Query 033059
Match_columns 128
No_of_seqs 278 out of 1331
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 09:18:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033059.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033059hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0003 Ubiquitin/60s ribosoma 100.0 4.5E-44 9.7E-49 222.4 1.7 128 1-128 1-128 (128)
2 cd01793 Fubi Fubi ubiquitin-li 99.9 2.1E-23 4.5E-28 125.4 9.2 74 1-76 1-74 (74)
3 PTZ00044 ubiquitin; Provisiona 99.9 4.4E-23 9.6E-28 124.4 9.6 76 1-76 1-76 (76)
4 cd01807 GDX_N ubiquitin-like d 99.9 8.3E-23 1.8E-27 122.8 9.0 73 1-73 1-73 (74)
5 cd01803 Ubiquitin Ubiquitin. U 99.9 1.3E-22 2.9E-27 122.1 9.5 76 1-76 1-76 (76)
6 cd01802 AN1_N ubiquitin-like d 99.9 1.1E-22 2.4E-27 129.2 9.4 76 1-76 28-103 (103)
7 cd01806 Nedd8 Nebb8-like ubiq 99.9 2E-22 4.4E-27 121.3 9.9 76 1-76 1-76 (76)
8 PF01020 Ribosomal_L40e: Ribos 99.9 6.8E-24 1.5E-28 115.6 1.4 51 78-128 2-52 (52)
9 cd01804 midnolin_N Ubiquitin-l 99.9 3.9E-22 8.4E-27 121.0 8.7 76 1-77 2-77 (78)
10 cd01810 ISG15_repeat2 ISG15 ub 99.9 4.2E-22 9.2E-27 119.7 8.7 74 3-76 1-74 (74)
11 cd01797 NIRF_N amino-terminal 99.9 1.2E-21 2.6E-26 118.8 8.7 74 1-74 1-76 (78)
12 cd01791 Ubl5 UBL5 ubiquitin-li 99.9 1E-21 2.3E-26 117.5 8.1 71 1-71 2-72 (73)
13 cd01805 RAD23_N Ubiquitin-like 99.9 5.6E-21 1.2E-25 115.4 9.6 73 1-73 1-75 (77)
14 cd01809 Scythe_N Ubiquitin-lik 99.8 1.8E-20 3.8E-25 111.7 9.0 72 1-72 1-72 (72)
15 cd01798 parkin_N amino-termina 99.8 1.5E-20 3.4E-25 111.7 7.8 70 3-72 1-70 (70)
16 cd01794 DC_UbP_C dendritic cel 99.8 1.8E-20 3.8E-25 111.4 7.7 68 4-71 2-69 (70)
17 cd01792 ISG15_repeat1 ISG15 ub 99.8 2.7E-20 5.8E-25 113.4 7.7 73 1-73 3-77 (80)
18 PF00240 ubiquitin: Ubiquitin 99.8 5E-20 1.1E-24 109.0 8.4 69 6-74 1-69 (69)
19 cd01808 hPLIC_N Ubiquitin-like 99.8 9.4E-20 2E-24 108.6 8.5 71 1-72 1-71 (71)
20 cd01800 SF3a120_C Ubiquitin-li 99.8 6.9E-20 1.5E-24 110.6 7.9 70 8-77 5-74 (76)
21 cd01763 Sumo Small ubiquitin-r 99.8 1.2E-18 2.5E-23 107.8 9.8 76 1-76 12-87 (87)
22 cd01796 DDI1_N DNA damage indu 99.8 6.6E-19 1.4E-23 105.0 7.4 68 3-70 1-70 (71)
23 cd01812 BAG1_N Ubiquitin-like 99.8 9.1E-19 2E-23 104.1 7.8 70 1-71 1-70 (71)
24 cd01813 UBP_N UBP ubiquitin pr 99.8 1.3E-18 2.9E-23 104.4 7.8 69 1-70 1-72 (74)
25 cd01790 Herp_N Homocysteine-re 99.8 1.2E-18 2.6E-23 105.2 7.6 71 1-71 2-78 (79)
26 KOG0005 Ubiquitin-like protein 99.7 5.7E-18 1.2E-22 95.1 4.6 70 1-70 1-70 (70)
27 smart00213 UBQ Ubiquitin homol 99.7 2.8E-17 6E-22 95.3 7.5 64 1-65 1-64 (64)
28 KOG0004 Ubiquitin/40S ribosoma 99.7 4.4E-18 9.6E-23 113.0 4.6 77 1-77 1-77 (156)
29 TIGR00601 rad23 UV excision re 99.7 7.8E-17 1.7E-21 122.5 9.0 74 1-74 1-77 (378)
30 cd01799 Hoil1_N Ubiquitin-like 99.7 5.4E-16 1.2E-20 93.2 7.3 64 7-71 9-74 (75)
31 cd01769 UBL Ubiquitin-like dom 99.6 3.2E-15 7E-20 87.7 7.6 67 5-71 2-68 (69)
32 cd01815 BMSC_UbP_N Ubiquitin-l 99.6 9E-16 2E-20 91.5 5.0 55 17-71 16-74 (75)
33 PF11976 Rad60-SLD: Ubiquitin- 99.6 5.6E-15 1.2E-19 88.0 7.9 71 1-71 1-72 (72)
34 KOG0010 Ubiquitin-like protein 99.6 1.9E-15 4.1E-20 116.2 6.5 75 1-76 16-90 (493)
35 PRK04136 rpl40e 50S ribosomal 99.6 7.8E-16 1.7E-20 82.7 2.4 41 83-126 4-44 (48)
36 cd01795 USP48_C USP ubiquitin- 99.6 1.2E-14 2.5E-19 90.1 6.7 62 12-73 16-78 (107)
37 cd01814 NTGP5 Ubiquitin-like N 99.6 5.4E-15 1.2E-19 93.9 5.0 75 2-76 6-94 (113)
38 KOG0011 Nucleotide excision re 99.5 3.5E-14 7.5E-19 104.6 7.4 74 1-74 1-76 (340)
39 COG1552 RPL40A Ribosomal prote 99.5 1.5E-14 3.3E-19 77.7 2.2 44 82-128 3-46 (50)
40 cd01789 Alp11_N Ubiquitin-like 99.5 7.2E-13 1.6E-17 81.3 8.5 70 2-71 3-80 (84)
41 PF14560 Ubiquitin_2: Ubiquiti 99.4 4.6E-12 9.9E-17 78.1 7.9 69 2-70 3-81 (87)
42 cd01788 ElonginB Ubiquitin-lik 99.4 4.5E-12 9.8E-17 80.4 7.8 80 1-80 1-88 (119)
43 PLN02560 enoyl-CoA reductase 99.3 1.2E-11 2.6E-16 92.2 8.1 75 1-77 1-86 (308)
44 PF13881 Rad60-SLD_2: Ubiquiti 99.3 3.7E-11 8E-16 77.2 9.1 75 2-76 4-92 (111)
45 KOG4248 Ubiquitin-like protein 99.2 2.9E-11 6.3E-16 99.7 6.9 76 2-78 4-79 (1143)
46 KOG0001 Ubiquitin and ubiquiti 99.2 2.6E-10 5.6E-15 66.8 9.3 73 3-75 2-74 (75)
47 cd01801 Tsc13_N Ubiquitin-like 99.2 1.3E-10 2.8E-15 70.1 6.7 68 2-69 2-74 (77)
48 PF11543 UN_NPL4: Nuclear pore 99.1 1.8E-10 3.8E-15 70.0 5.2 69 1-70 5-78 (80)
49 PF13019 Telomere_Sde2: Telome 99.1 2.2E-09 4.8E-14 72.6 9.5 103 1-103 1-121 (162)
50 cd00196 UBQ Ubiquitin-like pro 98.9 1E-08 2.2E-13 57.4 7.8 66 6-71 3-68 (69)
51 KOG1769 Ubiquitin-like protein 98.9 2.6E-08 5.7E-13 61.9 8.8 75 2-76 22-96 (99)
52 KOG3493 Ubiquitin-like protein 98.8 3.1E-09 6.6E-14 60.8 1.7 69 2-70 3-71 (73)
53 cd01811 OASL_repeat1 2'-5' oli 98.7 1.7E-07 3.7E-12 55.2 7.5 70 1-71 1-75 (80)
54 KOG1872 Ubiquitin-specific pro 98.6 8.3E-08 1.8E-12 74.1 6.7 72 2-74 5-77 (473)
55 KOG0006 E3 ubiquitin-protein l 98.6 1.1E-07 2.4E-12 70.5 6.0 70 1-70 1-73 (446)
56 KOG4495 RNA polymerase II tran 98.4 4.4E-07 9.6E-12 56.0 4.0 62 1-62 1-65 (110)
57 PF08817 YukD: WXG100 protein 98.4 1.6E-06 3.5E-11 52.4 5.7 68 2-69 4-78 (79)
58 PF00789 UBX: UBX domain; Int 98.3 1.9E-05 4.1E-10 47.8 9.1 68 2-69 8-80 (82)
59 COG5227 SMT3 Ubiquitin-like pr 98.2 2E-06 4.4E-11 52.5 3.8 76 2-77 26-101 (103)
60 PF11470 TUG-UBL1: GLUT4 regul 98.2 1.2E-05 2.6E-10 46.8 6.7 63 7-69 3-65 (65)
61 PF10302 DUF2407: DUF2407 ubiq 98.1 1.2E-05 2.6E-10 50.5 5.7 58 2-59 2-64 (97)
62 smart00166 UBX Domain present 98.1 4.4E-05 9.6E-10 46.1 8.0 68 2-69 6-78 (80)
63 cd01772 SAKS1_UBX SAKS1-like U 97.9 0.00016 3.4E-09 43.7 8.3 67 2-69 6-77 (79)
64 cd01770 p47_UBX p47-like ubiqu 97.9 0.0002 4.3E-09 43.3 7.9 66 2-67 6-75 (79)
65 cd01767 UBX UBX (ubiquitin reg 97.8 0.00022 4.8E-09 42.6 8.0 66 2-69 4-74 (77)
66 cd01773 Faf1_like1_UBX Faf1 ik 97.8 0.00031 6.6E-09 42.7 8.4 69 2-71 7-80 (82)
67 COG5417 Uncharacterized small 97.8 0.00025 5.5E-09 41.9 7.0 64 6-69 12-80 (81)
68 KOG1639 Steroid reductase requ 97.7 9.4E-05 2E-09 53.4 5.6 75 1-77 1-82 (297)
69 KOG0013 Uncharacterized conser 97.7 0.00012 2.6E-09 51.5 5.3 65 9-73 155-219 (231)
70 cd01771 Faf1_UBX Faf1 UBX doma 97.6 0.00091 2E-08 40.5 8.2 68 2-70 6-78 (80)
71 cd01774 Faf1_like2_UBX Faf1 ik 97.6 0.00095 2.1E-08 40.9 8.2 68 2-70 6-83 (85)
72 PRK06437 hypothetical protein; 97.4 0.0026 5.6E-08 37.1 8.2 59 9-76 9-67 (67)
73 KOG3206 Alpha-tubulin folding 97.4 0.00067 1.4E-08 47.8 6.4 71 2-72 3-81 (234)
74 PRK06488 sulfur carrier protei 97.3 0.0029 6.2E-08 36.5 7.5 65 1-76 1-65 (65)
75 PRK08364 sulfur carrier protei 97.2 0.0065 1.4E-07 35.7 8.0 56 12-76 15-70 (70)
76 PF14836 Ubiquitin_3: Ubiquiti 97.1 0.0072 1.6E-07 37.2 7.9 66 11-77 14-85 (88)
77 PF12754 Blt1: Cell-cycle cont 97.0 0.00019 4E-09 53.4 0.0 76 2-77 80-182 (309)
78 cd00754 MoaD Ubiquitin domain 96.9 0.0067 1.5E-07 36.1 6.7 60 12-76 17-80 (80)
79 PLN02799 Molybdopterin synthas 96.9 0.0064 1.4E-07 36.6 6.3 71 1-76 2-82 (82)
80 PRK05863 sulfur carrier protei 96.9 0.009 2E-07 34.5 6.6 64 1-76 1-65 (65)
81 PF15044 CLU_N: Mitochondrial 96.8 0.0028 6.1E-08 38.0 4.3 57 17-73 1-59 (76)
82 cd06409 PB1_MUG70 The MUG70 pr 96.7 0.0098 2.1E-07 36.5 6.1 44 2-45 2-48 (86)
83 KOG4583 Membrane-associated ER 96.7 0.00076 1.6E-08 50.7 1.4 60 2-61 11-74 (391)
84 cd06406 PB1_P67 A PB1 domain i 96.6 0.012 2.6E-07 35.5 6.0 38 12-49 12-49 (80)
85 PRK08053 sulfur carrier protei 96.6 0.039 8.4E-07 31.9 8.0 66 1-76 1-66 (66)
86 PRK05659 sulfur carrier protei 96.6 0.036 7.9E-07 31.8 7.9 66 1-76 1-66 (66)
87 PF09379 FERM_N: FERM N-termin 96.6 0.031 6.6E-07 33.2 7.6 67 5-71 1-76 (80)
88 PRK07696 sulfur carrier protei 96.4 0.056 1.2E-06 31.4 7.8 66 1-76 1-67 (67)
89 PF02597 ThiS: ThiS family; I 96.3 0.028 6.2E-07 33.0 6.5 63 12-76 13-77 (77)
90 TIGR01682 moaD molybdopterin c 96.3 0.046 9.9E-07 32.7 7.4 60 12-76 17-80 (80)
91 cd06407 PB1_NLP A PB1 domain i 96.3 0.034 7.3E-07 33.8 6.7 47 1-48 1-48 (82)
92 PRK06944 sulfur carrier protei 96.3 0.075 1.6E-06 30.4 7.9 65 1-76 1-65 (65)
93 PF14453 ThiS-like: ThiS-like 96.3 0.028 6E-07 31.8 5.7 56 1-72 1-56 (57)
94 PRK07440 hypothetical protein; 96.2 0.06 1.3E-06 31.6 7.4 61 9-76 10-70 (70)
95 PRK06083 sulfur carrier protei 96.2 0.054 1.2E-06 33.0 7.4 61 9-76 24-84 (84)
96 cd00565 ThiS ThiaminS ubiquiti 96.2 0.04 8.6E-07 31.7 6.4 58 14-76 8-65 (65)
97 TIGR01687 moaD_arch MoaD famil 96.1 0.054 1.2E-06 32.9 6.9 62 11-76 16-88 (88)
98 KOG0012 DNA damage inducible p 96.0 0.011 2.5E-07 44.9 4.5 70 1-70 1-74 (380)
99 PF10790 DUF2604: Protein of U 96.0 0.05 1.1E-06 31.4 6.0 64 9-72 4-71 (76)
100 TIGR01683 thiS thiamine biosyn 96.0 0.062 1.3E-06 30.8 6.5 61 9-76 4-64 (64)
101 PF11620 GABP-alpha: GA-bindin 95.9 0.051 1.1E-06 33.1 6.0 62 13-74 5-66 (88)
102 smart00666 PB1 PB1 domain. Pho 95.4 0.11 2.4E-06 30.9 6.4 45 2-47 3-47 (81)
103 PRK11840 bifunctional sulfur c 95.1 0.2 4.4E-06 38.0 8.1 68 1-78 1-68 (326)
104 COG2104 ThiS Sulfur transfer p 95.1 0.33 7.2E-06 28.4 7.4 67 2-76 2-68 (68)
105 smart00295 B41 Band 4.1 homolo 94.4 0.78 1.7E-05 31.6 9.4 72 2-73 5-84 (207)
106 cd06408 PB1_NoxR The PB1 domai 94.4 0.37 8.1E-06 29.5 6.7 51 2-56 4-54 (86)
107 cd01760 RBD Ubiquitin-like dom 94.1 0.58 1.3E-05 27.6 7.0 45 3-47 2-46 (72)
108 TIGR02958 sec_mycoba_snm4 secr 94.1 0.39 8.5E-06 38.1 8.0 71 2-73 4-81 (452)
109 KOG2086 Protein tyrosine phosp 93.7 0.17 3.7E-06 39.0 5.1 65 2-66 307-375 (380)
110 cd05992 PB1 The PB1 domain is 93.5 0.45 9.8E-06 28.0 6.0 45 2-47 2-47 (81)
111 smart00455 RBD Raf-like Ras-bi 93.5 0.53 1.1E-05 27.6 6.0 49 3-51 2-52 (70)
112 cd06411 PB1_p51 The PB1 domain 93.5 0.49 1.1E-05 28.4 5.8 36 12-47 8-43 (78)
113 PF00564 PB1: PB1 domain; Int 93.3 0.5 1.1E-05 28.1 5.9 44 3-47 4-48 (84)
114 PRK11130 moaD molybdopterin sy 93.1 1 2.2E-05 26.9 7.1 57 15-76 19-81 (81)
115 cd06396 PB1_NBR1 The PB1 domai 92.9 0.88 1.9E-05 27.5 6.4 41 2-45 2-44 (81)
116 KOG2982 Uncharacterized conser 92.8 0.21 4.7E-06 37.9 4.4 57 14-70 351-415 (418)
117 PF14451 Ub-Mut7C: Mut7-C ubiq 92.3 0.98 2.1E-05 27.3 6.1 53 10-71 22-75 (81)
118 KOG2689 Predicted ubiquitin re 92.2 0.63 1.4E-05 34.4 6.0 68 2-69 212-284 (290)
119 PF14732 UAE_UbL: Ubiquitin/SU 92.1 0.4 8.6E-06 29.3 4.3 55 16-70 3-67 (87)
