 81 (197)
Q Consensus 51 k~L~D~~tL~~~~I~~~~~I~l~~~~~~~~~ 81 (197)
|..+|+++|..++++-||.|.|-+..++..+
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~~~ 142 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNRRP 142 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCcccCC
Confidence 3458899999999999999999987766543
No 182
>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=63.21 E-value=44 Score=23.69 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=43.5
Q ss_pred EEEEeCCCcEEEEEeC-----CCCCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCe-----ecCCCCccccc-----ccCC
Q 029207 3 LTVKTLKGSHFEIRVQ-----PSDTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGK-----VLKDETTLADN-----KVSE 66 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~-----~~~TV~~LK~~I~~~~g~~~~p~-~~qrLi~~Gk-----~L~D~~tL~~~-----~I~~ 66 (197)
|+|+ .+|....+.+. ++.+..+|+.+|.+.++ ++. ....|-|... .|.++.-|.++ ....
T Consensus 3 vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~---l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~ 78 (91)
T cd06398 3 VKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFS---LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSR 78 (91)
T ss_pred EEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhC---CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCC
Confidence 4444 45666666666 47899999999999998 766 5677777642 23333333332 2224
Q ss_pred CCeEEEEec
Q 029207 67 DGFLVVMLS 75 (197)
Q Consensus 67 ~~~I~l~~~ 75 (197)
..+|.+.++
T Consensus 79 ~~~lrl~v~ 87 (91)
T cd06398 79 LNPLRIDVT 87 (91)
T ss_pred CceEEEEEE
Confidence 566666654
No 183
>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=62.16 E-value=49 Score=23.23 Aligned_cols=60 Identities=12% Similarity=0.178 Sum_probs=40.7
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCee-c-CCCCccccc--ccCCCCeEEEEecc
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKV-L-KDETTLADN--KVSEDGFLVVMLSK 76 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~-L-~D~~tL~~~--~I~~~~~I~l~~~~ 76 (197)
.+-|..+.||.+|...|..+.+ +.+++--.+|=+.. + ..+.+++++ ..+++++|++....
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 3458899999999999999988 65555444444443 3 445666655 22678888887543
No 184
>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=60.12 E-value=60 Score=25.24 Aligned_cols=74 Identities=19% Similarity=0.149 Sum_probs=39.2
Q ss_pred CEEEEEeCCCcEEEEEeC-CCCCHHHHHHHHHHHhCCC-CCCCCCe----EEE-eCCeecCCCCcccccccCCCCeEEEE
Q 029207 1 MKLTVKTLKGSHFEIRVQ-PSDTVMAVKKNIEDVQGKD-NYPCGQQ----LLI-HNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~-~~~TV~~LK~~I~~~~g~~-~~p~~~q----rLi-~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
|||+|+. ....+.+-+. .+.||.+|-++--..+.+. ...++.. +|- -.|-+|+.+..|.+. +.+.+.|+.+
T Consensus 1 mkvtV~f-g~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAv 78 (145)
T PF12053_consen 1 MKVTVCF-GRTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAV 78 (145)
T ss_dssp -EEEEEE-TTEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEE
T ss_pred CeEEEEe-CCeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhhee
Confidence 8999995 4455667665 5689999977654443210 0222322 333 256688888888876 4577788777
Q ss_pred ecc
Q 029207 74 LSK 76 (197)
Q Consensus 74 ~~~ 76 (197)
...
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 655
No 185
>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=59.74 E-value=37 Score=24.00 Aligned_cols=60 Identities=15% Similarity=0.207 Sum_probs=42.4
Q ss_pred EEEeCCCCCHHHHHHHHHHHh-CCCCCC--C-CCeEEEeCC--eecCCCCcccccccCCCCeEEEEe
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQ-GKDNYP--C-GQQLLIHNG--KVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~-g~~~~p--~-~~qrLi~~G--k~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
-+-|+..+|+.++-++++... |.. ++ + ...++-++| ..+..+.++.+-||..-+.|-+..
T Consensus 18 Lv~VDt~dTmdqVA~k~A~HsVGrR-V~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 18 LVPVDTEDTMDQVAAKVAHHSVGRR-VAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEETT-BHHHHHHHHHTTTTTTS-S---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEeCCCCcHHHHHHHHhhhhccee-cCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 468899999999999988654 433 22 2 245777898 899999999999999998888765
No 186
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=59.68 E-value=23 Score=26.95 Aligned_cols=37 Identities=19% Similarity=0.123 Sum_probs=34.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
..+.|.-+.+-| -+.+++++||.-+. ++-+|++.|.+
T Consensus 114 ~~e~v~v~a~a~---v~~eeAr~aleeag-Dl~~A~k~l~~ 150 (153)
T COG4008 114 PVEEVEVLADAF---VTPEEAREALEEAG-DLRTAMKILRM 150 (153)
T ss_pred cHHHHHHHHHhc---CCHHHHHHHHHHcC-CHHHHHHHHHH
Confidence 578899999999 99999999999998 99999999865
No 187
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=59.44 E-value=53 Score=22.30 Aligned_cols=54 Identities=13% Similarity=0.191 Sum_probs=32.3
Q ss_pred EEeCC-CCCHHHHHHHHHHHhCC--CCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 15 IRVQP-SDTVMAVKKNIEDVQGK--DNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 15 iev~~-~~TV~~LK~~I~~~~g~--~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
++++. ..||.+|++.|.+++.. ........++..+++...+ +.-|++||.|.++
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 44433 47999999999887631 0011233344445544332 3358889999876
No 188
>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=57.88 E-value=29 Score=24.53 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=34.9
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCeecC
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKVLK 54 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qr-Li~~Gk~L~ 54 (197)
..+.+.|+.+.|=.++|+.|+..+| +.+...+ +++.||.-.
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 8887775 467887544
No 189
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=56.65 E-value=39 Score=25.09 Aligned_cols=58 Identities=14% Similarity=0.228 Sum_probs=40.8
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCccccc--ccCCCCeEEEE
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--KDETTLADN--KVSEDGFLVVM 73 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L--~D~~tL~~~--~I~~~~~I~l~ 73 (197)
-...|++++|+..+-..|.+..+ ++..++-.+|=..-. ..++.++++ +..-++.|+|.
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lk---l~as~slflYVN~sFAPsPDq~v~~Ly~cf~~d~~Lvl~ 108 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLK---LQASDSLFLYVNNSFAPSPDQIVGNLYECFGTDGKLVLN 108 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhC---CcccCeEEEEEcCccCCCchhHHHHHHHhcCCCCEEEEE
Confidence 45678899999999999999999 889999888866554 334554444 22233455444
No 190
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=56.19 E-value=17 Score=22.71 Aligned_cols=25 Identities=28% Similarity=0.262 Sum_probs=21.4
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
.++.-+.|=|||-.+|++.|.+-|.
T Consensus 29 ~~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 29 HDDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp -SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CCHHHHHHHHHHccCCHHHHHHHHH
Confidence 7899999999999999999998775
No 191
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=55.65 E-value=46 Score=22.86 Aligned_cols=48 Identities=17% Similarity=0.281 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCcccccccCCCCeEEEEe
Q 029207 21 DTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
.+..+|+.+..+..+ ++....+|+ -.|..++|+.-+..+ . .+++.|++
T Consensus 19 ~sL~eL~~K~~~~l~---l~~~~~~l~L~eDGT~VddEeyF~tL--p-~nt~l~~L 68 (74)
T smart00266 19 SSLEELLSKVCDKLA---LPDSPVTLVLEEDGTIVDDEEYFQTL--P-DNTELMAL 68 (74)
T ss_pred CCHHHHHHHHHHHhC---CCCCCcEEEEecCCcEEccHHHHhcC--C-CCcEEEEE
Confidence 479999999999999 775566664 378899887655554 2 34444444
No 192
>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=54.93 E-value=66 Score=22.03 Aligned_cols=47 Identities=19% Similarity=0.233 Sum_probs=38.4
Q ss_pred EEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC--eecC
Q 029207 5 VKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG--KVLK 54 (197)
Q Consensus 5 Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G--k~L~ 54 (197)
|-..+|..-.+.+.+..||.++-.++.++.| +..+...++.-| |.|.
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 4456888888999999999999999999999 878887776656 4553
No 193
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=53.94 E-value=41 Score=23.90 Aligned_cols=40 Identities=23% Similarity=0.302 Sum_probs=33.8
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKV 52 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qr-Li~~Gk~ 52 (197)
...+.+.|+...|=.++|+.|+..+| +.+...+ +++.||.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~---VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG---VKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC---CceeEEEEEEeCCce
Confidence 46899999999999999999999999 8887774 4567654
No 194
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=53.87 E-value=28 Score=30.44 Aligned_cols=38 Identities=16% Similarity=0.214 Sum_probs=31.0
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
...++.++-|.+.| .+ ....+|+.+.++|.+|++|+-+
T Consensus 167 ~~~~~~~~~L~~~~---~~--~~~~~l~l~~G~p~~A~~~~~~ 204 (319)
T PRK06090 167 PSTAQAMQWLKGQG---IT--VPAYALKLNMGSPLKTLAMMKE 204 (319)
T ss_pred CCHHHHHHHHHHcC---Cc--hHHHHHHHcCCCHHHHHHHhCC
Confidence 34578888899999 77 3567899999999999998754
No 195
>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=52.82 E-value=22 Score=24.42 Aligned_cols=32 Identities=19% Similarity=0.096 Sum_probs=21.9
Q ss_pred EEEeCCCc-EEEEEeCC-CCCHHHHHHHHHHHhC
Q 029207 4 TVKTLKGS-HFEIRVQP-SDTVMAVKKNIEDVQG 35 (197)
Q Consensus 4 ~Vk~~~g~-~~~iev~~-~~TV~~LK~~I~~~~g 35 (197)
+.|..+.+ ...|.++. ..+|.+||..|..+.+
T Consensus 2 ~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 2 HYKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred eEEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 34444443 44577764 5699999999988776
No 196
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=52.33 E-value=57 Score=22.56 Aligned_cols=40 Identities=10% Similarity=-0.046 Sum_probs=33.5
Q ss_pred EEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE
Q 029207 4 TVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (197)
Q Consensus 4 ~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL 46 (197)
.|-..+|+...+-|.+++|+.++-+.+....+ +.+...-|
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~---ldp~eh~L 42 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQ---LDPMEHYL 42 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcC---CChhHhee
Confidence 35567899999999999999999999999999 66766544
No 197
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=51.99 E-value=15 Score=23.07 Aligned_cols=20 Identities=10% Similarity=0.351 Sum_probs=16.7
Q ss_pred HHHHHhcCCHHHHHHHhhCc
Q 029207 175 RALQAAYNNPERAVDYLYSI 194 (197)
Q Consensus 175 ~aL~~~~~N~~~A~EyL~~~ 194 (197)
++++.-|+|+++|..||-+|
T Consensus 2 ~~a~~vfgd~~~a~~Wl~~p 21 (54)
T PF09722_consen 2 KQAEEVFGDEDKARRWLRTP 21 (54)
T ss_pred hHHHHHHCCHHHHHHHHHCh
Confidence 45677889999999999874
No 198
>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=51.28 E-value=47 Score=23.58 Aligned_cols=54 Identities=19% Similarity=0.153 Sum_probs=32.7
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CC------eecCCCC---cc--cccccCCCCeEEEE
Q 029207 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NG------KVLKDET---TL--ADNKVSEDGFLVVM 73 (197)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~-~G------k~L~D~~---tL--~~~~I~~~~~I~l~ 73 (197)
++++...||.+|-..|...+. ..+.+|+. .| -+|-++. .+ .++-+++||.|.++
T Consensus 23 ~~~~~~~tV~dll~~L~~~~~-----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNLL-----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhCc-----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 344456799999999988753 23333332 22 1232222 23 35678999999887
No 199
>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=51.14 E-value=73 Score=22.31 Aligned_cols=44 Identities=14% Similarity=0.070 Sum_probs=34.3
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN 49 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~ 49 (197)
+.+|+ .+|....+.+...-|-..|+++|...+. +|....-|.|-
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~---lp~~~~~vtYi 45 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYN---LPEIKVGVTYI 45 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhC---CChhHeEEEEE
Confidence 34565 4566667777777799999999999999 88877777774
No 200
>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=50.18 E-value=66 Score=20.62 Aligned_cols=59 Identities=19% Similarity=0.233 Sum_probs=38.1
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
|+|.+.+|+... +....|+.|+=..|....++ .-.--..+|+..+-+. -+++++.|.++
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 466678888766 55778999999999988762 2223346776654433 44556666554
No 201
>PF06006 DUF905: Bacterial protein of unknown function (DUF905); InterPro: IPR009253 This family consists of several short hypothetical proteobacterial proteins of unknown function.; PDB: 2HJJ_A.