120 PF02017 CIDE-N: CIDE-N domain 92.0 0.85 1.8E-05 27.4 5.5 48 21-71 21-70 (78)
121 PF10209 DUF2340: Uncharacteri 92.0 0.61 1.3E-05 30.4 5.2 55 16-70 21-106 (122)
122 cd06398 PB1_Joka2 The PB1 doma 91.9 1.8 3.8E-05 26.8 7.0 45 3-48 3-53 (91)
123 PTZ00380 microtubule-associate 91.8 0.24 5.2E-06 32.3 3.2 57 15-71 45-104 (121)
124 cd06410 PB1_UP2 Uncharacterize 91.4 1.2 2.7E-05 27.8 6.1 40 5-45 17-56 (97)
125 KOG4250 TANK binding protein k 90.8 0.77 1.7E-05 38.2 5.8 42 9-50 323-364 (732)
126 PF08825 E2_bind: E2 binding d 90.5 0.88 1.9E-05 27.7 4.7 55 15-70 1-69 (84)
127 COG5100 NPL4 Nuclear pore prot 90.2 1.6 3.4E-05 34.3 6.7 70 1-71 1-78 (571)
128 PF14533 USP7_C2: Ubiquitin-sp 90.0 2 4.4E-05 30.5 6.9 48 12-59 35-90 (213)
129 PF08337 Plexin_cytopl: Plexin 89.8 0.85 1.8E-05 37.0 5.3 64 11-74 202-291 (539)
130 cd01766 Ufm1 Urm1-like ubiquit 89.4 3 6.6E-05 24.7 6.1 61 14-74 19-80 (82)
131 cd06397 PB1_UP1 Uncharacterize 89.4 2.2 4.7E-05 25.8 5.6 45 2-47 2-46 (82)
132 smart00266 CAD Domains present 89.2 1.7 3.7E-05 25.8 5.0 39 21-59 19-59 (74)
133 PF02196 RBD: Raf-like Ras-bin 89.2 3 6.5E-05 24.4 8.7 56 3-58 3-60 (71)
134 PF13248 zf-ribbon_3: zinc-rib 89.1 0.17 3.7E-06 23.7 0.6 22 94-117 3-24 (26)
135 PF11069 DUF2870: Protein of u 88.4 0.87 1.9E-05 28.5 3.5 36 42-77 3-39 (98)
136 PF10407 Cytokin_check_N: Cdc1 88.2 3.1 6.7E-05 24.7 5.6 61 11-72 3-70 (73)
137 cd01764 Urm1 Urm1-like ubuitin 87.8 2 4.3E-05 26.6 4.9 59 16-76 24-94 (94)
138 cd01787 GRB7_RA RA (RAS-associ 87.4 4.8 0.0001 24.6 6.4 56 3-58 5-67 (85)
139 PF02991 Atg8: Autophagy prote 87.4 1.8 3.8E-05 27.5 4.6 45 15-59 37-82 (104)
140 PF13240 zinc_ribbon_2: zinc-r 87.2 0.28 6E-06 22.4 0.6 20 96-117 2-21 (23)
141 PF03671 Ufm1: Ubiquitin fold 87.1 4.4 9.6E-05 23.9 6.4 58 13-70 18-76 (76)
142 KOG2507 Ubiquitin regulatory p 86.6 1.4 3.1E-05 34.6 4.5 74 2-75 316-394 (506)
143 KOG4572 Predicted DNA-binding 85.7 2.2 4.7E-05 36.5 5.4 62 9-70 3-68 (1424)
144 PF06234 TmoB: Toluene-4-monoo 85.2 6.5 0.00014 24.0 7.2 60 12-71 16-83 (85)
145 PF00276 Ribosomal_L23: Riboso 85.0 3.1 6.8E-05 25.6 4.7 40 11-50 21-61 (91)
146 cd01818 TIAM1_RBD Ubiquitin do 84.7 5.5 0.00012 23.8 5.4 37 5-41 4-40 (77)
147 cd01615 CIDE_N CIDE_N domain, 84.7 3.4 7.5E-05 24.8 4.6 39 21-59 21-61 (78)
148 PF08783 DWNN: DWNN domain; I 84.6 2.9 6.3E-05 24.8 4.3 40 4-43 2-44 (74)
149 cd01611 GABARAP Ubiquitin doma 84.6 2.6 5.7E-05 27.0 4.4 57 14-71 44-105 (112)
150 KOG2561 Adaptor protein NUB1, 84.4 0.32 6.8E-06 38.5 0.1 57 15-71 54-110 (568)
151 PRK01777 hypothetical protein; 83.5 8.4 0.00018 23.9 7.4 65 1-74 4-78 (95)
152 cd01817 RGS12_RBD Ubiquitin do 83.1 7.5 0.00016 23.0 5.6 47 5-51 4-52 (73)
153 PF00788 RA: Ras association ( 82.9 7.7 0.00017 23.0 6.2 41 3-43 5-51 (93)
154 PF12436 USP7_ICP0_bdg: ICP0-b 82.6 1.9 4.1E-05 31.4 3.5 72 3-74 71-154 (249)
155 KOG3439 Protein conjugation fa 82.6 6.3 0.00014 25.3 5.4 38 13-50 47-84 (116)
156 cd01768 RA RA (Ras-associating 82.5 8 0.00017 23.0 6.2 35 10-44 12-48 (87)
157 cd06539 CIDE_N_A CIDE_N domain 81.6 5.2 0.00011 24.0 4.5 47 21-69 21-69 (78)
158 smart00144 PI3K_rbd PI3-kinase 81.5 11 0.00024 23.8 7.7 64 10-73 28-105 (108)
159 cd01777 SNX27_RA Ubiquitin dom 81.3 5.4 0.00012 24.5 4.6 40 2-41 3-42 (87)
160 KOG0007 Splicing factor 3a, su 81.2 0.76 1.6E-05 35.1 1.1 49 8-56 290-339 (341)
161 PRK05738 rplW 50S ribosomal pr 81.0 6.5 0.00014 24.2 5.0 40 10-49 20-60 (92)
162 PF10571 UPF0547: Uncharacteri 80.4 0.79 1.7E-05 21.6 0.6 22 95-118 2-23 (26)
163 KOG2827 Uncharacterized conser 79.3 2.1 4.5E-05 32.0 2.7 74 23-102 23-100 (322)
164 cd01612 APG12_C Ubiquitin-like 79.1 12 0.00026 22.8 5.8 58 13-70 18-79 (87)
165 cd06536 CIDE_N_ICAD CIDE_N dom 78.9 6.1 0.00013 23.9 4.2 39 21-59 21-63 (80)
166 PF12436 USP7_ICP0_bdg: ICP0-b 78.6 7.4 0.00016 28.4 5.5 43 2-44 178-223 (249)
167 cd01775 CYR1_RA Ubiquitin doma 78.2 14 0.0003 23.1 6.2 41 3-43 5-46 (97)
168 PF14533 USP7_C2: Ubiquitin-sp 78.1 2.5 5.3E-05 30.1 2.8 30 10-39 132-161 (213)
169 TIGR03636 L23_arch archaeal ri 76.6 8.8 0.00019 22.9 4.5 34 11-44 15-48 (77)
170 KOG1364 Predicted ubiquitin re 76.5 3 6.6E-05 31.9 3.0 65 2-66 279-349 (356)
171 PF00794 PI3K_rbd: PI3-kinase 76.0 16 0.00035 22.7 7.3 70 2-71 18-101 (106)
172 cd06538 CIDE_N_FSP27 CIDE_N do 75.9 8.8 0.00019 23.1 4.3 39 21-59 21-60 (79)
173 PF09469 Cobl: Cordon-bleu ubi 74.9 2.5 5.5E-05 25.3 1.8 35 29-63 2-39 (79)
174 smart00314 RA Ras association 74.4 16 0.00034 21.8 6.4 49 10-58 15-71 (90)
175 PRK14548 50S ribosomal protein 73.4 12 0.00026 22.7 4.6 34 11-44 22-55 (84)
176 cd06537 CIDE_N_B CIDE_N domain 72.9 11 0.00025 22.7 4.3 47 21-69 21-68 (81)
177 COG1977 MoaD Molybdopterin con 71.8 14 0.00031 22.1 4.7 53 20-76 27-84 (84)
178 COG0089 RplW Ribosomal protein 70.8 13 0.00028 23.2 4.3 60 10-69 21-90 (94)
179 PF02192 PI3K_p85B: PI3-kinase 69.2 8.5 0.00018 23.1 3.2 22 13-34 2-23 (78)
180 PF11834 DUF3354: Domain of un 68.7 10 0.00022 22.2 3.4 43 21-69 26-68 (69)
181 KOG3391 Transcriptional co-rep 68.5 5.5 0.00012 26.5 2.5 29 48-76 112-140 (151)
182 PF14847 Ras_bdg_2: Ras-bindin 66.5 30 0.00066 21.9 5.5 45 3-47 3-50 (105)
183 CHL00030 rpl23 ribosomal prote 66.2 18 0.0004 22.4 4.4 39 10-48 19-58 (93)
184 KOG4598 Putative ubiquitin-spe 65.1 10 0.00022 32.3 3.8 56 12-69 878-939 (1203)
185 KOG4146 Ubiquitin-like protein 64.8 31 0.00068 21.4 7.2 56 19-76 34-101 (101)
186 smart00143 PI3K_p85B PI3-kinas 61.1 13 0.00027 22.4 2.9 22 13-34 2-23 (78)
187 KOG3507 DNA-directed RNA polym 60.3 3.1 6.7E-05 23.5 0.1 23 93-117 20-45 (62)
188 PF12773 DZR: Double zinc ribb 59.5 4.7 0.0001 21.5 0.8 23 92-116 28-50 (50)
189 PF11816 DUF3337: Domain of un 59.4 40 0.00088 25.6 6.1 59 15-73 252-328 (331)
190 COG5131 URM1 Ubiquitin-like pr 59.1 40 0.00087 20.8 6.6 66 11-76 18-96 (96)
191 PRK12280 rplW 50S ribosomal pr 58.4 28 0.0006 23.8 4.5 39 10-48 22-61 (158)
192 cd01782 AF6_RA_repeat1 Ubiquit 57.9 48 0.001 21.3 6.2 37 1-37 24-62 (112)
193 cd01776 Rin1_RA Ubiquitin doma 56.7 39 0.00084 20.6 4.4 42 12-53 15-61 (87)
194 PF02824 TGS: TGS domain; Int 56.4 33 0.00072 19.0 6.7 59 3-70 1-59 (60)
195 PF13699 DUF4157: Domain of un 55.7 30 0.00064 20.6 3.9 46 24-69 4-49 (79)
196 PF04126 Cyclophil_like: Cyclo 54.8 13 0.00028 24.0 2.3 29 1-30 1-29 (120)
197 KOG2660 Locus-specific chromos 53.9 11 0.00024 28.7 2.2 46 14-59 167-214 (331)
198 KOG3483 Uncharacterized conser 53.9 46 0.001 19.9 5.3 61 15-75 31-92 (94)
199 PF02505 MCR_D: Methyl-coenzym 52.7 35 0.00077 23.1 4.2 43 13-59 77-120 (153)
200 PF09138 Urm1: Urm1 (Ubiquitin 52.3 9.8 0.00021 23.8 1.4 64 11-76 18-96 (96)
201 PF14807 AP4E_app_platf: Adapt 51.5 60 0.0013 20.5 6.1 69 13-82 21-95 (104)
202 PF13180 PDZ_2: PDZ domain; PD 50.5 38 0.00082 19.7 3.8 55 11-73 15-71 (82)
203 PTZ00191 60S ribosomal protein 49.7 45 0.00098 22.5 4.4 34 10-43 82-115 (145)
204 PF03931 Skp1_POZ: Skp1 family 49.6 15 0.00033 20.5 1.9 32 1-32 1-32 (62)
205 PF04110 APG12: Ubiquitin-like 48.7 56 0.0012 20.0 4.4 47 13-59 18-66 (87)
206 PF01376 Enterotoxin_b: Heat-l 48.5 31 0.00067 20.9 3.1 30 3-32 38-67 (102)
207 PHA00626 hypothetical protein 47.8 7.5 0.00016 21.8 0.4 18 95-112 2-19 (59)
208 PF12172 DUF35_N: Rubredoxin-l 47.7 7.3 0.00016 19.4 0.3 32 87-121 5-36 (37)
209 cd06535 CIDE_N_CAD CIDE_N doma 47.7 56 0.0012 19.6 4.1 31 21-51 21-53 (77)
210 PF08299 Bac_DnaA_C: Bacterial 46.8 7.4 0.00016 22.6 0.2 20 22-41 1-20 (70)
211 PF00641 zf-RanBP: Zn-finger i 44.6 9 0.00019 18.2 0.3 20 95-116 6-25 (30)
212 PF08154 NLE: NLE (NUC135) dom 43.6 61 0.0013 18.3 6.0 40 13-52 18-59 (65)
213 PF06487 SAP18: Sin3 associate 42.0 40 0.00087 21.9 3.1 61 11-71 37-120 (120)
214 cd06404 PB1_aPKC PB1 domain is 41.8 80 0.0017 19.2 6.6 45 2-47 2-47 (83)
215 PF09358 UBA_e1_C: Ubiquitin-a 41.7 37 0.0008 22.1 3.0 26 15-40 37-62 (125)
216 smart00760 Bac_DnaA_C Bacteria 41.1 15 0.00032 20.4 0.9 20 22-41 1-20 (60)
217 COG2029 Uncharacterized conser 40.7 10 0.00022 26.2 0.2 29 42-70 12-40 (189)
218 KOG1654 Microtubule-associated 40.6 44 0.00095 21.5 3.0 44 15-58 49-93 (116)
219 KOG2013 SMT3/SUMO-activating c 40.1 53 0.0011 26.8 4.1 56 13-70 445-509 (603)
220 TIGR03260 met_CoM_red_D methyl 39.2 1.1E+02 0.0023 20.8 4.8 43 13-59 76-118 (150)
221 PF13439 Glyco_transf_4: Glyco 39.1 36 0.00079 21.8 2.7 27 24-51 148-174 (177)
222 PRK05841 flgE flagellar hook p 37.9 46 0.00099 27.7 3.5 36 2-37 250-294 (603)
223 COG5222 Uncharacterized conser 36.8 1.1E+02 0.0023 23.5 5.0 36 13-48 16-54 (427)
224 PRK14890 putative Zn-ribbon RN 36.8 9.9 0.00022 21.5 -0.3 21 92-112 24-44 (59)
225 COG3369 Zinc finger domain con 35.7 17 0.00037 21.7 0.6 10 108-120 32-41 (78)
226 COG2080 CoxS Aerobic-type carb 35.6 60 0.0013 22.2 3.3 84 1-87 2-94 (156)
227 PF01282 Ribosomal_S24e: Ribos 35.4 73 0.0016 19.2 3.4 25 19-43 11-35 (84)
228 PF03658 Ub-RnfH: RnfH family 34.7 1.1E+02 0.0023 18.6 5.5 68 1-73 1-74 (84)
229 PF13085 Fer2_3: 2Fe-2S iron-s 34.6 58 0.0013 20.7 3.0 56 12-67 20-87 (110)
230 TIGR02008 fdx_plant ferredoxin 34.6 90 0.0019 19.0 3.8 26 2-27 4-29 (97)
231 PF14570 zf-RING_4: RING/Ubox 34.2 15 0.00033 19.9 0.2 16 90-105 19-34 (48)
232 PF09269 DUF1967: Domain of un 33.9 26 0.00056 20.3 1.2 16 54-69 47-62 (69)
233 PF04017 DUF366: Domain of unk 33.5 27 0.00058 24.4 1.4 30 42-71 9-38 (183)
234 cd01666 TGS_DRG_C TGS_DRG_C: 32.9 1.1E+02 0.0023 18.0 5.4 64 2-70 3-74 (75)
235 PF01187 MIF: Macrophage migra 32.9 53 0.0011 20.7 2.6 24 23-46 76-99 (114)
236 PF01577 Peptidase_S30: Potyvi 32.8 1.6E+02 0.0035 21.0 5.4 71 3-74 152-225 (245)
237 PF03147 FDX-ACB: Ferredoxin-f 32.4 73 0.0016 19.3 3.1 40 12-51 9-50 (94)
238 COG2093 DNA-directed RNA polym 32.4 33 0.00072 19.7 1.4 24 92-117 3-26 (64)
239 PF04023 FeoA: FeoA domain; I 32.0 52 0.0011 18.6 2.3 21 54-74 26-46 (74)
240 PLN02593 adrenodoxin-like ferr 31.8 1.2E+02 0.0027 19.3 4.2 27 1-27 1-27 (117)
241 PRK13552 frdB fumarate reducta 30.9 95 0.0021 22.5 4.0 24 11-34 24-47 (239)
242 PRK06393 rpoE DNA-directed RNA 30.3 36 0.00079 19.6 1.4 23 92-118 4-26 (64)
243 PF03604 DNA_RNApol_7kD: DNA d 29.9 22 0.00048 17.5 0.4 20 96-117 3-25 (32)