Probab=49.73 E-value=12 Score=25.43 Aligned_cols=18 Identities=28% Similarity=0.554 Sum_probs=10.5
Q ss_pred CCCCHHHHHHHHHHhcCCH
Q 029207 166 GTWDKETVTRALQAAYNNP 184 (197)
Q Consensus 166 ~~~~~~~~~~aL~~~~~N~ 184 (197)
|.|.|+|+.. +.++|.|+
T Consensus 6 g~ftr~qA~a-V~a~y~NV 23 (70)
T PF06006_consen 6 GPFTREQAEA-VAAQYRNV 23 (70)
T ss_dssp ----HHHHHH-HHHH-TTE
T ss_pred CCccHHHHHH-HHHHhcce
Confidence 6799999875 68888885
No 202
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=46.96 E-value=38 Score=29.79 Aligned_cols=36 Identities=14% Similarity=0.199 Sum_probs=32.6
Q ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 154 EQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 154 ~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
-+.|.+|-+= | |+-..|.+||.-+.||...|.+||-
T Consensus 47 ~allk~LR~kTg---as~~ncKkALee~~gDl~~A~~~L~ 83 (340)
T KOG1071|consen 47 KALLKKLREKTG---ASMVNCKKALEECGGDLVLAEEWLH 83 (340)
T ss_pred HHHHHHHHHHcC---CcHHHHHHHHHHhCCcHHHHHHHHH
Confidence 5788888874 8 9999999999999999999999994
No 203
>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=46.21 E-value=50 Score=27.63 Aligned_cols=43 Identities=7% Similarity=0.091 Sum_probs=31.2
Q ss_pred EEEEEeC---CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE
Q 029207 2 KLTVKTL---KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI 47 (197)
Q Consensus 2 ~I~Vk~~---~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi 47 (197)
.|+|+-. ++..|++.++..+|-.+|-++|++..+ +.+..+||.
T Consensus 178 ~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~---~dP~~lr~~ 223 (249)
T PF12436_consen 178 EVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLN---VDPEHLRFF 223 (249)
T ss_dssp EEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHT---S-GGGEEEE
T ss_pred EEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHC---CChHHEEEE
Confidence 4555543 234799999999999999999999999 889999885
No 204
>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=46.03 E-value=1.1e+02 Score=22.09 Aligned_cols=33 Identities=12% Similarity=0.072 Sum_probs=26.6
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g 35 (197)
|.|-..++...++.+..+.||.+|-..+..+..
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~ 37 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFY 37 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhc
Confidence 344445666667999999999999999999987
No 205
>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=45.82 E-value=71 Score=27.91 Aligned_cols=64 Identities=19% Similarity=0.199 Sum_probs=45.9
Q ss_pred EEEeCCCCCHHHHHHHHHHHh----CCC--------CCCCCCeEEEeCCeecCCCCcccccc---cCCCCeEEEEeccc
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQ----GKD--------NYPCGQQLLIHNGKVLKDETTLADNK---VSEDGFLVVMLSKS 77 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~----g~~--------~~p~~~qrLi~~Gk~L~D~~tL~~~~---I~~~~~I~l~~~~~ 77 (197)
.|....-.-|..++..|.++. ... ..+.+.+.|+++|++|+.+.+|+... -+.++-|+|..|.+
T Consensus 251 rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k 329 (331)
T PF11816_consen 251 RLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRK 329 (331)
T ss_pred eecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEec
Confidence 455555567889999999888 100 03567789999999999999887663 36677777776654
No 206
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=45.74 E-value=23 Score=28.71 Aligned_cols=26 Identities=8% Similarity=0.270 Sum_probs=23.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
.++.+..|+.+| |++.++.+|++...
T Consensus 148 ~~e~~~aL~~LG---y~~~~a~~ai~~~~ 173 (194)
T PRK14605 148 NSDILATLTALG---YSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHhh
Confidence 578999999999 99999999999875
No 207
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=45.50 E-value=34 Score=21.40 Aligned_cols=26 Identities=15% Similarity=0.173 Sum_probs=20.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
.+..+++|++=.|..|+.+++..|+.
T Consensus 21 k~~l~~QL~se~ge~Ft~e~A~YAv~ 46 (48)
T PF07553_consen 21 KQGLYDQLTSEYGEGFTEEEAQYAVD 46 (48)
T ss_pred HHHHHHHHHhhcccCCCHHHHHHHHH
Confidence 47889999987333499999999974
No 208
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=45.29 E-value=29 Score=27.16 Aligned_cols=26 Identities=19% Similarity=0.442 Sum_probs=22.4
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQA 179 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~ 179 (197)
++.++..+.|.+.| |+++++.+||.-
T Consensus 21 ~d~~~L~~~L~~aG---F~~~eI~~Al~W 46 (155)
T PF04361_consen 21 PDQDDLTRELSAAG---FEDEEINKALDW 46 (155)
T ss_pred CCHHHHHHHHHHcC---CCHHHHHHHHHH
Confidence 34678899999999 999999999865
No 209
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=44.98 E-value=13 Score=27.63 Aligned_cols=29 Identities=24% Similarity=0.416 Sum_probs=23.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHH
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNI 30 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I 30 (197)
|+|.|. .+++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~-i~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKIT-IGGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEE-ETTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEE-ECCEEEEEEECCCHHHHHHHHhC
Confidence 789998 46889999999998888888764
No 210
>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=44.77 E-value=17 Score=23.55 Aligned_cols=32 Identities=22% Similarity=0.424 Sum_probs=22.6
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHH
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIED 32 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~ 32 (197)
|.|++++.+|+.|.++...-.--.-||..|..
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 78999999999999986544444455666654
No 211
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=44.32 E-value=1e+02 Score=27.79 Aligned_cols=58 Identities=12% Similarity=0.079 Sum_probs=30.2
Q ss_pred EEEEeC---CCCCHHHHHHHHHHHhCCCCCCCCCe-EEEeCCee---c--CCCCcccccccCCCCeEEE
Q 029207 13 FEIRVQ---PSDTVMAVKKNIEDVQGKDNYPCGQQ-LLIHNGKV---L--KDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 13 ~~iev~---~~~TV~~LK~~I~~~~g~~~~p~~~q-rLi~~Gk~---L--~D~~tL~~~~I~~~~~I~l 72 (197)
.++++. .+.|=++|++.+.+.-. . +..++. -=|--.|. . .+.-+|.++.+++|++|..
T Consensus 73 vtv~vP~faESiteG~l~~~lK~~Gd-~-v~~DE~va~IETDK~tv~V~sP~sGvi~e~lvk~gdtV~~ 139 (457)
T KOG0559|consen 73 VTVEVPPFAESITEGDLAQWLKKVGD-R-VNEDEAVAEIETDKTTVEVPSPASGVITELLVKDGDTVTP 139 (457)
T ss_pred eEEecCCcccccccchHHHHhhCccc-c-cccchhheeeeccceeeeccCCCcceeeEEecCCCCcccC
Confidence 345543 45677888866554322 1 222221 11222222 1 2455788888888888764
No 212
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=44.10 E-value=33 Score=24.13 Aligned_cols=31 Identities=23% Similarity=0.407 Sum_probs=24.2
Q ss_pred cCCCchHHHHHHHHHcCCCCC-CHHHHHH-HHHHh
Q 029207 148 VAGNDLEQTIQQIMDMGGGTW-DKETVTR-ALQAA 180 (197)
Q Consensus 148 ~~g~~~~~~i~~l~~MG~~~~-~~~~~~~-aL~~~ 180 (197)
..+..+.+.|+.+++.| .| ++++|++ |||+-
T Consensus 8 ~lp~~~~~~i~~lV~~G--~y~s~SeviR~alr~l 40 (89)
T COG3609 8 RLPEQLVEFIDELVESG--RYKSRSEVIRAALRLL 40 (89)
T ss_pred eCCHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHH
Confidence 34667899999999997 45 8999887 66654
No 213
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=44.09 E-value=77 Score=23.16 Aligned_cols=45 Identities=16% Similarity=0.209 Sum_probs=31.4
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC---CCeEEEeCC
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPC---GQQLLIHNG 50 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~---~~qrLi~~G 50 (197)
|+|-.-+|.+..|.|..-.+-.++|.++-.++| +.. .....+.+|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg---~~~~~~~~~~~v~d~ 50 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFG---LPEHPRNYCFYVLDG 50 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHT---SS--CCCEEEEEE-S
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcC---CccccccceEEEecc
Confidence 567778999999999999999999999999999 444 334455566
No 214
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=44.09 E-value=62 Score=23.27 Aligned_cols=60 Identities=20% Similarity=0.252 Sum_probs=42.3
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeE-EEeCCee---------cCCCCcccccccCCCCeEEE
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQL-LIHNGKV---------LKDETTLADNKVSEDGFLVV 72 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qr-Li~~Gk~---------L~D~~tL~~~~I~~~~~I~l 72 (197)
...+.+.|+++.|=.++|..|++.+| +-+.... |+..|+. +..+..-...-+..|..|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~---VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFG---VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 46899999999999999999999999 7777774 4455531 33444444455555555543
No 215
>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=43.52 E-value=56 Score=22.67 Aligned_cols=48 Identities=15% Similarity=0.275 Sum_probs=33.1
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEE--eCCeecCCCCcccccccCCCCeEEEEe
Q 029207 21 DTVMAVKKNIEDVQGKDNYPCGQQLLI--HNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
.+..+|+.+..+.++ ++....+|+ -.|-.++|+.-+..+ . .+++.|++
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~lvL~eDGTeVddEeYF~tL--p-~nT~l~~l 70 (78)
T cd01615 21 SSLEELLSKACEKLK---LPSAPVTLVLEEDGTEVDDEEYFQTL--P-DNTVLMLL 70 (78)
T ss_pred CCHHHHHHHHHHHcC---CCCCCeEEEEeCCCcEEccHHHHhcC--C-CCcEEEEE
Confidence 479999999999999 765555554 478888887655554 2 34444444
No 216
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=43.13 E-value=25 Score=29.43 Aligned_cols=59 Identities=15% Similarity=0.265 Sum_probs=40.0
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeC----Ce--ecCCCCcccccccCCCCeEEEEecc
Q 029207 15 IRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHN----GK--VLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~----Gk--~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
+-|+.+.+|.+|-..|.+..| +|.+.--++|. ++ .|+...++....|.+|+.|.+-...
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g---~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ~~~ 153 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAG---LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQRAP 153 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT-----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEEE--
T ss_pred EEECCCCCHHHHHHHHHHHcC---CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEEecc
Confidence 567889999999999999999 88876666654 43 4678899999999999999876543
No 217
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=42.60 E-value=69 Score=21.14 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=30.6
Q ss_pred chHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHH
Q 029207 152 DLEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDY 190 (197)
Q Consensus 152 ~~~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~Ey 190 (197)
..++.|..+... | -..+=+.++|.-+.+|.++|+.-
T Consensus 11 ~q~~~v~~~~~~Tg---mn~~~s~~cLe~~~Wd~~~Al~~ 47 (63)
T smart00804 11 EQQEMVQAFSAQTG---MNAEYSQMCLEDNNWDYERALKN 47 (63)
T ss_pred HHHHHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence 347788888776 8 88999999999999999999854
No 218
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=42.53 E-value=20 Score=24.85 Aligned_cols=42 Identities=19% Similarity=0.231 Sum_probs=23.6
Q ss_pred HHHHHhCCCCCCCCCeEEEe---CCeecCCCCcccccccCCCCeEEEEecc
Q 029207 29 NIEDVQGKDNYPCGQQLLIH---NGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 29 ~I~~~~g~~~~p~~~qrLi~---~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
.|.++.. +.++...|+- ++..|+=+++|.+|||++ |+.+-.+
T Consensus 2 ~IC~KCE---fdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~~ 46 (79)
T PF09469_consen 2 AICEKCE---FDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDTS 46 (79)
T ss_dssp HHHHHTT-----TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE--
T ss_pred ccccccc---cCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhccc
Confidence 4677766 7888888874 457898899999999985 6665444
No 219
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=42.36 E-value=1.2e+02 Score=26.01 Aligned_cols=27 Identities=15% Similarity=0.277 Sum_probs=15.9
Q ss_pred cCCCCcccccccCCCCeEEEEecccCCC
Q 029207 53 LKDETTLADNKVSEDGFLVVMLSKSKTL 80 (197)
Q Consensus 53 L~D~~tL~~~~I~~~~~I~l~~~~~~~~ 80 (197)
|-|++.|-++.++..+.= +++||+..-
T Consensus 115 lv~~~di~e~~lk~~~~e-~~irkkeal 141 (274)
T PLN02983 115 LVDSRDIVELQLKQLDCE-LVIRKKEAL 141 (274)
T ss_pred hhccccceeeeccccceE-EEEeccccc
Confidence 456777778888764443 344555444
No 220
>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=42.10 E-value=44 Score=27.17 Aligned_cols=39 Identities=10% Similarity=0.267 Sum_probs=33.9
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.+.++.++-+.+.| |+++++.+..+.-.-|+|. ++.++.
T Consensus 80 ~e~~el~~iy~~~G---l~~~~a~~i~~~l~~~~~~-~~~m~~ 118 (213)
T PF01988_consen 80 EEKEELVEIYRAKG---LSEEDAEEIAEELSKDKDA-LDFMMR 118 (213)
T ss_pred hHHHHHHHHHHHCC---CCHHHHHHHHHHHHhCchH-HHHHHh
Confidence 34567888999999 9999999999999999999 887765
No 221
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=42.00 E-value=63 Score=32.21 Aligned_cols=64 Identities=13% Similarity=0.282 Sum_probs=46.3
Q ss_pred CCcEEEEEeC-CCCCHHHHHHHHHHHhCCCCCCCCCeEEEe-CCeecCCCCccccccc--CCCCeEEEEec
Q 029207 9 KGSHFEIRVQ-PSDTVMAVKKNIEDVQGKDNYPCGQQLLIH-NGKVLKDETTLADNKV--SEDGFLVVMLS 75 (197)
Q Consensus 9 ~g~~~~iev~-~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~-~Gk~L~D~~tL~~~~I--~~~~~I~l~~~ 75 (197)
.|...+++.+ ...|+.+||..|..++| +....+.++- +|..+.-++.|..|.- .+.+-|+++.+
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~---~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFnk 70 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVG---HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFNK 70 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhc---hhhceeeeeecCCcCcccccchhhhccccCCCCceEEeeh
Confidence 4667777766 35699999999999999 7778887765 4567777788877752 34455666533
No 222
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=41.31 E-value=23 Score=22.33 Aligned_cols=35 Identities=23% Similarity=0.268 Sum_probs=25.7
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 155 ~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
++|.++... | -..+-+.++|.-+.+|.+||+.-..
T Consensus 2 ~mv~~~s~~Tg---mn~~~s~~CL~~n~Wd~~~A~~~F~ 37 (51)
T PF03943_consen 2 EMVQQFSQQTG---MNLEWSQKCLEENNWDYERALQNFE 37 (51)
T ss_dssp HHHHHHHHHCS---S-CCHHHHHHHHTTT-CCHHHHHHH
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 566666665 6 7777888999999999999996543
No 223
>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=40.54 E-value=73 Score=22.12 Aligned_cols=39 Identities=15% Similarity=0.156 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeE--EEeCCeecCCCCccccc
Q 029207 21 DTVMAVKKNIEDVQGKDNYPCGQQL--LIHNGKVLKDETTLADN 62 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~~~qr--Li~~Gk~L~D~~tL~~~ 62 (197)
.+..+|+.+..+..+ ++....+ |--.|..++|+.-+..+
T Consensus 21 ~sL~EL~~K~~~~l~---~~~~~~~lvL~eDGT~Vd~EeyF~~L 61 (78)
T cd06539 21 SSLQELISKTLDALV---ITSGLVTLVLEEDGTVVDTEEFFQTL 61 (78)
T ss_pred cCHHHHHHHHHHHhC---CCCCCcEEEEeCCCCEEccHHHHhhC
Confidence 379999999999999 7654444 45678888887655553
No 224
>PRK03430 hypothetical protein; Validated
Probab=40.00 E-value=39 Score=26.61 Aligned_cols=25 Identities=24% Similarity=0.432 Sum_probs=22.1
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
++.++.-..|.+-| |+++++.+||.
T Consensus 21 pd~~~L~~~L~~aG---F~~~eI~~AL~ 45 (157)
T PRK03430 21 VDQDKLEDDLTDAG---FHREDIYNALL 45 (157)
T ss_pred CCHHHHHHHHHHcC---CCHHHHHHHHH
Confidence 45688999999999 99999999875
No 225
>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=39.54 E-value=51 Score=22.06 Aligned_cols=24 Identities=17% Similarity=0.509 Sum_probs=20.1
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
-.+.++..+-.|| |++.+|..-|+
T Consensus 10 R~daA~dam~~lG---~~~~~v~~vl~ 33 (65)
T PF10440_consen 10 RIDAALDAMRQLG---FSKKQVRPVLK 33 (65)
T ss_pred HHHHHHHHHHHcC---CCHHHHHHHHH
Confidence 3578899999999 99999987654
No 226
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=38.62 E-value=84 Score=21.62 Aligned_cols=33 Identities=12% Similarity=0.109 Sum_probs=29.2
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL 46 (197)
+.+.+.|+...+=.++|+.|+..++ +.+...+.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~---VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFD---VKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 5899999999999999999999999 77777654
No 227
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=37.80 E-value=1.9e+02 Score=22.27 Aligned_cols=33 Identities=21% Similarity=0.370 Sum_probs=25.6
Q ss_pred CCCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHH
Q 029207 149 AGNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPE 185 (197)
Q Consensus 149 ~g~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~ 185 (197)
.++.|..-. .|+.|| .++..|..-|++-.-+|+
T Consensus 112 ~dP~y~kYf-KMl~~G---vP~~aVk~KM~~eGlDp~ 144 (148)
T PF10152_consen 112 DDPRYAKYF-KMLKMG---VPREAVKQKMQAEGLDPS 144 (148)
T ss_pred CCccHHHHH-HHHHcC---CCHHHHHHHHHHcCCCHH
Confidence 455565444 556999 999999999999887775
No 228
>PF05861 PhnI: Bacterial phosphonate metabolism protein (PhnI); InterPro: IPR008773 This family consists of several proteobacterial phosphonate metabolism protein (PhnI) sequences. Bacteria that use phosphonates as a phosphorus source must be able to break the stable carbon-phosphorus bond. In Escherichia coli phosphonates are broken down by a C-P lyase that has a broad substrate specificity. The genes for phosphonate uptake and degradation in E. coli are organised in an operon of 14 genes, named phnC to phnP. Three gene products (PhnC, PhnD and PhnE) comprise a binding protein-dependent phosphonate transporter, which also transports phosphate, phosphite, and certain phosphate esters such as phosphoserine; two gene products (PhnF and PhnO) may have a role in gene regulation; and nine gene products (PhnG, PhnH, PhnI, PhnJ, PhnK, PhnL, PhnM, PhnN, and PhnP) probably comprise a membrane-associated C-P lyase enzyme complex [].; GO: 0015716 phosphonate transport
Probab=37.32 E-value=55 Score=29.13 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=30.8
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 155 QTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 155 ~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
-.|.++|.=| |-|+++-+..||+-|-+++-.|+=+|
T Consensus 43 lavdrVMsEg-sLYdp~LAAlAiKQa~GD~~EAiFLL 78 (358)
T PF05861_consen 43 LAVDRVMSEG-SLYDPELAALAIKQARGDLIEAIFLL 78 (358)
T ss_pred HHHHHHhccc-cccCHHHHHHHHHHhcCCHHHHHHHH
Confidence 3677777776 89999999999999999999999433
No 229
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=37.17 E-value=23 Score=35.73 Aligned_cols=69 Identities=7% Similarity=-0.111 Sum_probs=53.5
Q ss_pred EeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEeccc
Q 029207 6 KTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKS 77 (197)
Q Consensus 6 k~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~ 77 (197)
+++....|...+....++...|.+|....| |+...++|++-|..++++..+..|+..........++.+
T Consensus 330 ~~l~~p~~~~~~~~~~~~~~~~p~~~~qtg---ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~~~asp 398 (1143)
T KOG4248|consen 330 CNLACPPPRHLHVVRPMSHYTTPMVLQQTG---IPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPGQAASP 398 (1143)
T ss_pred hcccCCCCceeeecchhhhccCceeeeccc---ccccccceeeecccccCCCCCCccccccCCCCCccccCc
Confidence 334444555555566678888999999999 999999999999999999999988887776666544433
No 230
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=36.04 E-value=59 Score=21.94 Aligned_cols=43 Identities=16% Similarity=0.370 Sum_probs=27.7
Q ss_pred CCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccc-cCCCCeEEEE
Q 029207 21 DTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNK-VSEDGFLVVM 73 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~-I~~~~~I~l~ 73 (197)
.|+.+|.+..++++| +. ....+.-.| .-+.|.. |.+|+.|+++
T Consensus 26 ~SleeLl~ia~~kfg---~~-~~~v~~~dg------aeIdDI~~IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFG---FS-ATKVLNEDG------AEIDDIDVIRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhC---CC-ceEEEcCCC------CEEeEEEEEEcCCEEEEC
Confidence 699999999999999 54 222222333 3344443 5778888763
No 231
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=35.71 E-value=68 Score=18.06 Aligned_cols=23 Identities=22% Similarity=0.348 Sum_probs=17.4
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
--+.|++-++|| .+.+++++=|.
T Consensus 5 W~~Li~eA~~~G---ls~eeir~FL~ 27 (30)
T PF08671_consen 5 WVELIKEAKESG---LSKEEIREFLE 27 (30)
T ss_dssp HHHHHHHHHHTT-----HHHHHHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHH
Confidence 346889999999 99999998665
No 232
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=35.67 E-value=35 Score=27.88 Aligned_cols=51 Identities=24% Similarity=0.375 Sum_probs=28.2
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC---CeEE--EeCC-----eecCCCC--cccccc
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG---QQLL--IHNG-----KVLKDET--TLADNK 63 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~---~qrL--i~~G-----k~L~D~~--tL~~~~ 63 (197)
|--|.+.|.+..++.++|++|.++.| ++.. ..|+ +..+ +.|+|+. .|.+..
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlg---v~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~ 194 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLG---VSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEI 194 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH------HHHHTT-EEEEEETTEE---EE--TT-T----GGG
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhC---CChhhheeEEEEEEecCCcccceeccccchhhhhhhh
Confidence 55688899999999999999999999 5433 3344 4455 3566654 555543
No 233
>PF01376 Enterotoxin_b: Heat-labile enterotoxin beta chain; InterPro: IPR001835 Escherichia coli heat-labile enterotoxin is a bacterial protein toxin with an AB5 multimer structure, in which the B pentamer has a membrane-binding function and the A chain (IPR001144 from INTERPRO) is needed for enzymatic activity []. The B subunits are arranged as a donut-shaped pentamer, each subunit participating in ~30 hydrogen bonds and 6 salt bridges with its two neighbours []. The A subunit has a less well-defined secondary structure. It predominantly interacts with the pentamer via the C-terminal A2 fragment, which runs through the charged central pore of the B subunits. A putative catalytic residue in the A1 fragment (Glu112) lies close to a hydrophobic region, which packs two loops together. It is thought that this region might be important for catalysis and membrane translocation [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1LTA_D 2XRS_O 1LTS_E 1LTT_H 1TET_P 1JQY_Y 1PZI_D 1DJR_E 1EEF_D 1LTB_E ....
Probab=35.15 E-value=60 Score=22.84 Aligned_cols=31 Identities=26% Similarity=0.427 Sum_probs=20.4
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHH
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDV 33 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~ 33 (197)
+.|...+|.+|.++|..+.-+..-|+.|+..
T Consensus 38 ~iitf~ngatfqvevpgsqhi~sqkk~ierm 68 (102)
T PF01376_consen 38 VIITFKNGATFQVEVPGSQHIDSQKKAIERM 68 (102)
T ss_dssp EEEEETTS-EEEE--SSTTSTTTHHHHHHHH
T ss_pred EEEEecCCcEEEEecCCccchhhhHHHHHHH
Confidence 3455568999999999888777777666654
No 234
>CHL00030 rpl23 ribosomal protein L23
Probab=35.00 E-value=1e+02 Score=22.04 Aligned_cols=40 Identities=18% Similarity=0.075 Sum_probs=32.2
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCe
Q 029207 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGK 51 (197)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL-i~~Gk 51 (197)
....+.+.|+.+.|=.++|+.|+..++ +.+...+. +..|+
T Consensus 18 e~n~y~F~V~~~anK~eIK~avE~lf~---VkV~~VNt~~~~~k 58 (93)
T CHL00030 18 EKNQYTFDVDSGSTKTEIKHWIELFFG---VKVIAVNSHRLPRK 58 (93)
T ss_pred HCCEEEEEECCCCCHHHHHHHHHHHhC---CeEEEEEEEEcCCC
Confidence 346899999999999999999999999 76666643 45554
No 235
>PF09999 DUF2240: Uncharacterized protein conserved in archaea (DUF2240); InterPro: IPR018716 This family of various hypothetical archaeal proteins has no known function.
Probab=34.96 E-value=59 Score=25.22 Aligned_cols=32 Identities=19% Similarity=0.313 Sum_probs=25.3
Q ss_pred ccccCCCchHHHHHHHHH-cCCCCCCHHHHHHHHHH
Q 029207 145 SNLVAGNDLEQTIQQIMD-MGGGTWDKETVTRALQA 179 (197)
Q Consensus 145 s~l~~g~~~~~~i~~l~~-MG~~~~~~~~~~~aL~~ 179 (197)
+.|-..+-+++.|..|.+ +| ++|.+|...+..