244 PF07929 PRiA4_ORF3: Plasmid p 29.8 1.5E+02 0.0032 20.2 4.6 28 13-40 20-47 (179)
245 cd01778 RASSF1_RA Ubiquitin-li 29.8 1.5E+02 0.0032 18.6 6.8 34 8-41 14-47 (96)
246 PF07971 Glyco_hydro_92: Glyco 29.6 1.5E+02 0.0032 24.2 5.1 57 2-72 443-499 (502)
247 PTZ00397 macrophage migration 29.5 93 0.002 19.5 3.4 25 23-47 78-102 (116)
248 TIGR03595 Obg_CgtA_exten Obg f 29.4 37 0.0008 19.6 1.3 18 53-70 46-63 (69)
249 PF06200 tify: tify domain; I 29.2 64 0.0014 16.3 2.0 13 38-50 5-17 (36)
250 PTZ00490 Ferredoxin superfamil 28.4 1.3E+02 0.0027 20.2 3.9 25 2-26 37-61 (143)
251 PF10787 YfmQ: Uncharacterised 28.1 63 0.0014 21.7 2.4 48 19-66 23-82 (149)
252 cd01668 TGS_RelA_SpoT TGS_RelA 28.1 1E+02 0.0022 16.3 6.6 55 7-70 5-59 (60)
253 PRK06959 putative threonine-ph 28.1 76 0.0017 23.8 3.2 28 19-47 52-79 (339)
254 cd01783 DAGK_delta_RA Ubiquiti 28.0 1.6E+02 0.0034 18.4 4.4 32 13-44 19-53 (97)
255 TIGR00824 EIIA-man PTS system, 27.6 1.6E+02 0.0036 18.5 4.8 40 11-50 29-73 (116)
256 PF12949 HeH: HeH/LEM domain; 27.3 49 0.0011 16.6 1.4 15 19-33 2-16 (35)
257 KOG4842 Protein involved in si 26.0 20 0.00043 26.6 -0.3 64 9-72 11-98 (278)
258 COG1978 Uncharacterized protei 25.9 1.9E+02 0.0041 19.4 4.3 34 4-37 53-86 (152)
259 PRK08453 fliD flagellar cappin 25.8 76 0.0016 26.9 3.0 24 9-32 136-159 (673)
260 KOG4261 Talin [Cytoskeleton] 25.6 1.9E+02 0.004 25.3 5.1 66 3-69 6-80 (1003)
261 PF02037 SAP: SAP domain; Int 25.1 74 0.0016 15.6 1.8 18 20-38 3-20 (35)
262 COG2888 Predicted Zn-ribbon RN 25.0 21 0.00045 20.3 -0.3 20 93-112 27-46 (61)
263 PRK08351 DNA-directed RNA poly 24.8 47 0.001 18.9 1.2 21 94-118 4-24 (61)
264 PF01361 Tautomerase: Tautomer 24.3 1.2E+02 0.0027 16.3 2.9 24 23-46 20-43 (60)
265 PF13579 Glyco_trans_4_4: Glyc 24.1 65 0.0014 20.2 1.9 21 26-47 140-160 (160)
266 PF09014 Sushi_2: Beta-2-glyco 23.9 93 0.002 19.0 2.4 39 35-74 5-43 (85)
267 PF09889 DUF2116: Uncharacteri 23.7 3.5 7.5E-05 23.4 -3.6 22 95-117 5-26 (59)
268 PF14952 zf-tcix: Putative tre 23.6 42 0.00092 17.8 0.8 22 95-116 13-34 (44)
269 PRK02220 4-oxalocrotonate taut 23.4 1.4E+02 0.003 16.1 3.0 20 26-45 24-43 (61)
270 PRK14461 ribosomal RNA large s 23.0 3.8E+02 0.0081 21.1 6.6 18 97-116 108-125 (371)
271 cd07028 RNAP_RPB3_like RPB3 su 22.8 2.6E+02 0.0056 19.9 4.9 61 1-61 1-64 (212)
272 PF02594 DUF167: Uncharacteris 22.6 90 0.002 18.5 2.2 26 22-47 41-66 (77)
273 PF00550 PP-binding: Phosphopa 22.6 1.3E+02 0.0028 16.3 2.8 29 25-62 2-30 (67)
274 PF12053 DUF3534: Domain of un 22.4 2.5E+02 0.0055 18.9 7.8 71 1-73 1-81 (145)
275 PRK13605 endoribonuclease SymE 22.4 1.1E+02 0.0024 19.7 2.6 39 2-41 57-96 (113)
276 PF11525 CopK: Copper resistan 22.3 82 0.0018 18.5 1.9 16 55-70 6-21 (73)
277 PF07984 DUF1693: Domain of un 22.2 96 0.0021 23.8 2.7 40 3-44 17-56 (320)
278 COG1918 FeoA Fe2+ transport sy 21.9 98 0.0021 18.3 2.2 23 54-76 25-47 (75)
279 PRK08640 sdhB succinate dehydr 21.8 1.6E+02 0.0035 21.5 3.8 23 11-33 23-45 (249)
280 PF01623 Carla_C4: Carlavirus 21.8 40 0.00086 20.9 0.5 25 94-118 54-80 (91)
281 PF03459 TOBE: TOBE domain; I 21.8 74 0.0016 17.4 1.6 21 53-73 39-59 (64)
282 PF12143 PPO1_KFDV: Protein of 21.7 96 0.0021 20.4 2.4 26 52-77 93-118 (130)
283 PF14178 YppF: YppF-like prote 21.5 1.1E+02 0.0025 17.3 2.3 21 21-41 1-21 (60)
284 PRK01964 4-oxalocrotonate taut 21.3 1.6E+02 0.0035 16.1 3.0 20 26-45 24-43 (64)
285 smart00547 ZnF_RBZ Zinc finger 21.1 43 0.00093 14.9 0.5 20 95-116 4-23 (26)
286 PLN02248 cellulose synthase-li 21.1 41 0.00089 30.0 0.6 23 90-112 149-171 (1135)
287 PTZ00450 macrophage migration 21.1 1.5E+02 0.0032 18.9 3.1 24 24-47 79-102 (113)
288 TIGR02609 doc_partner putative 20.9 91 0.002 18.1 2.0 21 52-72 15-35 (74)
289 PF12563 Hemolysin_N: Hemolyti 20.9 1.9E+02 0.004 20.4 3.7 41 10-50 76-122 (187)
290 PF14420 Clr5: Clr5 domain 20.8 1.3E+02 0.0028 16.3 2.4 23 17-39 17-39 (54)
291 PHA00689 hypothetical protein 20.8 46 0.00099 18.2 0.6 19 103-124 13-31 (62)
292 PRK09555 feoA ferrous iron tra 20.7 1.2E+02 0.0026 17.7 2.4 23 54-76 24-46 (74)
293 PRK07570 succinate dehydrogena 20.4 2.9E+02 0.0064 20.2 4.9 23 11-33 20-43 (250)
294 cd05484 retropepsin_like_LTR_2 20.2 2E+02 0.0044 16.9 3.8 43 9-51 8-54 (91)
295 KOG4361 BCL2-associated athano 20.1 35 0.00076 26.3 0.0 59 13-71 73-137 (344)
296 PF04014 Antitoxin-MazE: Antid 20.1 1.1E+02 0.0024 15.9 2.0 18 55-72 15-32 (47)
297 TIGR01003 PTS_HPr_family Phosp 20.1 2E+02 0.0044 16.9 4.1 34 38-71 30-65 (82)
No 1
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.5e-44 Score=222.36 Aligned_cols=128 Identities=93% Similarity=1.349 Sum_probs=126.0
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCCCCc
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEP 80 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~~~~ 80 (128)
|+++++.+.|++..++++|++||..+|+.|....|+|++.|+|+|+|+.|+|..||++|||+..+||+++.+++||.++|
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~i~~ 80 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEP 80 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCCCCh
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHhhccchhhhhhhhcccCCcccccccccCCCCCCCcccCcCC
Q 033059 81 SLMALARKYNQDKMICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK 128 (128)
Q Consensus 81 ~~~~~a~k~~~~k~~Cr~c~~r~~~~~~~c~~~~c~~~~~~~~~~~~~ 128 (128)
+++++|.|+++++.+||.||+|.++.|.|||++||||++.+||||++|
T Consensus 81 ~~aalAmK~~~D~lICRkCYAR~g~~Ae~CRK~~~~~~~~~rp~K~lK 128 (128)
T KOG0003|consen 81 SLAALAMKYNCDKLICRKCYARLGPRAENCRKKKCGHTNQLRPKKKLK 128 (128)
T ss_pred hHHHHHHHhccchHHHHHHHHhcCcHHHHhHHhhccchhhcChhhhcC
Confidence 999999999999999999999999999999999999999999999987
No 2
>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=99.90 E-value=2.1e-23 Score=125.40 Aligned_cols=74 Identities=41% Similarity=0.618 Sum_probs=71.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+||.. +++.++|++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++++||
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 89999973 789999999999999999999999999999999999999999999999999999999999999987
No 3
>PTZ00044 ubiquitin; Provisional
Probab=99.90 E-value=4.4e-23 Score=124.41 Aligned_cols=76 Identities=50% Similarity=0.822 Sum_probs=74.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+|+..+|+++.+++++++||++||++|++.+|+|++.|+|+|+|+.|+|+.+|++|+++++++|+++++++||
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999886
No 4
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=99.89 E-value=8.3e-23 Score=122.75 Aligned_cols=73 Identities=36% Similarity=0.653 Sum_probs=71.1
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+++++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999875
No 5
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.89 E-value=1.3e-22 Score=122.07 Aligned_cols=76 Identities=96% Similarity=1.322 Sum_probs=74.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+|+..+|+++.+++++++||++||++|++.+++|+++|+|+|+|+.|+|+.+|++|++++|++|+++++++||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 6
>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=99.89 E-value=1.1e-22 Score=129.23 Aligned_cols=76 Identities=51% Similarity=0.763 Sum_probs=74.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+|+..+|+++.++|++++||.+||++|++..|+|++.|+|+|+|+.|+|+.+|++|+|+++++|+++++++||
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 7
>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=99.89 E-value=2e-22 Score=121.25 Aligned_cols=76 Identities=55% Similarity=0.965 Sum_probs=74.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+|+..+|+++.+++++++||.+||++|++..++|+++|+|+|+|+.|+|+.+|++|+|++|++|+++++++||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999887
No 8
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 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 family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=99.88 E-value=6.8e-24 Score=115.57 Aligned_cols=51 Identities=86% Similarity=1.398 Sum_probs=38.5
Q ss_pred CCchhHHHHHhhccchhhhhhhhcccCCcccccccccCCCCCCCcccCcCC
Q 033059 78 IEPSLMALARKYNQDKMICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK 128 (128)
Q Consensus 78 ~~~~~~~~a~k~~~~k~~Cr~c~~r~~~~~~~c~~~~c~~~~~~~~~~~~~ 128 (128)
++|++.++|+++++++++||.||+|++++|++||+++|||||+|||||++|
T Consensus 2 iePsl~~la~K~n~~k~ICrkCyarl~~~A~nCRKkkCGhsn~LR~Kkk~k 52 (52)
T PF01020_consen 2 IEPSLRALAQKYNCDKMICRKCYARLPPRATNCRKKKCGHSNNLRPKKKLK 52 (52)
T ss_dssp --HHHHHHHHHHHTS-EEETTT--EE-TTSSS-TSSSCTS-S-EEE--SS-
T ss_pred cChHHHHHHHHHcccceecccccCcCCCCccceecccCCCCcccCcccccC
Confidence 689999999999999999999999999999999999999999999999986
No 9
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.88 E-value=3.9e-22 Score=120.97 Aligned_cols=76 Identities=25% Similarity=0.496 Sum_probs=73.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
|+|+|+...|+.+.+++++++||.+||++|++..++|+++|+|+|+|+.|+|+ +|++|||++|++|+++..++||-
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~ 77 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL 77 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence 89999999999999999999999999999999999999999999999999998 99999999999999999998883
No 10
>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=99.88 E-value=4.2e-22 Score=119.66 Aligned_cols=74 Identities=32% Similarity=0.618 Sum_probs=71.9
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+++.|+++.+++++++||.+||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.||
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999886
No 11
>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=99.87 E-value=1.2e-21 Score=118.75 Aligned_cols=74 Identities=36% Similarity=0.634 Sum_probs=70.4
Q ss_pred CEEEEEeCCCCE-EEEE-ecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 1 MQIFVKTLTGKT-ITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 1 m~i~vk~~~g~~-~~i~-v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
|+|+|++.+|++ +.++ +++++||.+||++|++.+|+|++.|+|+|+|+.|+|+.+|++|||+++++|++++++.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 6885 8999999999999999999999999999999999999999999999999999999864
No 12