T Consensus 79 ~~l~e~~~fe~ild~ia~~~g---~~~~evv~~in~ 111 (144)
T PF09999_consen 79 EILQERDPFERILDYIAAKTG---IEKQEVVAEINE 111 (144)
T ss_pred HHHhcccHHHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence 334455668999999999 99 999999876543
No 236
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=34.66 E-value=56 Score=26.22 Aligned_cols=28 Identities=14% Similarity=0.468 Sum_probs=25.0
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~ 182 (197)
..++.+..|.++| |++.++.++++....
T Consensus 148 ~~~ev~~aL~~LG---~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 148 ALEEAVSALVALG---YKPKEASKAVAKILK 175 (192)
T ss_pred hHHHHHHHHHHcC---CCHHHHHHHHHHHhc
Confidence 3689999999999 999999999998854
No 237
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=34.45 E-value=1.1e+02 Score=21.45 Aligned_cols=34 Identities=12% Similarity=0.128 Sum_probs=29.8
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL 46 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL 46 (197)
...+.+.|+...+=.++|+.|+..+| +.+...+.
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~---VkV~~VnT 54 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFD---VKVEKVNT 54 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEe
Confidence 36899999999999999999999999 77777754
No 238
>PF03634 TCP: TCP family transcription factor; InterPro: IPR005333 The TCP transcription factor family was named after: teosinte branched 1 (tb1, Zea mays (Maize)) [], cycloidea (cyc) (Antirrhinum majus) (Garden snapdragon) [] and PCF in rice (Oryza sativa) [, ]. The TCP proteins code for structurally related proteins implicated in the evolution of key morphological traits []. However, the biochemical function of CYC and TB1 proteins remains to be demonstrated. One of the conserved regions is predicted to form a non-canonical basic-Helix-Loop-Helix (bHLP) structure. This domain is also found in two rice DNA-binding proteins, PCF1 and PCF2, where it has been shown to be involved in DNA-binding and dimerization. This family of transcription factors are exclusive to higher plants. They can be divided into two groups, TCP-C and TCP-P, that appear to have separated following an early gene duplication event []. This duplication event may have led to functional divergence and it has been proposed that that the TCP-P subfamily are transcriptional repressors, while the TPC-C subfamily are transcription activators [].
Probab=34.24 E-value=15 Score=27.84 Aligned_cols=23 Identities=30% Similarity=0.715 Sum_probs=16.8
Q ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 155 QTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 155 ~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
..+=.|.+| | ||+ +-..|||||+
T Consensus 30 r~FFdLQDmLG---fDK-------------aSKTveWLL~ 53 (138)
T PF03634_consen 30 RKFFDLQDMLG---FDK-------------ASKTVEWLLT 53 (138)
T ss_pred HHHHHHHHHhc---CCC-------------CCchHHHHHH
Confidence 455678888 9 886 4467888887
No 239
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=34.03 E-value=38 Score=24.19 Aligned_cols=24 Identities=21% Similarity=0.156 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|.-+..+|+...+|..+|.++|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 788889999999999999999887
No 240
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=33.94 E-value=62 Score=25.40 Aligned_cols=59 Identities=22% Similarity=0.238 Sum_probs=40.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEE
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVM 73 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~ 73 (197)
.+++|..+++.|-|.++.. .+-|||. |.+..| .. ||-|.. .++.++-+|+..|++-.+-
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk~-ih~~IG-----~~--RlsFg~----~E~l~E~LGv~pG~VT~Fg 105 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLKS-IHETIG-----AA--RLSFGS----PERLMEYLGVIPGSVTVFG 105 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHHH-HHHHhc-----ee--eeecCC----HHHHHHHhCCCcCceeEee
Confidence 4788888888888888755 5668885 777777 23 777764 2445556688877765554
No 241
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=33.83 E-value=73 Score=31.31 Aligned_cols=60 Identities=22% Similarity=0.310 Sum_probs=44.8
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--e--CCeec--CCCCcccccccCCCCeEEEEecc
Q 029207 12 HFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--H--NGKVL--KDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~--~Gk~L--~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
.+.+.|+...++..+|+.|+...+ ++.+..||. | +|..+ .++.+|+.+ -++.+|.+-+.+
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~---V~~~HFKi~R~~~~N~~~~S~~~NetLs~~--~~~~~iTI~LG~ 943 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLE---VDKDHFKIVRHASDNGSEASFMDNETLSGA--FQSCFITIKLGA 943 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhC---cChhHeEEEEEecCCcchhhhccchhhhhh--cccceEEEEecC
Confidence 467899999999999999999999 999999886 2 23333 455677654 456777766544
No 242
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=33.63 E-value=1e+02 Score=26.99 Aligned_cols=38 Identities=21% Similarity=0.180 Sum_probs=29.7
Q ss_pred chHHHHHHHHHc--CCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 152 DLEQTIQQIMDM--GGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 152 ~~~~~i~~l~~M--G~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
..++..+-|.+- + ++.+++..+++.+.++|.+|++|+-
T Consensus 166 ~~~~~~~~L~~~~~~---~~~~~~~~~l~la~Gsp~~A~~l~~ 205 (328)
T PRK05707 166 SNEESLQWLQQALPE---SDERERIELLTLAGGSPLRALQLHE 205 (328)
T ss_pred CHHHHHHHHHHhccc---CChHHHHHHHHHcCCCHHHHHHHHC
Confidence 345666666664 4 7888888999999999999998764
No 243
>PRK01777 hypothetical protein; Validated
Probab=33.49 E-value=1.8e+02 Score=20.75 Aligned_cols=69 Identities=7% Similarity=0.001 Sum_probs=39.3
Q ss_pred CEEEEEeC-CC--cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 1 MKLTVKTL-KG--SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 1 M~I~Vk~~-~g--~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
|+|.|... .. ..+.+++....||.++-....-......+.....++.-+|+...- +.-+++||.|-+.-
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeIyr 75 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEIYR 75 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEEec
Confidence 56666543 22 235678899999999877642111100011222355566776543 33567789998763
No 244
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=33.37 E-value=1.3e+02 Score=21.89 Aligned_cols=63 Identities=10% Similarity=0.028 Sum_probs=45.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCC-cccccccCCCCeEEEEecc
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDET-TLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~-tL~~~~I~~~~~I~l~~~~ 76 (197)
..|.-..-.|+.++-+.+.+..+.+.+.+=.+..|+.|+.|.... .|-.+.+..+ .+.+-+|-
T Consensus 23 ~~l~~~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~ll~~~~~~L~H~~~~~~-~l~l~vrs 86 (104)
T PF14807_consen 23 QNLPSSSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQLLNSSPVCLLHCRVNAG-TLDLWVRS 86 (104)
T ss_pred EeccccCcCCHHHHHHHHHHhcCceEEEEeCccceeeeeccCCCCeEEEEEEecCC-eEEEEEEc
Confidence 344334567888888888888774334444558899999998776 8999998876 77777654
No 245
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=33.00 E-value=1.1e+02 Score=21.71 Aligned_cols=40 Identities=18% Similarity=0.185 Sum_probs=34.7
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCe
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQ 44 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~q 44 (197)
.|.|-..+|....+++..+++..++=+.+..+.| ++.+.+
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~---L~~e~~ 42 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAG---MDSYTQ 42 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhC---CCHHHH
Confidence 4667777999999999999999999999999999 776654
No 246
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=32.85 E-value=53 Score=21.34 Aligned_cols=14 Identities=21% Similarity=0.335 Sum_probs=9.0
Q ss_pred hcCCHHHHHHHhhC
Q 029207 180 AYNNPERAVDYLYS 193 (197)
Q Consensus 180 ~~~N~~~A~EyL~~ 193 (197)
..|.+|+|.|||-.
T Consensus 35 qlg~~~~a~eYi~~ 48 (62)
T PF14689_consen 35 QLGKYEEAKEYIKE 48 (62)
T ss_dssp HTT-HHHHHHHHHH
T ss_pred HCCCHHHHHHHHHH
Confidence 34568888888753
No 247
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=32.50 E-value=1.1e+02 Score=21.38 Aligned_cols=48 Identities=15% Similarity=0.247 Sum_probs=32.2
Q ss_pred CCHHHHHHHHHHHhCCCCCCCC--CeEE--EeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 21 DTVMAVKKNIEDVQGKDNYPCG--QQLL--IHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~~--~qrL--i~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
.+..+|+.+..+..+ ++.. ..+| --.|..++|+.-+..+ .+ +++.|++
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~-nT~l~~L 72 (80)
T cd06536 21 SSLEELRIKACESLG---FDSSSAPITLVLAEDGTIVEDEDYFLCL--PP-NTKFVLL 72 (80)
T ss_pred CCHHHHHHHHHHHhC---CCCCCCceEEEEecCCcEEccHHHHhhC--CC-CcEEEEE
Confidence 479999999999998 7632 2444 4578888887665554 23 4444444
No 248
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=32.39 E-value=1.8e+02 Score=20.43 Aligned_cols=33 Identities=12% Similarity=0.269 Sum_probs=27.9
Q ss_pred EEEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Q 029207 2 KLTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 2 ~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g 35 (197)
+|++. .+|..+.+.++++.|..+|.+++.+.+.
T Consensus 2 ~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~ 34 (83)
T cd06404 2 RVKAA-YNGDIMITSIDPSISLEELCNEVRDMCR 34 (83)
T ss_pred eEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhC
Confidence 34444 4788888999999999999999999988
No 249
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=32.33 E-value=1.6e+02 Score=19.95 Aligned_cols=47 Identities=26% Similarity=0.351 Sum_probs=34.1
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCC--CCCeEEE--e-CC--eecCC-CCcc
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYP--CGQQLLI--H-NG--KVLKD-ETTL 59 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p--~~~qrLi--~-~G--k~L~D-~~tL 59 (197)
+....|.|..++|+.++-..+.++.+ +. +....|+ + +| +.|.+ +..+
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~---l~~~~~~y~L~e~~~~~~er~L~~~e~Pl 69 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFH---LTDDPEEYVLVEVLPDGKERVLPDDENPL 69 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhC---CCCCcccEEEEEEeCCcEEEEeCCCCcce
Confidence 56778999999999999999999999 44 3455553 3 45 56655 4444
No 250
>PRK01905 DNA-binding protein Fis; Provisional
Probab=32.21 E-value=44 Score=22.67 Aligned_cols=24 Identities=25% Similarity=0.321 Sum_probs=21.3
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+++-+.++|+...+|..+|.+.|
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L 60 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL 60 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH
Confidence 678889999999999999999876
No 251
>KOG4361 consensus BCL2-associated athanogene-like proteins and related BAG family chaperone regulators [Signal transduction mechanisms]
Probab=32.00 E-value=20 Score=31.86 Aligned_cols=60 Identities=18% Similarity=0.236 Sum_probs=43.8
Q ss_pred EEEEeCCCCCHH---HHHHHHHHHhCCCCCCCCCe--EEEeCCeecCCCC-cccccccCCCCeEEEEec
Q 029207 13 FEIRVQPSDTVM---AVKKNIEDVQGKDNYPCGQQ--LLIHNGKVLKDET-TLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 13 ~~iev~~~~TV~---~LK~~I~~~~g~~~~p~~~q--rLi~~Gk~L~D~~-tL~~~~I~~~~~I~l~~~ 75 (197)
+.+.+.+..+-+ ++++......| +.-.++ +++|.++.|+|.. .|..++.++.+.+.++..
T Consensus 73 ~~~~i~p~~~~g~~~d~a~~~~~~ag---~sh~d~~~k~~y~~~e~rd~~l~l~~~g~p~~sk~~~~~~ 138 (344)
T KOG4361|consen 73 HGLAIVPQYPSGNALDLAKPLTEDAG---LSHYDQEVKLVYVDKELRDQSLRLSSAGVPDASKINVVPD 138 (344)
T ss_pred cccccccccccccchhhhcccccccc---eeecccccccceecccccccccccccccCcccccceeccC
Confidence 345555555555 77777777777 444454 9999999998764 789999999888888754
No 252
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=31.77 E-value=1.1e+02 Score=26.71 Aligned_cols=39 Identities=18% Similarity=0.274 Sum_probs=29.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.++.++-|.+-|+ .+.+++..|++.+.++|.+|++|+-+
T Consensus 168 ~~~~~~~L~~~~~--~~~~~~~~~~~l~~g~p~~A~~~~~~ 206 (325)
T PRK06871 168 EQQALDWLQAQSS--AEISEILTALRINYGRPLLALTFLEQ 206 (325)
T ss_pred HHHHHHHHHHHhc--cChHHHHHHHHHcCCCHHHHHHHhhC
Confidence 4566667776641 46667888999999999999998754
No 253
>PF10025 DUF2267: Uncharacterized conserved protein (DUF2267); InterPro: IPR018727 This entry contains proteins that have no known function. ; PDB: 2YSK_A.