>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=99.87 E-value=1e-21 Score=117.52 Aligned_cols=71 Identities=24% Similarity=0.378 Sum_probs=68.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|+|+|++..|+++.+++++++||++||++|++..++|+++|+|+|+|+.|+|+.+|++|||++|++|++.-
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999999999999999999999999999999999999999999999999999999999863
No 13
>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=99.86 E-value=5.6e-21 Score=115.40 Aligned_cols=73 Identities=38% Similarity=0.705 Sum_probs=70.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCC--CCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~i--p~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|+|+|++.+|+++.+++++++||.+||++|++.+++ |+++|+|+|+|+.|+|+.+|++|||++|++|+++++.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~ 75 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK 75 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence 899999999999999999999999999999999999 9999999999999999999999999999999998864
No 14
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.84 E-value=1.8e-20 Score=111.66 Aligned_cols=72 Identities=44% Similarity=0.704 Sum_probs=69.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
|+|+|+..+|+++.+++++++||.+||++|++.+|+|++.|+|+|+|+.|+|+.+|++||+++|++|+++.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 899999999999999999999999999999999999999999999999999999999999999999998764
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=99.84 E-value=1.5e-20 Score=111.66 Aligned_cols=70 Identities=39% Similarity=0.733 Sum_probs=67.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
|+|+..+|+++.+++++++||.+||++|++..|+|+++|+|+|+|++|+|+.+|++|||+++++|+++.|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 5789999999999999999999999999999999999999999999999999999999999999999864
No 16
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.83 E-value=1.8e-20 Score=111.40 Aligned_cols=68 Identities=37% Similarity=0.581 Sum_probs=65.7
Q ss_pred EEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 4 FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 4 ~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
.|+..+|+++.+++++++||.+||++|++..|+|+++|+|+|+|++|+|+.+|++|+|+++++|+|++
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 57888999999999999999999999999999999999999999999999999999999999999986
No 17
>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=99.83 E-value=2.7e-20 Score=113.41 Aligned_cols=73 Identities=32% Similarity=0.431 Sum_probs=70.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE--EeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L--~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|+|+|+...|+++.++++++.||.+||++|++..++|+++|+| +|+|+.|+|+.+|++|||++|++|+++++.
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 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 7899999999999999999999999999999999999999999 899999999999999999999999999874
No 18
>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=99.83 E-value=5e-20 Score=108.97 Aligned_cols=69 Identities=57% Similarity=0.970 Sum_probs=65.6
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 6 k~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
|+.+|+++.++|++++||.+||++|++.+++|++.|+|+|+|+.|+|+.+|++|||++|++|+++++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 567899999999999999999999999999999999999999999999999999999999999998753
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=99.82 E-value=9.4e-20 Score=108.57 Aligned_cols=71 Identities=34% Similarity=0.489 Sum_probs=67.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
|+|+|++..|+ ..+++++++||.+||++|++..++|+++|+|+|+|+.|+|+.+|++|||++|++|+++++
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-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999987 589999999999999999999999999999999999999999999999999999999864
No 20
>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=99.82 E-value=6.9e-20 Score=110.56 Aligned_cols=70 Identities=33% Similarity=0.656 Sum_probs=67.1
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCC
Q 033059 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 8 ~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
++|+++.+++++++||.+||++|++.+|+|++.|+|+|+|+.|+|+.+|++|+|++|++|+|+++++||.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~ 74 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR 74 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence 4688999999999999999999999999999999999999999999999999999999999999999874
No 21
>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=99.79 E-value=1.2e-18 Score=107.76 Aligned_cols=76 Identities=18% Similarity=0.467 Sum_probs=74.1
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|.|++.+|+.+.+.|.+++|+..|++++++..|+|++.|+|+|+|+.|+++.|+++|++++|++|+++++++||
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG 87 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG 87 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999997
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=99.79 E-value=6.6e-19 Score=104.96 Aligned_cols=68 Identities=35% Similarity=0.543 Sum_probs=63.8
Q ss_pred EEEEeC-CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCC-CccccccccCCcEEEEE
Q 033059 3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLV 70 (128)
Q Consensus 3 i~vk~~-~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~-~~L~~~gi~~g~~i~v~ 70 (128)
|+|+.. +|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|||++|++|++.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 578888 899999999999999999999999999999999999999999887 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=99.78 E-value=9.1e-19 Score=104.05 Aligned_cols=70 Identities=29% Similarity=0.469 Sum_probs=66.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|+|+|++. |+.+.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999996 88999999999999999999999999999999999999999999999999999999998863
No 24
>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=99.78 E-value=1.3e-18 Score=104.39 Aligned_cols=69 Identities=23% Similarity=0.427 Sum_probs=65.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe---CCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~---~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|.|.|++ +|+++.++|++++||++||++|++.+++|+++|+|+| .|+.|.|+.+|++|+|++|+.|+|+
T Consensus 1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 6789987 6789999999999999999999999999999999996 8999999999999999999999886
No 25
>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=99.78 E-value=1.2e-18 Score=105.15 Aligned_cols=71 Identities=24% Similarity=0.251 Sum_probs=63.2
Q ss_pred CEEEEEeCCCCEEEE--EecCCCcHHHHHHHHHhhhC--CCCCCeEEEeCCEEcCCCCcccccc--ccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITL--EVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYN--IQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i--~v~~~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~~L~d~~~L~~~g--i~~g~~i~v~~ 71 (128)
|.|+||+++++.+.+ ++++++||.+||++|++..+ .|++.|+|+|+|++|+|+.+|++|. +.++.+||++.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 579999999988555 55899999999999999874 5579999999999999999999996 99999999974
No 26
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=5.7e-18 Score=95.06 Aligned_cols=70 Identities=54% Similarity=0.911 Sum_probs=67.7
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|.|.|++++|+.+.++++|+++|+.+|+.|+++.||||..|+|+|.|+.+.|+.+-++|.+.-||++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 7899999999999999999999999999999999999999999999999999999999999999999874
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.72 E-value=2.8e-17 Score=95.33 Aligned_cols=64 Identities=61% Similarity=0.864 Sum_probs=61.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCc
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES 65 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~ 65 (128)
|+|+|++.+ ..+.++|++++||++||++|++.+++|+++|+|+|+|+.|.|+.+|++|||++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 899999998 7899999999999999999999999999999999999999999999999999875
No 28
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=4.4e-18 Score=112.95 Aligned_cols=77 Identities=95% Similarity=1.308 Sum_probs=75.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
|+|+|+.+.+++..+++.+++||..+|+.|+...+||+++|+|+|.|+.|+|..+|+||+|+..++|+++++++||.
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA 77 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999994
No 29
>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=99.70 E-value=7.8e-17 Score=122.53 Aligned_cols=74 Identities=30% Similarity=0.588 Sum_probs=70.9
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhC---CCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~---ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
|+|+||+.+|+++.|+|++++||.+||++|+...| +|+++|+|+|+|++|+|+.+|++|+|+++++|++++...
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccC
Confidence 89999999999999999999999999999999998 999999999999999999999999999999999988753
No 30
>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=99.66 E-value=5.4e-16 Score=93.20 Aligned_cols=64 Identities=30% Similarity=0.372 Sum_probs=58.4
Q ss_pred eCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcC-CCCcccccccc-CCcEEEEEE
Q 033059 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQ-KESTLHLVL 71 (128)
Q Consensus 7 ~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~-d~~~L~~~gi~-~g~~i~v~~ 71 (128)
...|.++.++|++++||++||++|++.+|+|++.|+| |+|+.|. |+.+|++||++ +|+++++.+
T Consensus 9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 3457889999999999999999999999999999999 9999885 77999999998 889999875
No 31
>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=99.62 E-value=3.2e-15 Score=87.73 Aligned_cols=67 Identities=67% Similarity=0.992 Sum_probs=63.5
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 5 vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|+..+|+.+.+.+++++||.+||++|+..+++|+++|+|+|+|+.|+|+.+|++|++.++++|+++.
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 6777899999999999999999999999999999999999999999999999999999999999864
No 32
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.61 E-value=9e-16 Score=91.52 Aligned_cols=55 Identities=33% Similarity=0.549 Sum_probs=49.7
Q ss_pred ecC-CCcHHHHHHHHHhhh--CCC-CCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 17 VES-SDTIDNVKAKIQDKE--GIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 17 v~~-~~tV~~LK~~i~~~~--~ip-~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|+| ++||.+||++|+++. +++ +++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 444 789999999999996 465 8999999999999999999999999999999875
No 33
>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=99.61 E-value=5.6e-15 Score=87.95 Aligned_cols=71 Identities=34% Similarity=0.633 Sum_probs=65.9
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-CCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|+|+|++.+|+.+.+.|.+++++..|.+.+++..++|+ +.++|+|+|+.|+++.|+++||+++|++|+|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 68999999999999999999999999999999999999 999999999999999999999999999999874
No 34
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.60 E-value=1.9e-15 Score=116.20 Aligned_cols=75 Identities=36% Similarity=0.565 Sum_probs=70.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
++|+||+.++ +++|.|..+.||.+||++|+..++++++.++|+|.|++|+|+.+|..|||++|.||||+++..-.
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~ 90 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPR 90 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCC
Confidence 4699999887 89999999999999999999999999999999999999999999999999999999999986543
No 35
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=99.58 E-value=7.8e-16 Score=82.66 Aligned_cols=41 Identities=49% Similarity=0.763 Sum_probs=37.7
Q ss_pred HHHHHhhccchhhhhhhhcccCCcccccccccCCCCCCCcccCc
Q 033059 83 MALARKYNQDKMICRKCYARLHPRAVNCRKKKCGHSNQLRPKKK 126 (128)
Q Consensus 83 ~~~a~k~~~~k~~Cr~c~~r~~~~~~~c~~~~c~~~~~~~~~~~ 126 (128)
-.+|.++.+++++|+.||+|++++|++||+ ||| ++||||++
T Consensus 4 ~~~A~k~~~~k~ICrkC~ARnp~~A~~CRK--Cg~-~~LRpKkk 44 (48)
T PRK04136 4 FEEAEKRVFNKKICMRCNARNPWRATKCRK--CGY-KNLRPKAK 44 (48)
T ss_pred hHHHHHHhhcccchhcccCCCCcccccccc--CCC-CCcCcccc
Confidence 467899999999999999999999999996 997 69999986
No 36
>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=99.56 E-value=1.2e-14 Score=90.14 Aligned_cols=62 Identities=27% Similarity=0.314 Sum_probs=57.4
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcC-CCCccccccccCCcEEEEEEee
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~-d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
...++|++++||.+||.+|.+.+++||++|+|+|+|+.|. |..||++|||.++++|.+.+..
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 4678899999999999999999999999999999999985 5789999999999999998854
No 37
>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=99.56 E-value=5.4e-15 Score=93.91 Aligned_cols=75 Identities=24% Similarity=0.325 Sum_probs=63.4
Q ss_pred EEEEEeCCCCEE-EEEecCCCcHHHHHHHHHhhh-----CCC--CCCeEEEeCCEEcCCCCcccccc------ccCCcEE
Q 033059 2 QIFVKTLTGKTI-TLEVESSDTIDNVKAKIQDKE-----GIP--PDQQRLIFAGKQLEDGRTLADYN------IQKESTL 67 (128)
Q Consensus 2 ~i~vk~~~g~~~-~i~v~~~~tV~~LK~~i~~~~-----~ip--~~~q~L~~~g~~L~d~~~L~~~g------i~~g~~i 67 (128)
.|.+|..+|..+ .+.+++++||++||++|++.. ++| +++|+|+|+|++|+|+.||++|+ +....|+
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 567787888654 477889999999999999655 344 99999999999999999999999 6777899
Q ss_pred EEEEeecCC
Q 033059 68 HLVLRLRGG 76 (128)
Q Consensus 68 ~v~~~~~gg 76 (128)
||+++....
T Consensus 86 Hvvlr~~~~ 94 (113)
T cd01814 86 HVVVQPPLA 94 (113)
T ss_pred EEEecCCCC
Confidence 999987554
No 38
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.52 E-value=3.5e-14 Score=104.59 Aligned_cols=74 Identities=38% Similarity=0.657 Sum_probs=71.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhC--CCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
|+|+||++.+.+|.+++.|+.||.++|..|+...| .|++.|+|+|+|++|.|+.++.+|+|.++..|.|++...
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 89999999999999999999999999999999998 999999999999999999999999999999999988765
No 39
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=99.48 E-value=1.5e-14 Score=77.75 Aligned_cols=44 Identities=59% Similarity=0.952 Sum_probs=39.3
Q ss_pred hHHHHHhhccchhhhhhhhcccCCcccccccccCCCCCCCcccCcCC
Q 033059 82 LMALARKYNQDKMICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK 128 (128)
Q Consensus 82 ~~~~a~k~~~~k~~Cr~c~~r~~~~~~~c~~~~c~~~~~~~~~~~~~ 128 (128)
..+.+.+....+.+|+.||+++|++|++||+ || +++||||++.|
T Consensus 3 ~~~~a~~r~~~kkIC~rC~Arnp~~A~kCRk--C~-~k~LR~K~kek 46 (50)
T COG1552 3 RFAEAEKRLFNKKICRRCYARNPPRATKCRK--CG-YKNLRPKKKEK 46 (50)
T ss_pred hHHHHHHHHhhHHHHHHhcCCCCcchhHHhh--cc-CCCcccccccc
Confidence 4467888899999999999999999999997 95 88999999863
No 40
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.46 E-value=7.2e-13 Score=81.27 Aligned_cols=70 Identities=21% Similarity=0.379 Sum_probs=58.8
Q ss_pred EEEEEeCC-CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCE-----Ec-CCCCccccccccCCcEEEEEE
Q 033059 2 QIFVKTLT-GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK-----QL-EDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 2 ~i~vk~~~-g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~-----~L-~d~~~L~~~gi~~g~~i~v~~ 71 (128)
.|.|.+.. ....+..+++++||.+||++++..+|+||+.|+|. |.|+ .| +|+.+|++||+++|.+|||+-
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence 56676543 34456679999999999999999999999999995 8887 46 678899999999999999863
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.37 E-value=4.6e-12 Score=78.14 Aligned_cols=69 Identities=28% Similarity=0.571 Sum_probs=57.0
Q ss_pred EEEEEeCCC--CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeC----C---EEc-CCCCccccccccCCcEEEEE
Q 033059 2 QIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----G---KQL-EDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 2 ~i~vk~~~g--~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~----g---~~L-~d~~~L~~~gi~~g~~i~v~ 70 (128)
+|+|.+... ...+..+++++||++||.+|+..+|+|++.|+|.+. + ..+ +|+.+|.+||+++|.+|+|.
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence 577776654 488899999999999999999999999999999865 2 134 57889999999999999986
No 42
>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=99.36 E-value=4.5e-12 Score=80.41 Aligned_cols=80 Identities=30% Similarity=0.453 Sum_probs=67.0
Q ss_pred CEEEEEeCCC-CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccc-------cCCcEEEEEEe
Q 033059 1 MQIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR 72 (128)
Q Consensus 1 m~i~vk~~~g-~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi-------~~g~~i~v~~~ 72 (128)
|.+++..... .++.++..++.||.+||+.|+.....||++|+|+..+.+|+|++||++||+ ++.++|-+.+|
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 4556655443 457789999999999999999999999999999977789999999999999 77889999988
Q ss_pred ecCCCCCc
Q 033059 73 LRGGIIEP 80 (128)
Q Consensus 73 ~~gg~~~~ 80 (128)
...|.|++
T Consensus 81 ~~d~~fE~ 88 (119)
T cd01788 81 SSDDTFEP 88 (119)
T ss_pred cCCCCccc
Confidence 76665443
No 43
>PLN02560 enoyl-CoA reductase
Probab=99.30 E-value=1.2e-11 Score=92.17 Aligned_cols=75 Identities=31% Similarity=0.514 Sum_probs=64.4
Q ss_pred CEEEEEeCCCCEE---EEEecCCCcHHHHHHHHHhhhCC-CCCCeEEEeC---C----EEcCCCCccccccccCCcEEEE
Q 033059 1 MQIFVKTLTGKTI---TLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIFA---G----KQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 1 m~i~vk~~~g~~~---~i~v~~~~tV~~LK~~i~~~~~i-p~~~q~L~~~---g----~~L~d~~~L~~~gi~~g~~i~v 69 (128)
|+|+|+..+|+.+ ++++++++||++||++|++..++ ++++|+|.+. | ..|+|+++|+++|+++|++|+
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy- 79 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV- 79 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE-
Confidence 8999998888886 79999999999999999999886 8999999973 3 378999999999999999864
Q ss_pred EEeecCCC
Q 033059 70 VLRLRGGI 77 (128)
Q Consensus 70 ~~~~~gg~ 77 (128)
++-.|-.
T Consensus 80 -~kDLGpQ 86 (308)
T PLN02560 80 -FKDLGPQ 86 (308)
T ss_pred -EEeCCCc
Confidence 4666553
No 44
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.29 E-value=3.7e-11 Score=77.16 Aligned_cols=75 Identities=29% Similarity=0.481 Sum_probs=56.2
Q ss_pred EEEEEeCCCC-EEEEEecCCCcHHHHHHHHHhhhC-------CCCCCeEEEeCCEEcCCCCccccccccCCc------EE
Q 033059 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEG-------IPPDQQRLIFAGKQLEDGRTLADYNIQKES------TL 67 (128)
Q Consensus 2 ~i~vk~~~g~-~~~i~v~~~~tV~~LK~~i~~~~~-------ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~------~i 67 (128)
.|.++..+|. .-.+.+++++||.+||+.|...+. ..++++||+|.|+.|+|+.+|+++.+..|+ ++
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 5677777998 788999999999999999987652 234679999999999999999999987766 57
Q ss_pred EEEEeecCC
Q 033059 68 HLVLRLRGG 76 (128)
Q Consensus 68 ~v~~~~~gg 76 (128)
||+++....
T Consensus 84 Hlvvrp~~~ 92 (111)
T PF13881_consen 84 HLVVRPNAP 92 (111)
T ss_dssp EEEE-SSSS
T ss_pred EEEecCCCC
Confidence 777765543
No 45
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=2.9e-11 Score=99.73 Aligned_cols=76 Identities=33% Similarity=0.552 Sum_probs=71.3
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGII 78 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~~ 78 (128)
.|.||+++.++.+|.|...+||.+||.+|.+..+|+.+.|||+|.|++|.|++++.+|+| +|-+|||+-|.+-+.+
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp~~~ 79 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPPQTH 79 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCCCcc
Confidence 478999999999999999999999999999999999999999999999999999999999 9999999998665543
No 46
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.21 E-value=2.6e-10 Score=66.76 Aligned_cols=73 Identities=84% Similarity=1.145 Sum_probs=68.0
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecC
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~g 75 (128)
+++....|+++.+.+.+..+|..+|.+|+...++|+..|++.+.|+.|.|+.+|.+|+|..++++++..++.+
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~ 74 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG 74 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence 5667788999999999999999999999999999999999999999999999999999999999999987753
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=99.17 E-value=1.3e-10 Score=70.07 Aligned_cols=68 Identities=29% Similarity=0.388 Sum_probs=53.8
Q ss_pred EEEEEeCCCCEE-EEEe-cCCCcHHHHHHHHHhhhC-CCCCCeEEE--eCCEEcCCCCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTI-TLEV-ESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~-~i~v-~~~~tV~~LK~~i~~~~~-ip~~~q~L~--~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
+|.++..+.+.+ .+++ +++.||.+||..|++..+ +++++|+|. +.|+.|.|+.+|++||+.+|++|+|
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 456665541332 2344 478999999999999876 589999885 8899999999999999999999876
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=99.11 E-value=1.8e-10 Score=69.96 Aligned_cols=69 Identities=29% Similarity=0.434 Sum_probs=44.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC---EEc--CCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQL--EDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g---~~L--~d~~~L~~~gi~~g~~i~v~ 70 (128)
|-|.|++.+| .+.|++++++|+.+|+++|++.+++|.+.|.|..+. ..+ .++.+|+++||+.|+.|++.
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 5688999887 688999999999999999999999999998885322 244 46889999999999999874
No 49
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=99.06 E-value=2.2e-09 Score=72.63 Aligned_cols=103 Identities=27% Similarity=0.435 Sum_probs=78.0
Q ss_pred CEEEEEeCCC----CEEEEEecCCCcHHHHHHHHHhhhCCCCCCe-EEEe-CCEEc--CCCCccccccccCC----cEEE
Q 033059 1 MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLIF-AGKQL--EDGRTLADYNIQKE----STLH 68 (128)
Q Consensus 1 m~i~vk~~~g----~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q-~L~~-~g~~L--~d~~~L~~~gi~~g----~~i~ 68 (128)
|+|+|.+.+| .++.+.+++++||.+|+..|.+..++++..+ .|.+ .++.| .++..++++.-.+. -++.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~ 80 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR 80 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence 7899999999 5888999999999999999999999998874 3443 34444 45666666654333 4788
Q ss_pred EEEeecCCC--CCchhHHHHHhh----ccchhhhhhhhccc
Q 033059 69 LVLRLRGGI--IEPSLMALARKY----NQDKMICRKCYARL 103 (128)
Q Consensus 69 v~~~~~gg~--~~~~~~~~a~k~----~~~k~~Cr~c~~r~ 103 (128)
+.++++||+ |...+++.+.+. ..++..|||..+|=
T Consensus 81 l~~rl~GGKGGFGs~Lr~~g~~~s~~k~~n~dscRdL~GRR 121 (162)
T PF13019_consen 81 LSLRLRGGKGGFGSQLRAAGGRMSSKKTTNFDSCRDLSGRR 121 (162)
T ss_pred EEEeccCCCccHHHHHHHHHHHhhcccCCCcccccCCCCcC
Confidence 999999995 778888765444 44456899988653
No 50
>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=98.94 E-value=1e-08 Score=57.41 Aligned_cols=66 Identities=45% Similarity=0.659 Sum_probs=59.9
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 6 k~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
+..++....+.+.+++|+.+|++.|.+.++++++.+.|.++|..+.+...+.++++.++++|++..