Probab=31.56 E-value=62 Score=23.93 Aligned_cols=26 Identities=23% Similarity=0.460 Sum_probs=19.8
Q ss_pred hHHHHHHHHH-cCCCCC-CHHHHHHHHHHhc
Q 029207 153 LEQTIQQIMD-MGGGTW-DKETVTRALQAAY 181 (197)
Q Consensus 153 ~~~~i~~l~~-MG~~~~-~~~~~~~aL~~~~ 181 (197)
+++-|+.+.+ || + +|+++.+|+|+..
T Consensus 2 ~~~fl~~V~~~~~---l~~~~~A~~a~~avL 29 (125)
T PF10025_consen 2 YDEFLDEVRERAG---LPDREEAYRATRAVL 29 (125)
T ss_dssp HHHHHHHHHHHHT------HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhC---CCCHHHHHHHHHHHH
Confidence 6778888866 78 8 9999999999864
No 254
>COG3626 PhnI Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=30.91 E-value=46 Score=28.80 Aligned_cols=35 Identities=26% Similarity=0.488 Sum_probs=28.5
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhh
Q 029207 156 TIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLY 192 (197)
Q Consensus 156 ~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~ 192 (197)
.|...|.=| +.|||+-+.-|++-|.++.-.|+ ||+
T Consensus 44 aVdRVM~Eg-slyDreLAALAikQa~GD~~EAI-FLl 78 (367)
T COG3626 44 AVDRVMTEG-SLYDRELAALALKQASGDLVEAI-FLL 78 (367)
T ss_pred HHHHHhhcc-chhHHHHHHHHHHHhcchHHHHH-HHH
Confidence 455666655 88999999999999999999988 443
No 255
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=30.80 E-value=71 Score=23.92 Aligned_cols=21 Identities=19% Similarity=0.233 Sum_probs=17.0
Q ss_pred EEeCCCCCHHHHHHHHHHHhC
Q 029207 15 IRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~g 35 (197)
++|+.+.|+++|-+.+++++|
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~ 57 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYG 57 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS
T ss_pred EEEcCCCCHHHHHHHHHHHhC
Confidence 566668999999999999998
No 256
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=30.53 E-value=1.2e+02 Score=21.01 Aligned_cols=49 Identities=16% Similarity=0.270 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHHhCCCCCCC-CCeEEEeCCeecCCCCcccccccCCCCeEEEEec
Q 029207 21 DTVMAVKKNIEDVQGKDNYPC-GQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLS 75 (197)
Q Consensus 21 ~TV~~LK~~I~~~~g~~~~p~-~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~ 75 (197)
.+..+|+.+..+.++ ++. -.+.|--.|-.++|+.-+..+ . .+++.|++.
T Consensus 21 ~sL~eL~~K~~~~l~---l~~~~~lvL~eDGT~Vd~EeyF~tL--p-~nt~l~vL~ 70 (79)
T cd06538 21 DSLEDLLNKVLDALL---LDCISSLVLDEDGTGVDTEEFFQAL--A-DNTVFMVLG 70 (79)
T ss_pred CCHHHHHHHHHHHcC---CCCccEEEEecCCcEEccHHHHhhC--C-CCcEEEEEC
Confidence 479999999999999 642 234555678888877655554 2 344444443
No 257
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=29.46 E-value=44 Score=29.03 Aligned_cols=24 Identities=42% Similarity=0.494 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+.+.+|..+|++.|
T Consensus 286 ~Er~~I~~aL~~~~gn~~~aA~~L 309 (326)
T PRK11608 286 QEKELLQRSLQQAKFNQKRAAELL 309 (326)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 789999999999999999999987
No 258
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=29.36 E-value=1.1e+02 Score=26.31 Aligned_cols=38 Identities=21% Similarity=0.388 Sum_probs=29.8
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
++..+..|++. | -+++++.++|..+.+++-.|+-.++.
T Consensus 235 ~~ra~~i~~~~~~---~~~~~a~~~l~~~~~~vk~a~~~~~~ 273 (299)
T PRK05441 235 VDRAVRIVMEATG---VSREEAEAALEAADGSVKLAIVMILT 273 (299)
T ss_pred HHHHHHHHHHHHC---cCHHHHHHHHHHhCCCcHHHHHHHHh
Confidence 34455666664 8 89999999999999999999876654
No 259
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=28.93 E-value=59 Score=23.84 Aligned_cols=24 Identities=29% Similarity=0.433 Sum_probs=19.3
Q ss_pred CCchHHHHHHHHHcCCCCCCHHHHHHH
Q 029207 150 GNDLEQTIQQIMDMGGGTWDKETVTRA 176 (197)
Q Consensus 150 g~~~~~~i~~l~~MG~~~~~~~~~~~a 176 (197)
.++-.+.|++.|=|| |++...+.-
T Consensus 47 rPdVQQW~qQFlYmG---FDEak~E~D 70 (114)
T PF15187_consen 47 RPDVQQWYQQFLYMG---FDEAKFEDD 70 (114)
T ss_pred CHHHHHHHHHHHHhc---chHHHhhhh
Confidence 356788999999999 998776544
No 260
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=28.88 E-value=1.3e+02 Score=21.28 Aligned_cols=59 Identities=15% Similarity=0.182 Sum_probs=34.8
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeec--CCCCccccc--ccCCCCeEEEEe
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVL--KDETTLADN--KVSEDGFLVVML 74 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L--~D~~tL~~~--~I~~~~~I~l~~ 74 (197)
-.+.|+.++|+..|-..|....+ +...+.-.+|=.... ..|.+++++ ....++.|+|.-
T Consensus 18 ~k~kI~~~~~f~~vi~fLrk~Lk---~~~~~slFlYin~sFaPspDe~vg~L~~~f~~~~~Liv~Y 80 (87)
T PF04110_consen 18 KKFKISASQTFATVIAFLRKKLK---LKPSDSLFLYINNSFAPSPDETVGDLYRCFGTNGELIVSY 80 (87)
T ss_dssp -EEEEETTSBTHHHHHHHHHHCT-------SS-EEEEEEEE---TTSBHHHHHHHH-BTTBEEEEE
T ss_pred cEEEECCCCchHHHHHHHHHHhC---CccCCeEEEEEcCccCCCchhHHHHHHHHhCCCCEEEEEE
Confidence 35677789999999999999988 655555555544433 445666665 233456666554
No 261
>PRK15115 response regulator GlrR; Provisional
Probab=28.57 E-value=45 Score=29.74 Aligned_cols=24 Identities=17% Similarity=0.202 Sum_probs=22.5
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+...+|..+|.+.|
T Consensus 398 ~E~~~i~~al~~~~gn~~~aA~~L 421 (444)
T PRK15115 398 FELNYLRKLLQITKGNVTHAARMA 421 (444)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 789999999999999999999987
No 262
>cd08798 Death_NFkB2_p100 Death domain of the Nuclear Factor-KappaB2 precursor protein p100. Death Domain (DD) of the Nuclear Factor-KappaB2 (NF-kB2) precursor protein p100. The NF-kB family of transcription factors play a central role in cardiovascular growth, stress response, and inflammation by controlling the expression of a network of different genes. There are five NF-kB proteins, all containing an N-terminal REL Homology Domain (RHD). NF-kB2 (or p52) is produced from the processing of the precursor protein p100, which contains ANK repeats and a C-terminal DD in addition to the RHD. It is regulated by the non-canonical NF-kB pathway. The p100 precursor is cytosolic and interacts with RelB. Upon phosphorylation by IKKalpha, p100 is processed to its 52kDa active, DNA binding form and the p52/RelB complex is translocated into the nucleus. The non-canonical pathway plays a role in adaptive immunity and lymphorganogenesis. In general, DDs are protein-protein interaction domains found i
Probab=28.29 E-value=86 Score=21.64 Aligned_cols=24 Identities=33% Similarity=0.508 Sum_probs=19.8
Q ss_pred CCchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 150 GNDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 150 g~~~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
|-..+..++.|.+|| |.++.+-||
T Consensus 52 ~G~l~~L~~aL~~mG-----~~eav~~l~ 75 (76)
T cd08798 52 GGPLQGLIEALQDMG-----LREGVRLLR 75 (76)
T ss_pred CCCHHHHHHHHHHhC-----hHHHHHHhh
Confidence 556789999999999 777777765
No 263
>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 2, which has a core 3-layer alpha/beta/alpha structure. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 2NN6_E 2WNR_A 3U1K_B 2BA0_H 2BA1_H 3M85_G 3M7N_H 3H1C_K ....
Probab=28.16 E-value=12 Score=24.37 Aligned_cols=22 Identities=23% Similarity=0.516 Sum_probs=16.5
Q ss_pred HHHcCCCC-CCHHHHHHHHHHhc
Q 029207 160 IMDMGGGT-WDKETVTRALQAAY 181 (197)
Q Consensus 160 l~~MG~~~-~~~~~~~~aL~~~~ 181 (197)
++.|||+. |+.+++.+||..|.
T Consensus 44 ~~~~~g~~~~~~~~l~~~i~~A~ 66 (68)
T PF03725_consen 44 LQKSGGGSELSEDQLEEAIELAK 66 (68)
T ss_dssp EEEEEESSEEEHHHHHHHHHHHH
T ss_pred EEEcCCCCCCCHHHHHHHHHHHh
Confidence 35567666 89999998888764
No 264
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=27.97 E-value=1.4e+02 Score=20.84 Aligned_cols=63 Identities=11% Similarity=0.101 Sum_probs=37.7
Q ss_pred EEEEeCCCc-EEEEEeCCCCCHHHHHHHHHHHhCCCCCC-CCCeEEEeCCeecCCCCcccccccCCCCeEEEEe
Q 029207 3 LTVKTLKGS-HFEIRVQPSDTVMAVKKNIEDVQGKDNYP-CGQQLLIHNGKVLKDETTLADNKVSEDGFLVVML 74 (197)
Q Consensus 3 I~Vk~~~g~-~~~iev~~~~TV~~LK~~I~~~~g~~~~p-~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~ 74 (197)
+.|++.+.. ++-|- -.+..+|+.+..+..+ ++ +-.+.|--.|..++|+.-+..+ .++ +..|++
T Consensus 5 fkv~~~~r~~kkGV~---A~sL~EL~~K~~~~L~---~~~~~~lvLeeDGT~Vd~EeyF~tL--pdn-T~lm~L 69 (81)
T cd06537 5 FRVCDHKRTVRKGLT---AASLQELLAKALETLL---LSGVLTLVLEEDGTAVDSEDFFELL--EDD-TCLMVL 69 (81)
T ss_pred eEEecCCCCeeEeEE---ccCHHHHHHHHHHHhC---CCCceEEEEecCCCEEccHHHHhhC--CCC-CEEEEE
Confidence 455655432 23333 2379999999999988 64 2334445578888877655543 333 444444
No 265
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=27.89 E-value=46 Score=30.84 Aligned_cols=24 Identities=25% Similarity=0.214 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+.+.+|..+|.+.|
T Consensus 490 ~Er~~i~~aL~~~~gn~~~aA~~L 513 (534)
T TIGR01817 490 SERERLIAALEQAGWVQAKAARLL 513 (534)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 789999999999999999999987
No 266
>PF10346 Con-6: Conidiation protein 6; InterPro: IPR018824 This entry represents a conserved region found in fungal conidiation-specific protein 6 []. This protein is expressed approximately 6 hours after the induction of development and is induced just prior to major constriction-chain growth [].
Probab=27.74 E-value=42 Score=19.79 Aligned_cols=17 Identities=35% Similarity=0.565 Sum_probs=14.5
Q ss_pred CHHHHHHHHHHhcCCHH
Q 029207 169 DKETVTRALQAAYNNPE 185 (197)
Q Consensus 169 ~~~~~~~aL~~~~~N~~ 185 (197)
+...|++-|+|+-+||.
T Consensus 2 ~~~~V~~G~KAal~NPn 18 (36)
T PF10346_consen 2 DPNNVAGGYKAALHNPN 18 (36)
T ss_pred cHHHHHHHHHHHhcCCC
Confidence 45789999999999994
No 267
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=27.65 E-value=1.5e+02 Score=26.71 Aligned_cols=38 Identities=26% Similarity=0.260 Sum_probs=30.2
Q ss_pred hHHHHHHHH-HcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIM-DMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~-~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.++.++.|. ..| ++.+.+..+.+.+.+++.+|++|+..