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 344678888999999999999999999999999999999999999998888899999999998864
No 51
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=2.6e-08 Score=61.91 Aligned_cols=75 Identities=17% Similarity=0.442 Sum_probs=69.7
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
++.|+..++.+..+.|..++++..|+...++..|++.+.++++|+|+.+.+..|-++++.++|+.|.++..+.||
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG 96 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGG 96 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccC
Confidence 566777667788899999999999999999999999999999999999999999999999999999999998888
No 52
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=3.1e-09 Score=60.83 Aligned_cols=69 Identities=26% Similarity=0.398 Sum_probs=61.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
++.+...-|+...+...+++||+++|..|++++|..++.+.|--.+..++|.-+|++|.|.+|..+.+.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 456666668899999999999999999999999999999988877778899999999999999888775
No 53
>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=98.70 E-value=1.7e-07 Score=55.23 Aligned_cols=70 Identities=29% Similarity=0.407 Sum_probs=60.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeC---C--EEcCCCCccccccccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA---G--KQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~---g--~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
++|+|+..++..+.+.|+|..+|..+|++|....+++- .|+|.|. | ..|.+..+|++|||-....|-++-
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lle 75 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLE 75 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEe
Confidence 58999998888999999999999999999999999875 8999873 3 367899999999998887776654
No 54
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=8.3e-08 Score=74.12 Aligned_cols=72 Identities=24% Similarity=0.408 Sum_probs=65.1
Q ss_pred EEEEEeCCCCEEEEE-ecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 2 QIFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~-v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
.|.|++ .|+.+.++ ++.++|+..||+++...+|++|++|++++.|..+.|+-.+..++|++|.+|+++-...
T Consensus 5 ~v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 5 TVIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred eEeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 477776 57888887 9999999999999999999999999999999999999899999999999999886543
No 55
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.1e-07 Score=70.48 Aligned_cols=70 Identities=30% Similarity=0.599 Sum_probs=59.9
Q ss_pred CEEEEEeC---CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTL---TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~---~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|.+.|+.. ....+.++|+.+.+|.+||+.++...|+|+++.+++|.|+.|.|+.++..+.+..-+.++++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence 66777654 12357889999999999999999999999999999999999999999998777777777766
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=98.40 E-value=4.4e-07 Score=56.01 Aligned_cols=62 Identities=29% Similarity=0.435 Sum_probs=49.9
Q ss_pred CEEEEEeCCC-CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe-CC-EEcCCCCcccccccc
Q 033059 1 MQIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AG-KQLEDGRTLADYNIQ 62 (128)
Q Consensus 1 m~i~vk~~~g-~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~-~g-~~L~d~~~L~~~gi~ 62 (128)
|.++++.... .++.++..++.||.+||.+++..+.-|++.|+|+. .. +.|+|.++|+++|..
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence 3445544433 45778899999999999999999999999999986 43 578999999999763
No 57
>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=98.35 E-value=1.6e-06 Score=52.37 Aligned_cols=68 Identities=24% Similarity=0.405 Sum_probs=48.9
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCC------CeEEE-eCCEEcCCCCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD------QQRLI-FAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~------~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
.|+|...+|+.+.+.++.+.+|.+|...|.+..+.+.. ...|. -+|..|+++.+|+++||.+|+.+.+
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 46676655688999999999999999999998876432 24555 6789999999999999999999976
No 58
>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=98.26 E-value=1.9e-05 Score=47.78 Aligned_cols=68 Identities=24% Similarity=0.361 Sum_probs=58.1
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCC-eEEE--eCCEEcCCC--CccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI--FAGKQLEDG--RTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~-q~L~--~~g~~L~d~--~~L~~~gi~~g~~i~v 69 (128)
.|.||.++|..+...+.+++||.+|.+.|......+... ..|+ |..+.+.++ .+|++.|+.+.++|+|
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 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 588999999999999999999999999998887766654 7776 677888543 6999999999999876
No 59
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=2e-06 Score=52.54 Aligned_cols=76 Identities=17% Similarity=0.371 Sum_probs=68.2
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
.+.|...+|.++.+.|..+++...|....+...|-..+..|++|+|+.++.++|-.+++.++++.|.++....||.
T Consensus 26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~ 101 (103)
T COG5227 26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101 (103)
T ss_pred ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence 3556566788899999999999999999999999999999999999999999999999999999998887777773
No 60
>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=98.19 E-value=1.2e-05 Score=46.77 Aligned_cols=63 Identities=19% Similarity=0.252 Sum_probs=46.8
Q ss_pred eCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEE
Q 033059 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 7 ~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
..+++.+.+.+.|++++.++-++...++++++++-.|.|+++.|+-+.++.-.|+.+|+.+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 457889999999999999999999999999999999999999999999999999999999875
No 61
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=98.09 E-value=1.2e-05 Score=50.46 Aligned_cols=58 Identities=21% Similarity=0.352 Sum_probs=44.4
Q ss_pred EEEEEeCCC-CEEEEEec--CCCcHHHHHHHHHhhhC--CCCCCeEEEeCCEEcCCCCccccc
Q 033059 2 QIFVKTLTG-KTITLEVE--SSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 2 ~i~vk~~~g-~~~~i~v~--~~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~~L~d~~~L~~~ 59 (128)
.|+|+..++ ..+.++++ .+.||..||+.|.+... ..-.+++|+|+|+.|.|...|+..
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 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence 366776652 34666666 78999999999999873 444678999999999998877654
No 62
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=98.08 E-value=4.4e-05 Score=46.06 Aligned_cols=68 Identities=22% Similarity=0.260 Sum_probs=56.2
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcCC---CCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~d---~~~L~~~gi~~g~~i~v 69 (128)
+|.||.++|..+...+..++||.+|.+.|....+.......|+ |..+.+.+ +.+|.+.|+.+.+++.|
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 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 5889999999999999999999999999966666666667775 66777753 57999999988888765
No 63
>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=97.93 E-value=0.00016 Score=43.67 Aligned_cols=67 Identities=16% Similarity=0.324 Sum_probs=55.1
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcCC---CCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~d---~~~L~~~gi~~g~~i~v 69 (128)
.|.||.++|..+...++.++||.+|.+.|....+-+ ....|+ |-.+.+.+ +.+|.+.|+.+.++|.|
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 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 588999999999999999999999999998765432 456665 77888853 57999999999888876
No 64
>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=97.86 E-value=0.0002 Score=43.27 Aligned_cols=66 Identities=21% Similarity=0.313 Sum_probs=52.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCC-CCCCeEEE--eCCEEcC-CCCccccccccCCcEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI-PPDQQRLI--FAGKQLE-DGRTLADYNIQKESTL 67 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~i-p~~~q~L~--~~g~~L~-d~~~L~~~gi~~g~~i 67 (128)
+|.||..+|+.+...+..++||.+|.+.|....+- ......|. |-.+.|. ++.||.|.|+.+...+
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence 58899999999999999999999999999876543 23456665 7778785 4789999999864433
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=97.85 E-value=0.00022 Score=42.63 Aligned_cols=66 Identities=15% Similarity=0.265 Sum_probs=51.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcC---CCCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~---d~~~L~~~gi~~g~~i~v 69 (128)
.|.||.++|..+...+..++||.+|.+.|.....- .....|+ |-.+.+. ++.+|.+.|+.+ +.+.+
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~ 74 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ 74 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence 58899999999999999999999999999876433 4556665 6677774 478999999995 44433
No 66
>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=97.83 E-value=0.00031 Score=42.72 Aligned_cols=69 Identities=16% Similarity=0.316 Sum_probs=58.9
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcC---CCCccccccccCCcEEEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~---d~~~L~~~gi~~g~~i~v~~ 71 (128)
+|.||.++|+...-.+..+.++.+|...+.. .+.+++...|+ |--+.+. .+.||.+.|+.+.++|.|--
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-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 5899999999999999999999999999988 57788888887 6677763 35799999999999997753
No 67
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.77 E-value=0.00025 Score=41.90 Aligned_cols=64 Identities=19% Similarity=0.254 Sum_probs=53.7
Q ss_pred EeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-----CCeEEEeCCEEcCCCCccccccccCCcEEEE
Q 033059 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-----DQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 6 k~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-----~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
+..+|.++.+.++...++..|-..+.+...+.. ..++..-+++.|.++..|.+|+|.+|+.+.+
T Consensus 12 t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 12 TNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 555789999999999999999888877665432 3468889999999999999999999999875
No 68
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=97.72 E-value=9.4e-05 Score=53.42 Aligned_cols=75 Identities=27% Similarity=0.335 Sum_probs=54.5
Q ss_pred CEEEEEeCCCC-EE-EEEecCCCcHHHHHHHHHhh-hCCCCCCeE----EEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTLTGK-TI-TLEVESSDTIDNVKAKIQDK-EGIPPDQQR----LIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~~g~-~~-~i~v~~~~tV~~LK~~i~~~-~~ip~~~q~----L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|.|++.+.++. .. ....+...|+.|+++.+... ..+.+.+++ +.-+|+.|-|+.+|++|+..+|++|. ++-
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~--vKD 78 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIY--VKD 78 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEE--Eec
Confidence 78899887653 22 35667789999999877655 456664443 34579999999999999999997774 555
Q ss_pred cCCC
Q 033059 74 RGGI 77 (128)
Q Consensus 74 ~gg~ 77 (128)
.|..
T Consensus 79 LGpQ 82 (297)
T KOG1639|consen 79 LGPQ 82 (297)
T ss_pred cCCc
Confidence 5553
No 69
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.65 E-value=0.00012 Score=51.51 Aligned_cols=65 Identities=28% Similarity=0.431 Sum_probs=57.5
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
.++.+.+.+...+|+.++|..+.+..++++-.|+++|+|.+|.|...|.+++|+.|....|.+..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviV 219 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIV 219 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEe
Confidence 35567888888999999999999999999999999999999999999999999999766655544
No 70
>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=97.62 E-value=0.00091 Score=40.48 Aligned_cols=68 Identities=21% Similarity=0.329 Sum_probs=57.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcC---CCCccccccccCCcEEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~---d~~~L~~~gi~~g~~i~v~ 70 (128)
+|.||.++|....-.+..++++++|...|... +.++...+|+ |--+.+. .+.+|.+.|+.+..+|.|-
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-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 68899999999999999999999999999775 7777788887 6677773 3579999999999888764
No 71
>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=97.61 E-value=0.00095 Score=40.86 Aligned_cols=68 Identities=12% Similarity=0.183 Sum_probs=54.9
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe--CCEEcC--------CCCccccccccCCcEEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLE--------DGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~--~g~~L~--------d~~~L~~~gi~~g~~i~v~ 70 (128)
+|.||.++|+.+.-.+..++||++|...|... +..++...|+. --+.+. .+.||.+.|+.+..++.|.
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~ 83 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ 83 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence 68899999999999999999999999999653 44567788874 446774 3679999999988887653
No 72
>PRK06437 hypothetical protein; Provisional
Probab=97.43 E-value=0.0026 Score=37.14 Aligned_cols=59 Identities=20% Similarity=0.404 Sum_probs=46.6
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+++...+++++..||.+|-+++ +++++...+..+|..+. .++-+++|+.|.++.-.-||
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~L----gi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKDL----GLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 4566788888889999987654 88889998999999997 45567789999987655444
No 73
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=0.00067 Score=47.79 Aligned_cols=71 Identities=15% Similarity=0.297 Sum_probs=55.2
Q ss_pred EEEEEeCCCC-EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCC-----EEcC-CCCccccccccCCcEEEEEEe
Q 033059 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAG-----KQLE-DGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 2 ~i~vk~~~g~-~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g-----~~L~-d~~~L~~~gi~~g~~i~v~~~ 72 (128)
.|.|.+.... ..+..+++++||.+||.+++..+|.+++.|.|. |.| ..|+ ++..|..|+..+|-.||++=.