T Consensus 178 ~~~i~~~L~~~~~---~~~~~a~~la~~s~G~~~~A~~l~~~ 216 (394)
T PRK07940 178 VEAVAEVLVRRDG---VDPETARRAARASQGHIGRARRLATD 216 (394)
T ss_pred HHHHHHHHHHhcC---CCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence 355566665 468 99999989999999999999988643
No 268
>PF01577 Peptidase_S30: Potyvirus P1 protease; InterPro: IPR002540 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. The potyviridae are a family of positive strand RNA viruses, members of which include Zucchini yellow mosaic virus, and Turnip mosaic virus (strain Japanese) which cause considerable losses of crops worldwide. This entry represents a C-terminal region from various plant potyvirus P1 proteins (found at the N terminus of the polyprotein). The C terminus of P1 is a serine peptidase belonging to MEROPS peptidase family S30 (clan PA(S)). It is the protease responsible for autocatalytic cleavage between P1 and the helper component protease, which is a cysteine peptidase belonging to MEROPS peptidase family C6 IPR001456 from INTERPRO [, ]. The P1 protein may be involved in virus-host interactions [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=27.59 E-value=1.7e+02 Score=24.04 Aligned_cols=72 Identities=11% Similarity=0.110 Sum_probs=48.2
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCeecCCCCcccccccCCCCeEEEEecc
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGKVLKDETTLADNKVSEDGFLVVMLSK 76 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL-i~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~ 76 (197)
|.++-..|..-..|+..+.....|-..++...... ...+...+ =++|-+|.....+. ++-..++.++|-.+.
T Consensus 152 v~~~He~G~~~r~Dl~~~~~~~~i~~~~a~~~~~~-~~~~~~~~~G~SG~vl~~~~~~~-~~~~~~~~FIVRGr~ 224 (245)
T PF01577_consen 152 VETKHERGKRKRRDLNIDEFTESILRLLAKKTYRG-RIVDDIKIKGDSGLVLPRRKLIG-FGRTRDDFFIVRGRH 224 (245)
T ss_pred EECCccCCCcccEECCccHHHHHHHHHHHhhcCCC-cccccceeccceEEEEeCCcccC-ccccCCCeEEEEecc
Confidence 44445567777788888888888888888775432 44566677 45677887776666 666666766665543
No 269
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=27.16 E-value=1e+02 Score=25.68 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=33.1
Q ss_pred CchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.+.++.++.+.+-| |+++++....+.-.-|++.+++..+.
T Consensus 98 ~e~~el~~iy~~~G---~~~~~a~~~~~~l~~~~~~~~~~~~~ 137 (234)
T cd02433 98 EEAAELALIYRAKG---LDEEEAKRVASQLMNDPEQALDTLAR 137 (234)
T ss_pred HHHHHHHHHHHHcC---CCHHHHHHHHHHHHhCcchhHHHHHH
Confidence 45677888888899 99999999988888899888876544
No 270
>PF09957 DUF2191: Uncharacterized protein conserved in bacteria (DUF2191); InterPro: IPR019239 This entry, found in various hypothetical prokaryotic proteins, has no known function.
Probab=27.15 E-value=97 Score=19.11 Aligned_cols=29 Identities=24% Similarity=0.330 Sum_probs=23.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAY 181 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~ 181 (197)
+++.+++.+.++|+.=.++-|..|||.--
T Consensus 8 Dd~Ll~eA~~l~g~~tk~~~V~~ALr~~i 36 (47)
T PF09957_consen 8 DDELLAEAMRLTGTKTKKEAVNEALRELI 36 (47)
T ss_pred CHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence 47889999999877667888888998643
No 271
>PF04895 DUF651: Archaeal protein of unknown function (DUF651); InterPro: IPR006979 This conserved region is found in the C-terminal region of a number of conserved archaeal proteins of unknown function.
Probab=27.00 E-value=66 Score=23.79 Aligned_cols=25 Identities=28% Similarity=0.549 Sum_probs=20.6
Q ss_pred CHHHHHHHHH---HhcCCHHHHHHHhhC
Q 029207 169 DKETVTRALQ---AAYNNPERAVDYLYS 193 (197)
Q Consensus 169 ~~~~~~~aL~---~~~~N~~~A~EyL~~ 193 (197)
=||.|++||+ ..|++.+.|++|+-.
T Consensus 55 VRE~vR~A~~~~p~~f~~l~eAl~~~~~ 82 (110)
T PF04895_consen 55 VRENVRKAMKGKPEKFETLEEALEYVSS 82 (110)
T ss_pred HHHHHHHHHhCCCcccCCHHHHHHHHHH
Confidence 5888888886 578899999998765
No 272
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=26.97 E-value=51 Score=28.75 Aligned_cols=24 Identities=29% Similarity=0.418 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+...+|..+|.++|
T Consensus 292 ~E~~~I~~aL~~~~gn~~~aA~~L 315 (329)
T TIGR02974 292 YEIELLQQALAEAQFNQRKAAELL 315 (329)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 789999999999999999999987
No 273
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=26.93 E-value=49 Score=29.79 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+-+.+||+...+|..+|++.|
T Consensus 429 ~E~~~i~~aL~~~~gn~~~aA~~L 452 (469)
T PRK10923 429 LERTLLTTALRHTQGHKQEAARLL 452 (469)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 789999999999999999999987
No 274
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=26.70 E-value=82 Score=23.60 Aligned_cols=62 Identities=21% Similarity=0.230 Sum_probs=36.4
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC----CeEEEe-----------------CCee-cCCCCcccccccCCCC
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCG----QQLLIH-----------------NGKV-LKDETTLADNKVSEDG 68 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~----~qrLi~-----------------~Gk~-L~D~~tL~~~~I~~~~ 68 (197)
..+.|-...+.|+.+|=..|.+..-. .+.. ..+++| .|+. -+|++||.+++..-|+
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~~~--~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGD 114 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVNPP--ARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGD 114 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH-HH--HHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-
T ss_pred CeeEEEEcccCCHHHHHHHHHHhCcc--cCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCC
Confidence 45677778899999999988874320 0000 124444 2322 3678999999999999
Q ss_pred eEEEEe
Q 029207 69 FLVVML 74 (197)
Q Consensus 69 ~I~l~~ 74 (197)
.|.|-+
T Consensus 115 yidvaI 120 (120)
T PF06487_consen 115 YIDVAI 120 (120)
T ss_dssp EEEEEE
T ss_pred EEEEeC
Confidence 998753
No 275
>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=26.66 E-value=1.4e+02 Score=23.34 Aligned_cols=43 Identities=19% Similarity=0.380 Sum_probs=27.7
Q ss_pred EEEEeCC-CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 029207 13 FEIRVQP-SDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (197)
Q Consensus 13 ~~iev~~-~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~ 62 (197)
+.++++. .+.+..+++...+.+. ++- =++.|+.++...|+.||
T Consensus 77 i~lele~~~~~ie~I~~iCee~lp---f~y----~i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 77 IILELEDEEDVIEKIREICEEVLP---FGY----DIKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEecCcHHHHHHHHHHHHHhCC---Cce----EeeeeEEeccCCchhhh
Confidence 4566666 5566666654444433 221 13579999999999998
No 276
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=26.64 E-value=49 Score=30.61 Aligned_cols=24 Identities=21% Similarity=0.253 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+.+.+|..+|.+.|
T Consensus 468 ~Er~~I~~aL~~~~gn~~~aA~~L 491 (509)
T PRK05022 468 FQRQLIRQALAQHQGNWAAAARAL 491 (509)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 789999999999999999999987
No 277
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=25.93 E-value=77 Score=31.08 Aligned_cols=43 Identities=26% Similarity=0.384 Sum_probs=34.0
Q ss_pred CchHHHHHHHHH------cCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 151 NDLEQTIQQIMD------MGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 151 ~~~~~~i~~l~~------MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.++.+.|.+|+. |-||.-..|-+.+.|--|.+|++.|||-||-
T Consensus 552 ~~~q~rvt~l~nlaCSsa~PggGtN~ElALH~L~EakGnv~vAlE~LLl 600 (907)
T KOG4167|consen 552 HDLQQRVTNLLNLACSSALPGGGTNSELALHSLFEAKGNVMVALEMLLL 600 (907)
T ss_pred cccHHHHHHHHHHHhhhcCCCCCccHHHHHHHHHHhcccHHHHHHHHHh
Confidence 344556666653 5566678999999999999999999999885
No 278
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=25.82 E-value=1.1e+02 Score=25.62 Aligned_cols=25 Identities=16% Similarity=0.321 Sum_probs=20.8
Q ss_pred cEEEEEeCCCCCHHHHHHHHHHHhC
Q 029207 11 SHFEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~g 35 (197)
+.|.+++++..||.++-.+|.++..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~D 48 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQD 48 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcCC
Confidence 4478888899999999999997643
No 279
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=25.50 E-value=54 Score=29.41 Aligned_cols=24 Identities=21% Similarity=0.344 Sum_probs=22.5
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
|+|+.+.+||+...+|..+|.+.|
T Consensus 426 ~E~~~i~~al~~~~gn~~~aA~~L 449 (463)
T TIGR01818 426 FERPLLEAALQHTRGHKQEAAALL 449 (463)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 789999999999999999999987
No 280
>PHA01794 hypothetical protein
Probab=25.25 E-value=78 Score=24.09 Aligned_cols=34 Identities=18% Similarity=0.389 Sum_probs=26.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
|++.=++|++-| |=|. +++.--+|.+.+++||-.
T Consensus 77 F~eleqEm~~SG---FF~~----ki~kyien~EK~~~yl~~ 110 (134)
T PHA01794 77 FAELEKEMVDSG---FFRA----KIKKYIENMEKSARYLKA 110 (134)
T ss_pred HHHHHHHHHHhh---HHHH----HHHHHHHHHHHHHHHhhc
Confidence 667778888889 8665 445566799999999976
No 281
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=25.19 E-value=1.5e+02 Score=23.38 Aligned_cols=40 Identities=13% Similarity=0.110 Sum_probs=33.2
Q ss_pred CcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEE-EeCCee
Q 029207 10 GSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLL-IHNGKV 52 (197)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrL-i~~Gk~ 52 (197)
...+.|.|+.+.+=.++|..|+..+| +.+...+. +..|+.
T Consensus 22 ~N~ytF~V~~~anK~eIK~AVE~iF~---VkV~~VNT~~~~~K~ 62 (158)
T PRK12280 22 KNVYTFKVDRRANKIEIKKAVEFIFK---VKVLKVNIFNVDKKP 62 (158)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhC---CceEEEEeEecCCcc
Confidence 46799999999999999999999999 77777754 456643
No 282
>KOG3751 consensus Growth factor receptor-bound proteins (GRB7, GRB10, GRB14) [Signal transduction mechanisms]
Probab=24.91 E-value=1.9e+02 Score=27.42 Aligned_cols=74 Identities=15% Similarity=0.079 Sum_probs=51.0
Q ss_pred EEEEeCCCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEE--eC----CeecCCCCc----ccccccCCCCeEEE
Q 029207 3 LTVKTLKGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLI--HN----GKVLKDETT----LADNKVSEDGFLVV 72 (197)
Q Consensus 3 I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi--~~----Gk~L~D~~t----L~~~~I~~~~~I~l 72 (197)
|+|-+-+|....|.|+..+|++++-+.+.++..+ ..-++..|+ |. -+.++|+.. |+...+..++.|++
T Consensus 191 VKvfseDgasksL~Vder~tardV~~lL~eKnH~--~~d~~W~LvEh~P~L~iER~fEDHElVVEvls~W~~dseNK~lF 268 (622)
T KOG3751|consen 191 VKVFSEDGASKSLLVDERMTARDVCQLLAEKNHC--ADDEDWCLVEHYPHLQIERVFEDHELVVEVLSMWTQDSENKLLF 268 (622)
T ss_pred EEEEccCCceeeEeecccccHHHHHHHHHHhhhh--hcccceeeeeecchhhhhhhhhhHHHHHHHHhhcccCCCceeEE
Confidence 3444558889999999999999999999998874 223344443 22 255778754 55667777888887
Q ss_pred EecccC
Q 029207 73 MLSKSK 78 (197)
Q Consensus 73 ~~~~~~ 78 (197)
+.+.-|
T Consensus 269 ~k~~~K 274 (622)
T KOG3751|consen 269 RKNPAK 274 (622)
T ss_pred eecchh
Confidence 755433
No 283
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=24.78 E-value=93 Score=21.46 Aligned_cols=23 Identities=17% Similarity=0.294 Sum_probs=18.2
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhC
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g 35 (197)
+.+++..+.|+.++|+.+-+.-.