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~ 81 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDS 81 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEec
Confidence 4566543222 244568899999999999999999999999986 655 2454 577999999999999998643
No 74
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=97.33 E-value=0.0029 Score=36.54 Aligned_cols=65 Identities=18% Similarity=0.389 Sum_probs=46.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+.+.+ + ..||.+|.+.+ +++++...+-.|++.+. ...-++.-+++|+.|.++.-..||
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEEeccCC
Confidence 67777 5666665 3 46899988765 66676677789999885 223345567899999988766665
No 75
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=97.17 E-value=0.0065 Score=35.67 Aligned_cols=56 Identities=13% Similarity=0.238 Sum_probs=43.7
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
...+++++..||.+|-+++ +++++...+..||+.+.. +.-+++|+.|.++.-..||
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEccccCC
Confidence 5678888889999998766 677777788899999854 4456789999987665554
No 76
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=97.11 E-value=0.0072 Score=37.15 Aligned_cols=66 Identities=20% Similarity=0.244 Sum_probs=47.0
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe--C--C-EEc-CCCCccccccccCCcEEEEEEeecCCC
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF--A--G-KQL-EDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~--~--g-~~L-~d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
..+...++..+||..+...+.+.+.| ..+.||.- . + ..| +.+.||.+.||.+|.+|.+-.+...|.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DGt 85 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDGT 85 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS-
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCCC
Confidence 35677899999999999999999999 67778863 2 2 256 456799999999999999998887774
No 77
>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=96.97 E-value=0.00019 Score=53.43 Aligned_cols=76 Identities=18% Similarity=0.428 Sum_probs=0.0
Q ss_pred EEEEEeCCCCEEEEEec---C--CCcHHHHHHHHHh----------hhCCCCCCeE-----EEeCCEEcCCCCccccccc
Q 033059 2 QIFVKTLTGKTITLEVE---S--SDTIDNVKAKIQD----------KEGIPPDQQR-----LIFAGKQLEDGRTLADYNI 61 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~---~--~~tV~~LK~~i~~----------~~~ip~~~q~-----L~~~g~~L~d~~~L~~~gi 61 (128)
.|++++..+..+.+.++ + +.||.+||..+++ ..++|.+.++ |+|+-+++.|.++|.+..-
T Consensus 80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~ 159 (309)
T PF12754_consen 80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLA 159 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHh
Confidence 45666665555544433 3 5789999999999 8899999998 9999999999999888754
Q ss_pred c-------CCcEEEEEEeecCCC
Q 033059 62 Q-------KESTLHLVLRLRGGI 77 (128)
Q Consensus 62 ~-------~g~~i~v~~~~~gg~ 77 (128)
. .+.+|.+.+...||.
T Consensus 160 ~~~~~l~~~~~~vE~gvMVlGGa 182 (309)
T PF12754_consen 160 DSESRLLSGGKEVEFGVMVLGGA 182 (309)
T ss_dssp -----------------------
T ss_pred cccchhccCCceEEEEEEEECCc
Confidence 3 477888888888885
No 78
>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=96.94 E-value=0.0067 Score=36.07 Aligned_cols=60 Identities=13% Similarity=0.228 Sum_probs=45.5
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCC----CCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGI----PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~i----p~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
...+++++..||.+|.+.+...++- ......+..||+.... +.-+++|+.|.++....||
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEeCCCCCC
Confidence 4667787789999999999887532 2345667789998873 4557889999998777665
No 79
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=96.88 E-value=0.0064 Score=36.61 Aligned_cols=71 Identities=18% Similarity=0.268 Sum_probs=48.4
Q ss_pred CEEEEEeCC------C-CEEEEEecCCCcHHHHHHHHHhhhC-CCC--CCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~~------g-~~~~i~v~~~~tV~~LK~~i~~~~~-ip~--~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|+|.|+... | ....++++...||.+|.+.+..... +.. ....+..||+...++ .-+++|++|.++
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~-----~~l~dgDeVai~ 76 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTES-----AALKDGDELAII 76 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCC-----cCcCCCCEEEEe
Confidence 567777653 3 4567788888999999999976541 111 223466788876543 346789999988
Q ss_pred EeecCC
Q 033059 71 LRLRGG 76 (128)
Q Consensus 71 ~~~~gg 76 (128)
....||
T Consensus 77 PpvsGG 82 (82)
T PLN02799 77 PPISGG 82 (82)
T ss_pred CCCCCC
Confidence 766665
No 80
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=96.87 E-value=0.009 Score=34.53 Aligned_cols=64 Identities=19% Similarity=0.314 Sum_probs=46.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCC-CCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED-GRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d-~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+. .++++..|+.+|-+. .++++...-+.+++..+.. ++. .+ +++|+.|.++.-..||
T Consensus 1 m~i~v---NG~~--~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~--~~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 1 MIVVV---NEEQ--VEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWA--TK-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CEEEE---CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhh--hh-cCCCCEEEEEeeccCC
Confidence 66766 4654 444567888888665 4888999999999998853 333 35 8999999987665554
No 81
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=96.82 E-value=0.0028 Score=37.96 Aligned_cols=57 Identities=23% Similarity=0.312 Sum_probs=46.4
Q ss_pred ecCCCcHHHHHHHHHhhhC-CCCCCeEEEeCCEEcCCCCccccc-cccCCcEEEEEEee
Q 033059 17 VESSDTIDNVKAKIQDKEG-IPPDQQRLIFAGKQLEDGRTLADY-NIQKESTLHLVLRL 73 (128)
Q Consensus 17 v~~~~tV~~LK~~i~~~~~-ip~~~q~L~~~g~~L~d~~~L~~~-gi~~g~~i~v~~~~ 73 (128)
|.++++|.++++.+..... ..-....|.++|..|+|...|+++ |+++|.++.++..+
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p 59 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP 59 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence 5678999999999987644 344567899999999998889888 58889999988543
No 82
>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=96.70 E-value=0.0098 Score=36.45 Aligned_cols=44 Identities=14% Similarity=0.278 Sum_probs=38.1
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC---CCeEEEe
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLIF 45 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~---~~q~L~~ 45 (128)
...++.+.|+.+.+.+.+++.+.+|++.|++++|++. +...|.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 3567888999999999999999999999999999886 4666666
No 83
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.00076 Score=50.71 Aligned_cols=60 Identities=23% Similarity=0.398 Sum_probs=45.8
Q ss_pred EEEEEeCCCC--EEEEEecCCCcHHHHHHHHHhhhCC-C-CCCeEEEeCCEEcCCCCccccccc
Q 033059 2 QIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEGI-P-PDQQRLIFAGKQLEDGRTLADYNI 61 (128)
Q Consensus 2 ~i~vk~~~g~--~~~i~v~~~~tV~~LK~~i~~~~~i-p-~~~q~L~~~g~~L~d~~~L~~~gi 61 (128)
.++|+..+.+ ...|..+..+||++||..++..+-- | +.+|||+|.|+.|.|..-|.|.=+
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lr 74 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLR 74 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHH
Confidence 4677776643 3556666789999999999887642 2 367999999999999888877643
No 84
>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=96.62 E-value=0.012 Score=35.49 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=35.3
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEE
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ 49 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~ 49 (128)
++.|.+++..+..+|.++|.++.++|++.+.|.|....
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~ 49 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEA 49 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence 88999999999999999999999999999999997654
No 85
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=96.61 E-value=0.039 Score=31.89 Aligned_cols=66 Identities=15% Similarity=0.258 Sum_probs=45.5
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+. +++++..||.+|-+.+ +++.....+-.++..+..+ .-++.-+++|+.|.++.-..||
T Consensus 1 m~i~v---Ng~~--~~~~~~~tl~~ll~~l----~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 1 MQILF---NDQP--MQCAAGQTVHELLEQL----NQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CEEEE---CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence 67777 4554 4456678999988654 5556667888999988521 2233347899999988766665
No 86
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=96.59 E-value=0.036 Score=31.82 Aligned_cols=66 Identities=20% Similarity=0.387 Sum_probs=46.4
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+. +++++..||.+|-+. .++++....+.++|..+.-+. -.+.-+++|+.|.++.-..||
T Consensus 1 m~i~v---NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 1 MNIQL---NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVHALGGG 66 (66)
T ss_pred CEEEE---CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEEEecCC
Confidence 66666 5654 456677898888754 478888888889998885322 223346889999988766554
No 87
>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=96.56 E-value=0.031 Score=33.18 Aligned_cols=67 Identities=25% Similarity=0.312 Sum_probs=50.2
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-CCeEEEe----CC--EEcCCCCcccccccc--CCcEEEEEE
Q 033059 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF----AG--KQLEDGRTLADYNIQ--KESTLHLVL 71 (128)
Q Consensus 5 vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-~~q~L~~----~g--~~L~d~~~L~~~gi~--~g~~i~v~~ 71 (128)
|+.++|....+++++++|+.+|-+.|.+..++.. +..-|.+ +| .-|+.+++|.++... ...++++.+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~frv 76 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFRV 76 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEEE
Confidence 5678999999999999999999999999999764 3456777 23 246788899998877 333444443
No 88
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=96.38 E-value=0.056 Score=31.40 Aligned_cols=66 Identities=18% Similarity=0.255 Sum_probs=45.6
Q ss_pred CEEEEEeCCCCEEEEEecCC-CcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESS-DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~-~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+.+ ++++. .||.+|-+. .++++...-+.++|..+.-+ .-+++-+++|+.|.++.-..||
T Consensus 1 m~I~v---NG~~~--~~~~~~~tv~~lL~~----l~~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 1 MNLKI---NGNQI--EVPESVKTVAELLTH----LELDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred CEEEE---CCEEE--EcCCCcccHHHHHHH----cCCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEEEecCC
Confidence 66766 56644 45554 678887654 47888888888999998532 3344557899999987655554
No 89
>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=96.33 E-value=0.028 Score=33.00 Aligned_cols=63 Identities=14% Similarity=0.259 Sum_probs=49.2
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhC--CCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
...+.+....||.+|.+.+...+. .......+..||+...+ .-.+.-+++|+.|.++....||
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence 567788899999999999987763 12366788899999987 3555667899999998777665
No 90
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=96.32 E-value=0.046 Score=32.68 Aligned_cols=60 Identities=17% Similarity=0.294 Sum_probs=44.4
Q ss_pred EEEEEecCC-CcHHHHHHHHHhhhC-C-C-CCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 12 TITLEVESS-DTIDNVKAKIQDKEG-I-P-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 12 ~~~i~v~~~-~tV~~LK~~i~~~~~-i-p-~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
...++++++ .||.+|.+.+.+.+. + . .....+..|++...+ +.-|++|+.|.++....||
T Consensus 17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence 357888877 899999999988764 1 1 133567788888775 3567889999998777665
No 91
>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=96.30 E-value=0.034 Score=33.77 Aligned_cols=47 Identities=11% Similarity=0.140 Sum_probs=37.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-CCeEEEeCCE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAGK 48 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-~~q~L~~~g~ 48 (128)
|+|.+.. +|..+.+.++++.+..+|+++|+..+++.. ..+.|.|...
T Consensus 1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Dd 48 (82)
T cd06407 1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDD 48 (82)
T ss_pred CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECC
Confidence 4556643 677899999999999999999999999875 6777877543
No 92
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=96.29 E-value=0.075 Score=30.35 Aligned_cols=65 Identities=22% Similarity=0.290 Sum_probs=43.2
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
|+|+| +|+ .+++++..||.+|-+.+ +++ ....+..+|.....+. -.+.-+++|++|.++....||
T Consensus 1 m~i~v---Ng~--~~~~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 1 MDIQL---NQQ--TLSLPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CEEEE---CCE--EEECCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 66666 454 45566778999998766 333 3466778999875321 122337789999998776665
No 93
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=96.27 E-value=0.028 Score=31.75 Aligned_cols=56 Identities=18% Similarity=0.297 Sum_probs=40.9
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
|+|.| +| ..+++..+.|+.+||.++... .+ .++++|-+..++..| ++|+.|.++-|
T Consensus 1 M~I~v---N~--k~~~~~~~~tl~~lr~~~k~~-----~D-I~I~NGF~~~~d~~L-----~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKV---NE--KEIETEENTTLFELRKESKPD-----AD-IVILNGFPTKEDIEL-----KEGDEVFLIKK 56 (57)
T ss_pred CEEEE---CC--EEEEcCCCcCHHHHHHhhCCC-----CC-EEEEcCcccCCcccc-----CCCCEEEEEeC
Confidence 67777 33 457788889999999887542 22 578999998877655 56899988743
No 94
>PRK07440 hypothetical protein; Provisional
Probab=96.25 E-value=0.06 Score=31.58 Aligned_cols=61 Identities=20% Similarity=0.348 Sum_probs=43.6
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+|+. +++.+..||.+|-+. .++++...-+.++|..+.- ..-.+.-+++|+.|.++.-..||
T Consensus 10 NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 10 NGET--RTCSSGTSLPDLLQQ----LGFNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred CCEE--EEcCCCCCHHHHHHH----cCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEEEecCC
Confidence 5554 566677899988754 4778888888999998852 22334457889999987666554
No 95
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=96.23 E-value=0.054 Score=33.02 Aligned_cols=61 Identities=11% Similarity=0.242 Sum_probs=43.6
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+|+. .++++..||.+|-+. .++++...-+-.||..+. ...-++.-+++||.|.++.-..||
T Consensus 24 NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 24 NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEEEecCC
Confidence 4543 445567888888665 478888888889999984 334455568899999988766554
No 96
>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=96.19 E-value=0.04 Score=31.67 Aligned_cols=58 Identities=21% Similarity=0.390 Sum_probs=42.7
Q ss_pred EEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 14 ~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
.++++...||.+|.+.+ +++++...+..+|+.+..+ .-.+.-+++|+.|.++.-..||
T Consensus 8 ~~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 8 PREVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred EEEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEEeccCC
Confidence 45566778999998776 5778888888999988543 2223457899999988766665
No 97
>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=96.06 E-value=0.054 Score=32.89 Aligned_cols=62 Identities=13% Similarity=0.286 Sum_probs=44.3
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCC------C-----CCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGI------P-----PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~i------p-----~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
....++++ ..||.+|.+.+.+.+.- . -....+..||+...++.. .-+++|+.|.++....||
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG 88 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence 34567776 89999999999877531 1 123567789988764432 567899999998877775
No 98
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=96.05 E-value=0.011 Score=44.89 Aligned_cols=70 Identities=21% Similarity=0.323 Sum_probs=58.6
Q ss_pred CEEEEEeC--CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCC--CCccccccccCCcEEEEE
Q 033059 1 MQIFVKTL--TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED--GRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~--~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d--~~~L~~~gi~~g~~i~v~ 70 (128)
|.++|... ....+.+++..+..+..|+..++..++++.+..-|+|+++.+.+ ...|.++|+..++.+.+-
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 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 55555444 45678889999999999999999999999999999999999964 568999999999888553
No 99
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=96.00 E-value=0.05 Score=31.38 Aligned_cols=64 Identities=23% Similarity=0.487 Sum_probs=49.6
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhh---CCCCCCeEEE-eCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKE---GIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~---~ip~~~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
+|+...++..++..+.-..++--+.. +-|++...|. -+|..|+-++.++|||+.++-++.+.++
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 57777888888777666665554443 4678877776 6889999999999999999999887765
No 100
>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=95.99 E-value=0.062 Score=30.78 Aligned_cols=61 Identities=20% Similarity=0.391 Sum_probs=43.1
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+|+. ++++...||.+|.+.+ +++++...+..+|+.+..+ .-.++-+++|+.|.++.-..||
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEEeccCC
Confidence 4443 4556778999998765 5677778888999988422 2233457899999988766665
No 101
>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=95.92 E-value=0.051 Score=33.09 Aligned_cols=62 Identities=19% Similarity=0.352 Sum_probs=44.0
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
+...++-..+++.||..++.+.+++-+.-.+...+..|+++++|-+-+++-...|.+.+...