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A~ 24 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEAK 24 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHGG
T ss_pred eEEEccCcCcHHHHHHHHHHHHH
Confidence 46888999999999998876654
No 284
>PLN03196 MOC1-like protein; Provisional
Probab=24.72 E-value=87 Score=29.04 Aligned_cols=38 Identities=5% Similarity=0.204 Sum_probs=29.5
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHH-------hcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQA-------AYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~-------~~~N~~~A~EyL~~ 193 (197)
....|+-|.+|| |+++++.++.+. +-.|....+|||.+
T Consensus 340 l~~kvefL~~~G---ls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvn 384 (487)
T PLN03196 340 ALKHVEFLRGRG---FSAQDVAKMVVRCPQILALNLEIMKPSLEFFKK 384 (487)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHhCCceeeccHHHHHHHHHHHHH
Confidence 466788888999 999999877654 44577788888876
No 285
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=24.52 E-value=78 Score=22.27 Aligned_cols=23 Identities=22% Similarity=0.374 Sum_probs=19.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
--+.++.|--|| ++|+++..||+
T Consensus 65 ~KqllkrLN~f~---it~~e~~~alk 87 (87)
T PF13331_consen 65 AKQLLKRLNMFG---ITREEFEEALK 87 (87)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHhC
Confidence 345788888899 99999999874
No 286
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=24.34 E-value=1.3e+02 Score=20.08 Aligned_cols=30 Identities=30% Similarity=0.464 Sum_probs=21.8
Q ss_pred cCCCchHHHHHHHHHcCCCCC-CHHHHHH-HHHH
Q 029207 148 VAGNDLEQTIQQIMDMGGGTW-DKETVTR-ALQA 179 (197)
Q Consensus 148 ~~g~~~~~~i~~l~~MG~~~~-~~~~~~~-aL~~ 179 (197)
.-+++++..|+..++=| .| +.++|++ |||.
T Consensus 5 sL~~~~~~~i~~~V~sG--~Y~s~SEVir~aLR~ 36 (69)
T TIGR02606 5 SLGEHLESFIRSQVQSG--RYGSASEVVRAALRL 36 (69)
T ss_pred ecCHHHHHHHHHHHHCC--CCCCHHHHHHHHHHH
Confidence 34677899999999866 45 7777777 4553
No 287
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=24.26 E-value=82 Score=30.15 Aligned_cols=36 Identities=17% Similarity=0.275 Sum_probs=26.0
Q ss_pred CEEEEEeCCCcEEEEEeCCC---------CCHHHHHHHHHHHhCC
Q 029207 1 MKLTVKTLKGSHFEIRVQPS---------DTVMAVKKNIEDVQGK 36 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~---------~TV~~LK~~I~~~~g~ 36 (197)
+.|+|+..+|++..+..... .|+.+||.+|+++.|.
T Consensus 249 ~~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~ 293 (603)
T PRK05841 249 LNITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGL 293 (603)
T ss_pred EEEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhcccc
Confidence 35788877787755443322 4899999999998883
No 288
>PF08383 Maf_N: Maf N-terminal region; InterPro: IPR013592 This region is found in various leucine zipper transcription factors of the Maf family. These are implicated in the regulation of insulin gene expression [], in erythroid differentiation [], and in differentiation of the neuroretina [].
Probab=24.15 E-value=52 Score=19.24 Aligned_cols=9 Identities=56% Similarity=0.759 Sum_probs=4.6
Q ss_pred HHHHHHHhh
Q 029207 184 PERAVDYLY 192 (197)
Q Consensus 184 ~~~A~EyL~ 192 (197)
||.|||-|+
T Consensus 25 pEDAvEaLi 33 (35)
T PF08383_consen 25 PEDAVEALI 33 (35)
T ss_pred HHHHHHHHh
Confidence 455555554
No 289
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=23.89 E-value=18 Score=30.87 Aligned_cols=39 Identities=10% Similarity=0.135 Sum_probs=33.4
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCC
Q 029207 9 KGSHFEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNG 50 (197)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~G 50 (197)
.|..+.++++.+++|.|.+..+.+..+ +.+...||++.+
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~---vss~~~kll~~~ 49 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAV---VSSKPNKLLALN 49 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeee---eccchHHHHhhh
Confidence 578899999999999999999998888 777778877765
No 290
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=23.85 E-value=1.6e+02 Score=25.98 Aligned_cols=39 Identities=15% Similarity=0.047 Sum_probs=30.1
Q ss_pred CCchHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 150 GNDLEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 150 g~~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
....++.++-|.+.| .+..+. .|+.+.++|.+|++|+-+
T Consensus 190 ~~~~~~~~~~L~~~~---~~~~~~--~l~~~~Gsp~~Al~~~~~ 228 (342)
T PRK06964 190 VPAPEAAAAWLAAQG---VADADA--LLAEAGGAPLAALALASD 228 (342)
T ss_pred CCCHHHHHHHHHHcC---CChHHH--HHHHcCCCHHHHHHHHCC
Confidence 444678888888888 776544 578899999999998743
No 291
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=23.80 E-value=78 Score=23.04 Aligned_cols=25 Identities=16% Similarity=0.395 Sum_probs=19.8
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQA 179 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~ 179 (197)
.....++.|+.-| |+.+.+.++|+-
T Consensus 94 ~~~K~~~~L~rrG---F~~~~i~~vi~~ 118 (121)
T PF02631_consen 94 RKQKLIRFLMRRG---FSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHHHHHTT-----HHHHHHHCHH
T ss_pred HHHHHHHHHHHCC---CCHHHHHHHHhh
Confidence 3567899999999 999999999875
No 292
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=23.51 E-value=1.6e+02 Score=25.49 Aligned_cols=38 Identities=21% Similarity=0.313 Sum_probs=31.1
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.+..++-+++. | -+|+++.++|+.+.+++--|+=.+++
T Consensus 233 ~dRa~RIv~~aT~---~~~~~A~~~L~~~~~~vK~AIvm~~~ 271 (298)
T COG2103 233 RDRAVRIVMEATG---CSAEEAEALLEEAGGNVKLAIVMLLT 271 (298)
T ss_pred HHHHHHHHHHHhC---CCHHHHHHHHHHcCCccHhHHHHHHh
Confidence 35577777776 8 89999999999999999999865554
No 293
>cd05839 BR140_related The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, BR140 is disrupted by chromosomal translocations, similar to translocations of WHSC1 in lymphoid multiple myeloma. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=23.50 E-value=69 Score=23.72 Aligned_cols=30 Identities=23% Similarity=0.353 Sum_probs=22.7
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHH
Q 029207 155 QTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDY 190 (197)
Q Consensus 155 ~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~Ey 190 (197)
+.++.+.-|. +.+....+|++.|| +||++|
T Consensus 82 ~~~D~~kl~~---~rk~~~rk~~~~Ay---~~Al~~ 111 (111)
T cd05839 82 ETLDKLKLKE---GRKPSIRKAVQKAY---DDALSH 111 (111)
T ss_pred hhhhhhhhhh---ccCHHHHHHHHHHH---HHHhcC
Confidence 4566666677 77888899999997 577765
No 294
>TIGR02293 TAS_TIGR02293 putative toxin-antitoxin system antitoxin component, TIGR02293 family. Proteins in this family are found almost exclusively in the Proteobacteria, but also in Gloeobacter violaceus PCC 7421, a cyanobacterium. This family was proposed by Makarova, et al. (2009) to be the antitoxin component of a new class of type 2 toxin-antitoxin system, or addiction module.
Probab=23.46 E-value=91 Score=23.41 Aligned_cols=22 Identities=18% Similarity=0.296 Sum_probs=17.4
Q ss_pred HHHHHHHhcCCHHHHHHHhhCc
Q 029207 173 VTRALQAAYNNPERAVDYLYSI 194 (197)
Q Consensus 173 ~~~aL~~~~~N~~~A~EyL~~~ 194 (197)
+.+++..-|++.++|..||-+|
T Consensus 77 i~~~a~~vfg~~~~a~~WL~~P 98 (133)
T TIGR02293 77 VWKAAVDVFGGDAEARQWLFRP 98 (133)
T ss_pred HHHHHHHHHCCHHHHHHHHhCc
Confidence 4556677899899999999664
No 295
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=23.37 E-value=1.6e+02 Score=21.59 Aligned_cols=28 Identities=7% Similarity=0.184 Sum_probs=22.7
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHH
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKK 28 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~ 28 (197)
++|+|...+|+...+++....|+.+.-.
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a~~ 28 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEAAH 28 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHHHH
Confidence 5788877899999999998888877643
No 296
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=23.15 E-value=2.9e+02 Score=19.89 Aligned_cols=53 Identities=25% Similarity=0.287 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCee------c-CC--CCcc--cccccCCCCeEEEEec
Q 029207 19 PSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKV------L-KD--ETTL--ADNKVSEDGFLVVMLS 75 (197)
Q Consensus 19 ~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~------L-~D--~~tL--~~~~I~~~~~I~l~~~ 75 (197)
...||++|-..|...+-. -..+-+|+.|.+ | .| -..| .+|.+++|+.|+++-.
T Consensus 34 ~~~tvgdll~yi~~~~ie----~r~~lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiST 97 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIE----TRDSLFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFIST 97 (101)
T ss_pred CcccHHHHHHHHHHHHhc----CCcceEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEe
Confidence 456999999999886541 122355666642 3 22 2233 6789999999988754
No 297
>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=23.01 E-value=21 Score=23.59 Aligned_cols=37 Identities=24% Similarity=0.510 Sum_probs=26.8
Q ss_pred HHHHHHHHH-cCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 154 EQTIQQIMD-MGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 154 ~~~i~~l~~-MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
-+.|..+++ .| |+.+-|..|++-+..|-.+-+.|+..
T Consensus 18 ~~~l~~~~~~~~---~~~~~v~~ai~~~~~~~~~~~~Yi~~ 55 (77)
T PF07261_consen 18 IEKLEKWIDDYG---FSPEVVNEAIEYALENNKRSFNYIEK 55 (77)
T ss_dssp HHHHHHHHCCCH---HHHHHHHHHHHHHHHCT--SHHHHHH
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 345556555 79 99999999999998766666777753
No 298
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=22.78 E-value=1.2e+02 Score=23.89 Aligned_cols=59 Identities=24% Similarity=0.440 Sum_probs=35.2
Q ss_pred CEEEEEeCCCcEEEEEeCCCCCHHHHHHHHHH----HhCCCCCCCCCeEEEeCCeecCCCCccc
Q 029207 1 MKLTVKTLKGSHFEIRVQPSDTVMAVKKNIED----VQGKDNYPCGQQLLIHNGKVLKDETTLA 60 (197)
Q Consensus 1 M~I~Vk~~~g~~~~iev~~~~TV~~LK~~I~~----~~g~~~~p~~~qrLi~~Gk~L~D~~tL~ 60 (197)
|.|++. ++|+.+.++++|..++.++-..--. +.|++.-...-..++++|+...-..++.
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 456666 7899999999999987776543222 2222212223346677777665444443
No 299
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=22.32 E-value=74 Score=28.05 Aligned_cols=48 Identities=21% Similarity=0.140 Sum_probs=38.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 029207 14 EIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (197)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~ 62 (197)
.+.++...||..||+.+..+.+.. -...++-++|++..|.+..||.+.
T Consensus 167 fvrcsa~~Tv~hlkkfl~~k~~~~-~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 167 FLRCSAAATVNHLKKFLRKKMDNL-SNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred eEeccHHHHHHHHHHHHHHHhccc-cchhhheeecCCccccchhhhhhh
Confidence 456777889999999999998831 345567889999999999999865
No 300
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=22.22 E-value=2.5e+02 Score=20.81 Aligned_cols=35 Identities=17% Similarity=0.110 Sum_probs=28.2
Q ss_pred CEEEEEeCCCcE--EEEEeCCCCCHHHHHHHHHHHhC
Q 029207 1 MKLTVKTLKGSH--FEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 1 M~I~Vk~~~g~~--~~iev~~~~TV~~LK~~I~~~~g 35 (197)
|+..+...+++. -.|.|+.+.|+.++.+.+-+++.
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk 60 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFR 60 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhc
Confidence 677777666653 35889999999999999999887
No 301
>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=22.13 E-value=2.6e+02 Score=21.88 Aligned_cols=43 Identities=16% Similarity=0.329 Sum_probs=27.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCeecCCCCccccc
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLADN 62 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk~L~D~~tL~~~ 62 (197)
+-|++...+.+.++++...+.+. ++ --+..|+.+.+..|+.||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~p---F~----y~i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLP---FG----YEVRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCC---Cc----eEeeeeeEeecCCchhhh
Confidence 44565566667777665444433 21 124678899999999998
No 302
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=21.99 E-value=1.6e+02 Score=17.95 Aligned_cols=26 Identities=12% Similarity=0.403 Sum_probs=22.1
Q ss_pred chHHHHHHHHHcCCCCC--CHHHHHHHHHHh
Q 029207 152 DLEQTIQQIMDMGGGTW--DKETVTRALQAA 180 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~--~~~~~~~aL~~~ 180 (197)
+-...++.|.+-| | +.+.+.++|+.+
T Consensus 20 ~~~~~l~~l~~~g---~~is~~l~~~~L~~~ 47 (48)
T PF11848_consen 20 EVKPLLDRLQQAG---FRISPKLIEEILRRA 47 (48)
T ss_pred hHHHHHHHHHHcC---cccCHHHHHHHHHHc
Confidence 5678899999999 8 888888898865
No 303
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=21.89 E-value=83 Score=26.43 Aligned_cols=33 Identities=24% Similarity=0.398 Sum_probs=27.3
Q ss_pred hHHHHHHHHHc-CCCCCCHHHHHHHHHHhcCCHHHHH
Q 029207 153 LEQTIQQIMDM-GGGTWDKETVTRALQAAYNNPERAV 188 (197)
Q Consensus 153 ~~~~i~~l~~M-G~~~~~~~~~~~aL~~~~~N~~~A~ 188 (197)
++..+..|++. | -+++++.++|..+.+++-.|+
T Consensus 222 ~~ra~~i~~~~~~---~~~~~a~~~l~~~~~~~k~a~ 255 (257)
T cd05007 222 RERAIRIVMEATG---VSRDEAEAALEQAGGDVKTAI 255 (257)
T ss_pred HHHHHHHHHHHHC---cCHHHHHHHHHHhCCCceeee
Confidence 45566667775 7 899999999999999998776
No 304
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=21.74 E-value=1.8e+02 Score=25.14 Aligned_cols=37 Identities=16% Similarity=0.038 Sum_probs=27.7
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHHHHHhhC
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERAVDYLYS 193 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A~EyL~~ 193 (197)
.+..++-|.+-| ++.+++..+..++ +++.+|++++-+
T Consensus 164 ~~~~~~~L~~~g---~~~~~a~~la~~~-~s~~~A~~l~~~ 200 (290)
T PRK07276 164 EAYLIQLLEQKG---LLKTQAELLAKLA-QSTSEAEKLAQN 200 (290)
T ss_pred HHHHHHHHHHcC---CChHHHHHHHHHC-CCHHHHHHHhCC
Confidence 466777777889 9988876655555 589999998743
No 305
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=21.66 E-value=1.7e+02 Score=22.88 Aligned_cols=25 Identities=20% Similarity=0.282 Sum_probs=20.7
Q ss_pred cEE-EEEeCCCCCHHHHHHHHHHHhC
Q 029207 11 SHF-EIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 11 ~~~-~iev~~~~TV~~LK~~I~~~~g 35 (197)
..+ .|.|..+.|+.+|...|...+|
T Consensus 17 ~iwRri~Vp~~~tl~~Lh~~Iq~afg 42 (179)
T PF07929_consen 17 PIWRRIEVPADITLADLHEVIQAAFG 42 (179)
T ss_dssp -EEEEEEEETT-BHHHHHHHHHHHTT
T ss_pred CeEEEEEECCCCCHHHHHHHHHHHhC
Confidence 444 5899999999999999999998
No 306
>PHA02564 V virion protein; Provisional
Probab=21.36 E-value=1.7e+02 Score=22.51 Aligned_cols=31 Identities=13% Similarity=0.329 Sum_probs=24.6
Q ss_pred chHHHHHHHHHc--CCCCCCHHHHHHHHHHhcC
Q 029207 152 DLEQTIQQIMDM--GGGTWDKETVTRALQAAYN 182 (197)
Q Consensus 152 ~~~~~i~~l~~M--G~~~~~~~~~~~aL~~~~~ 182 (197)
.+...|+.|+.| |+.-|+.+++.+|++.+.+
T Consensus 109 ~l~~l~~Aii~~EnG~~pys~~~i~~~~~~~~~ 141 (141)
T PHA02564 109 TLAALVTAIIRHENGQQPYSAEQIAQGVREVLY 141 (141)
T ss_pred HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhhC
Confidence 466777777665 7678999999999998753
No 307
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=21.16 E-value=1.3e+02 Score=20.89 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=18.8
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhC
Q 029207 13 FEIRVQPSDTVMAVKKNIEDVQG 35 (197)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~g 35 (197)
+.+.|..+.|+.++|..+-+.-.
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~ 24 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQAR 24 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHH
Confidence 46788999999999998876543
No 308
>cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown.
Probab=20.94 E-value=85 Score=21.48 Aligned_cols=23 Identities=17% Similarity=0.547 Sum_probs=17.6
Q ss_pred cCCCchHHHHHHHHHcCCCCCCHHHH
Q 029207 148 VAGNDLEQTIQQIMDMGGGTWDKETV 173 (197)
Q Consensus 148 ~~g~~~~~~i~~l~~MG~~~~~~~~~ 173 (197)
+-|+..+...+-|.+|| |.++.+
T Consensus 52 lQGD~r~~v~~~L~~~g---~~~~~i 74 (77)
T cd00474 52 LQGDQRKKIKEFLIKMG---FAKDNI 74 (77)
T ss_pred EeCcHHHHHHHHHHHcC---CCHHHe
Confidence 44777888888888999 887543
No 309
>cd08797 Death_NFkB1_p105 Death domain of the Nuclear Factor-KappaB1 precursor protein p105. Death Domain (DD) of the Nuclear Factor-KappaB1 (NF-kB1) precursor protein p105. The NF-kB family of transcription factors play a central role in cardiovascular growth, stress response, and inflammation by controlling the expression of a network of different genes. There are five NF-kB proteins, all containing an N-terminal REL Homology Domain (RHD). NF-kB1 (or p50) is produced from the processing of the precursor protein p105, which contains ANK repeats and a C-terminal DD in addition to the RHD. It is regulated by the classical (or canonical) NF-kB pathway. In the cytosol, p50 forms an inactive complex with RelA (or p65) and the Inhibitor of NF-kB (IkB). Activation is triggered by the phosphorylation and degradation of IkB, resulting in the active DNA-binding p50-RelA dimer to migrate to the nucleus. The classical pathway regulates the majority of genes activated by NF-kB including those encod
Probab=20.80 E-value=1.3e+02 Score=20.74 Aligned_cols=25 Identities=16% Similarity=0.379 Sum_probs=19.6
Q ss_pred CCCchHHHHHHHHHcCCCCCCHHHHHHHHH
Q 029207 149 AGNDLEQTIQQIMDMGGGTWDKETVTRALQ 178 (197)
Q Consensus 149 ~g~~~~~~i~~l~~MG~~~~~~~~~~~aL~ 178 (197)
.|-..++.++-|.+|| |.++.+-|+
T Consensus 51 ~~G~l~~L~~aL~~mG-----~~eav~~L~ 75 (76)
T cd08797 51 SGGTVRELLAALKRMG-----YTEAIEVIQ 75 (76)
T ss_pred CCCCHHHHHHHHHHhC-----cHHHHHHHh
Confidence 4556789999999999 777776665
No 310
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=20.74 E-value=75 Score=22.43 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=25.0
Q ss_pred CCCCCeEEEeCCeecCCCCcccccccCCCCeEEEEecccC
Q 029207 39 YPCGQQLLIHNGKVLKDETTLADNKVSEDGFLVVMLSKSK 78 (197)
Q Consensus 39 ~p~~~qrLi~~Gk~L~D~~tL~~~~I~~~~~I~l~~~~~~ 78 (197)
+++.+-+++|+|+.+.-. -+..-+|..|+.|.+..+.+.
T Consensus 6 i~vkra~Vly~g~k~~i~-d~~~~~v~Hge~VsffCknke 44 (85)
T PF09014_consen 6 IPVKRARVLYNGEKVWIQ-DLFKNGVLHGEIVSFFCKNKE 44 (85)
T ss_dssp -SSSS-EEEETTEEEEHH-HHTTT-BETT-EEEEEEEETT
T ss_pred cceeEEEEEECCEEechh-hcccCceeeCCEEEEEEcCCc
Confidence 778889999999876321 133447888999998876553
No 311
>PF14841 FliG_M: FliG middle domain; PDB: 3HJL_A 3AJC_A 1LKV_X 3SOH_D 3USY_B 3USW_A.
Probab=20.69 E-value=55 Score=22.28 Aligned_cols=23 Identities=35% Similarity=0.343 Sum_probs=17.6
Q ss_pred HHHHHHHhcCCHHHHHHHhhC-cC
Q 029207 173 VTRALQAAYNNPERAVDYLYS-IS 195 (197)
Q Consensus 173 ~~~aL~~~~~N~~~A~EyL~~-~~ 195 (197)
-+.||-++|-++++|.+.|.. |+
T Consensus 15 q~iAliLs~L~~~~AA~VL~~lp~ 38 (79)
T PF14841_consen 15 QTIALILSYLPPEQAAEVLSQLPE 38 (79)
T ss_dssp HHHHHHHHTS-HHHHHHHHHTS-H
T ss_pred HHHHHHHHcCCHHHHHHHHHHCCH
Confidence 356899999999999999877 43
No 312
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=20.41 E-value=4e+02 Score=23.49 Aligned_cols=37 Identities=22% Similarity=0.221 Sum_probs=24.3
Q ss_pred EEEeCC-CCCHHHHHHHHHHHhCCCCCCCCCeEEEeCCe
Q 029207 14 EIRVQP-SDTVMAVKKNIEDVQGKDNYPCGQQLLIHNGK 51 (197)
Q Consensus 14 ~iev~~-~~TV~~LK~~I~~~~g~~~~p~~~qrLi~~Gk 51 (197)
.|.++. ..+|.|||..|-.+.... ---+-+-|+|+|.
T Consensus 17 RI~FdGTGl~vfdlKrEII~q~Klg-~g~DFdLl~yn~~ 54 (427)
T COG5222 17 RISFDGTGLPVFDLKREIINQRKLG-SGKDFDLLFYNGE 54 (427)
T ss_pred eeEeccCCccHHHHHHHHHHhhhcc-CCccceEEEecCC
Confidence 355543 579999999887655410 2245667889985
No 313
>PF14044 NETI: NETI protein
Probab=20.20 E-value=1.5e+02 Score=19.29 Aligned_cols=19 Identities=11% Similarity=0.240 Sum_probs=15.9
Q ss_pred EEeCCCCCHHHHHHHHHHH
Q 029207 15 IRVQPSDTVMAVKKNIEDV 33 (197)
Q Consensus 15 iev~~~~TV~~LK~~I~~~ 33 (197)
++|..+.||.+--.++...
T Consensus 2 FeV~enETI~~CL~RM~~e 20 (57)
T PF14044_consen 2 FEVEENETISDCLARMKKE 20 (57)
T ss_pred eeccCCCcHHHHHHHHHHc
Confidence 5788899999999888765
No 314
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=20.18 E-value=1.4e+02 Score=23.06 Aligned_cols=29 Identities=17% Similarity=0.416 Sum_probs=23.7
Q ss_pred chHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Q 029207 152 DLEQTIQQIMDMGGGTWDKETVTRALQAAYNN 183 (197)
Q Consensus 152 ~~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N 183 (197)
+.-..|.+++..| .+++|++..|..-|++
T Consensus 61 dmR~~I~~~l~~G---~s~~eI~~~~v~rYG~ 89 (148)
T PF03918_consen 61 DMRREIREMLAEG---KSDEEIIDYFVERYGE 89 (148)
T ss_dssp HHHHHHHHHHHHT-----HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcC---CCHHHHHHHHHHhcCc
Confidence 3567889999999 9999999999999985
No 315
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=20.13 E-value=82 Score=28.08 Aligned_cols=24 Identities=29% Similarity=0.405 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHhcCCHHHHHHHh
Q 029207 168 WDKETVTRALQAAYNNPERAVDYL 191 (197)
Q Consensus 168 ~~~~~~~~aL~~~~~N~~~A~EyL 191 (197)
++|+.+.+||+...+|..+|++.|
T Consensus 405 ~E~~~i~~al~~~~gn~~~aA~~L 428 (445)
T TIGR02915 405 AEREAVRKAIARVDGNIARAAELL 428 (445)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 678899999999999999999887
No 316
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=20.03 E-value=1.6e+02 Score=22.89 Aligned_cols=32 Identities=25% Similarity=0.255 Sum_probs=26.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCHHHH
Q 029207 153 LEQTIQQIMDMGGGTWDKETVTRALQAAYNNPERA 187 (197)
Q Consensus 153 ~~~~i~~l~~MG~~~~~~~~~~~aL~~~~~N~~~A 187 (197)
.++..+-|...| ++++.+...++.+.+|+-+|
T Consensus 157 ~~~~~~~l~~~g---i~~~~~~~i~~~~~g~~r~~ 188 (188)
T TIGR00678 157 EEALLQWLIRQG---ISEEAAELLLALAGGSPGAA 188 (188)
T ss_pred HHHHHHHHHHcC---CCHHHHHHHHHHcCCCcccC
Confidence 456666677778 99999999999999998765
Done!