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi~ 66 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQIK 66 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEEE
Confidence 34456667899999999999999999988898899889999999999998888888777643
No 102
>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=95.44 E-value=0.11 Score=30.90 Aligned_cols=45 Identities=16% Similarity=0.334 Sum_probs=37.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
.|.++. ++....+.++++.|..+|+.+|.+.++.+.+...|.|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 355554 567888999999999999999999999887788888874
No 103
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=95.08 E-value=0.2 Score=37.96 Aligned_cols=68 Identities=19% Similarity=0.250 Sum_probs=50.8
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCCC
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGII 78 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~~ 78 (128)
|+|+| +|+. +++++..||.+|-+. .+++++.+.+.+||+.+.- ..-.++-+++|+.|.++.-..||.+
T Consensus 1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~~VgGGs~ 68 (326)
T PRK11840 1 MRIRL---NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVHFVGGGSD 68 (326)
T ss_pred CEEEE---CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEEEecCCCC
Confidence 66776 4554 556677898888765 4888899999999999952 2334455889999999888888864
No 104
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=95.07 E-value=0.33 Score=28.36 Aligned_cols=67 Identities=19% Similarity=0.426 Sum_probs=46.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
.+++.. +|+ .++++...|+++|-+.+ +++++..-+.+||..+..+ .-++.-+++|+.|.++--..||
T Consensus 2 ~m~i~~-ng~--~~e~~~~~tv~dLL~~l----~~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 2 PMTIQL-NGK--EVEIAEGTTVADLLAQL----GLNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred cEEEEE-CCE--EEEcCCCCcHHHHHHHh----CCCCceEEEEECCEEccch-hhhhccccCCCEEEEEEeecCC
Confidence 344433 344 56666668999987664 8888888889999998643 2234556788999887655554
No 105
>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=94.45 E-value=0.78 Score=31.65 Aligned_cols=72 Identities=28% Similarity=0.373 Sum_probs=51.6
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCC-CeEEEeC---C---EEcCCCCcccccccc-CCcEEEEEEee
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIFA---G---KQLEDGRTLADYNIQ-KESTLHLVLRL 73 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~-~q~L~~~---g---~~L~d~~~L~~~gi~-~g~~i~v~~~~ 73 (128)
.|.|..++|....+.+++++|+.++-+.++.+.|++.. ..-|.+- + .-|+...+|.+.... ....+++-.+.
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr~r~ 84 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFRVKF 84 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEEEEE
Confidence 57788889999999999999999999999999998542 2344431 1 245666777776654 34456665554
No 106
>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=94.40 E-value=0.37 Score=29.50 Aligned_cols=51 Identities=18% Similarity=0.259 Sum_probs=38.9
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCcc
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 56 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L 56 (128)
+|.|.. .|....+.|+++.+..+|.++|...+++. ..+.|.|... .|--|+
T Consensus 4 kVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE--GD~iti 54 (86)
T cd06408 4 RVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD--GDMITM 54 (86)
T ss_pred EEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC--CCCccc
Confidence 444433 57789999999999999999999999985 5677777665 444444
No 107
>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=94.14 E-value=0.58 Score=27.63 Aligned_cols=45 Identities=22% Similarity=0.315 Sum_probs=38.8
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
+.|-.++|+...+.+.|.+||.++-+.+.++.++.++.--+.+.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 456678999999999999999999999999999999887666543
No 108
>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=94.10 E-value=0.39 Score=38.08 Aligned_cols=71 Identities=14% Similarity=0.164 Sum_probs=54.7
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCC----C--CCCeEEE-eCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI----P--PDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~i----p--~~~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
+|+|...+ +..++-++.+..|.||--.|-...+- + +..-.|. .+|.+|+.+.+|.+.||.||+.+++....
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~~ 81 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPAS 81 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeCC
Confidence 46776543 55788888999999999999887753 1 2223444 57889999999999999999999988643
No 109
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=93.68 E-value=0.17 Score=38.99 Aligned_cols=65 Identities=20% Similarity=0.314 Sum_probs=50.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhC-CCCCCeEEE--eCCEEcC-CCCccccccccCCcE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLE-DGRTLADYNIQKEST 66 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~-ip~~~q~L~--~~g~~L~-d~~~L~~~gi~~g~~ 66 (128)
.|.|+..+|.-....+..+.||.+++..|...-. -+...+.|+ |--+.|. |+.||++-|+.+-..
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl 375 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL 375 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence 4788889998888899999999999999977654 334456665 7778885 577999999876533
No 110
>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=93.55 E-value=0.45 Score=28.05 Aligned_cols=45 Identities=22% Similarity=0.335 Sum_probs=35.5
Q ss_pred EEEEEeCCCCEEEEEec-CCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 2 QIFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~-~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
.|.++. +|....+.++ .+.|..+|+++|.+.++.+.....|.|.+
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence 455554 3567888888 89999999999999999887666776654
No 111
>smart00455 RBD Raf-like Ras-binding domain.
Probab=93.52 E-value=0.53 Score=27.58 Aligned_cols=49 Identities=22% Similarity=0.322 Sum_probs=41.6
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC--EEcC
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g--~~L~ 51 (128)
+.|-.++|+...+.+.|..||.|+-+.+-++.|+.++...+...| +.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccee
Confidence 345667899999999999999999999999999999998888755 4554
No 112
>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=93.50 E-value=0.49 Score=28.42 Aligned_cols=36 Identities=11% Similarity=0.250 Sum_probs=32.7
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
++.+.+.+..+..+|..+|++++..+++..+|.|..
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 567788899999999999999999999999999864
No 113
>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=93.33 E-value=0.5 Score=28.07 Aligned_cols=44 Identities=20% Similarity=0.397 Sum_probs=35.2
Q ss_pred EEEEeCCCCEEE-EEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 3 IFVKTLTGKTIT-LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 3 i~vk~~~g~~~~-i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
|.+.. ++.... +.+.++.|..+|...|++.++.+.....|.|.+
T Consensus 4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 44444 445555 899999999999999999999998888888853
No 114
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=93.11 E-value=1 Score=26.88 Aligned_cols=57 Identities=12% Similarity=0.220 Sum_probs=37.1
Q ss_pred EEecC-CCcHHHHHHHHHhhhC-----CCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 15 LEVES-SDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 15 i~v~~-~~tV~~LK~~i~~~~~-----ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+++++ ..||.+|++.+.+++. ......++..|+....+ +.-+++|+.|.++....||
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG 81 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEeCCCCCC
Confidence 44443 4799999999987752 12233445556654433 2347889999988777665
No 115
>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=92.93 E-value=0.88 Score=27.54 Aligned_cols=41 Identities=17% Similarity=0.301 Sum_probs=31.9
Q ss_pred EEEEEeCCCCEEEEEecC--CCcHHHHHHHHHhhhCCCCCCeEEEe
Q 033059 2 QIFVKTLTGKTITLEVES--SDTIDNVKAKIQDKEGIPPDQQRLIF 45 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~--~~tV~~LK~~i~~~~~ip~~~q~L~~ 45 (128)
.|.+. .+|.+..+.+++ +.+..+|+++|+..++++ .+.|-|
T Consensus 2 ~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY 44 (81)
T cd06396 2 NLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY 44 (81)
T ss_pred EEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence 34453 367888899998 779999999999999998 444444
No 116
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.84 E-value=0.21 Score=37.88 Aligned_cols=57 Identities=12% Similarity=0.199 Sum_probs=46.0
Q ss_pred EEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe---CCEE-----cCCCCccccccccCCcEEEEE
Q 033059 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQ-----LEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 14 ~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~---~g~~-----L~d~~~L~~~gi~~g~~i~v~ 70 (128)
...|.-+-||.|++..+....|+.+.+|+|+| .|+. .+.++.|-.|.|++|+.+.+-
T Consensus 351 s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 351 SGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred ceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 34455567999999999999999999999986 3442 345788999999999998664
No 117
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=92.32 E-value=0.98 Score=27.29 Aligned_cols=53 Identities=19% Similarity=0.386 Sum_probs=41.1
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCEEcCCCCccccccccCCcEEEEEE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
+..+...+++..||.++-+. .|+|..+.-++ -||+..+-+ |-+++|+.|.+..
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence 34577888899999888655 59999888665 699887654 5667899998864
No 118
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=92.19 E-value=0.63 Score=34.44 Aligned_cols=68 Identities=18% Similarity=0.283 Sum_probs=52.5
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcC--C-CCccccccccCCcEEEE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE--D-GRTLADYNIQKESTLHL 69 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~--d-~~~L~~~gi~~g~~i~v 69 (128)
.|.|+.++|+++..++.+..|+.+++..|.-..+.......|. |--..+. | .++|..+++.+.+++.+
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 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 4788999999999999999999999999988877655444443 4444452 2 57899999988877743
No 119
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=92.14 E-value=0.4 Score=29.33 Aligned_cols=55 Identities=16% Similarity=0.280 Sum_probs=29.1
Q ss_pred Eec-CCCcHHHHHHHHH-hhhCCCCCCe----EEEeCCEE----cCCCCccccccccCCcEEEEE
Q 033059 16 EVE-SSDTIDNVKAKIQ-DKEGIPPDQQ----RLIFAGKQ----LEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 16 ~v~-~~~tV~~LK~~i~-~~~~ip~~~q----~L~~~g~~----L~d~~~L~~~gi~~g~~i~v~ 70 (128)
.++ ..+|+.+|-+.|- .+.|.....+ .++|.... -..+++|+++||.+|+.+.+.
T Consensus 3 ~~d~~~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 3 KVDTKKMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp EE-TTT-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred EEechhCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 344 3689999998874 4566543332 33333322 112578999999999988763
No 120
>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=92.01 E-value=0.85 Score=27.41 Aligned_cols=48 Identities=21% Similarity=0.474 Sum_probs=35.4
Q ss_pred CcHHHHHHHHHhhhCCCCCCeEEEe--CCEEcCCCCccccccccCCcEEEEEE
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~L~~--~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
.++.+|+.+..+.++++....+|+. .|..++|+..+..+ . ..|+.|++
T Consensus 21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p-~nT~lm~L 70 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL--P-DNTVLMLL 70 (78)
T ss_dssp SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS--S-SSEEEEEE
T ss_pred CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC--C-CCCEEEEE
Confidence 5899999999999999987777775 78899888666554 3 34554444
No 121
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=92.01 E-value=0.61 Score=30.39 Aligned_cols=55 Identities=22% Similarity=0.521 Sum_probs=38.9
Q ss_pred EecC-CCcHHHHHHHHHhhh----CCCC------CCeEEEeC----------------C-EEc---CCCCccccccccCC
Q 033059 16 EVES-SDTIDNVKAKIQDKE----GIPP------DQQRLIFA----------------G-KQL---EDGRTLADYNIQKE 64 (128)
Q Consensus 16 ~v~~-~~tV~~LK~~i~~~~----~ip~------~~q~L~~~----------------g-~~L---~d~~~L~~~gi~~g 64 (128)
.|+. ++||.+|++.+.+.. +++| +.++|.+. . ..| +++.+|.++||.+.
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 3775 899999999887664 4554 23444321 1 356 67889999999999
Q ss_pred cEEEEE
Q 033059 65 STLHLV 70 (128)
Q Consensus 65 ~~i~v~ 70 (128)
..|-+.
T Consensus 101 TEiSfF 106 (122)
T PF10209_consen 101 TEISFF 106 (122)
T ss_pred ceeeee
Confidence 988765
No 122
>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=91.89 E-value=1.8 Score=26.77 Aligned_cols=45 Identities=16% Similarity=0.304 Sum_probs=34.0
Q ss_pred EEEEeCCCCEEEEEecC-----CCcHHHHHHHHHhhhCCCC-CCeEEEeCCE
Q 033059 3 IFVKTLTGKTITLEVES-----SDTIDNVKAKIQDKEGIPP-DQQRLIFAGK 48 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~-----~~tV~~LK~~i~~~~~ip~-~~q~L~~~g~ 48 (128)
|.|.. +|....|.++. +.+..+|+++|++.+++++ ....|.|...
T Consensus 3 vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~De 53 (91)
T cd06398 3 VKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDE 53 (91)
T ss_pred EEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECC
Confidence 44433 56666777774 7999999999999999987 5677777653
No 123
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=91.81 E-value=0.24 Score=32.29 Aligned_cols=57 Identities=16% Similarity=0.246 Sum_probs=41.4
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccc---cCCcEEEEEE
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVL 71 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi---~~g~~i~v~~ 71 (128)
+-|+.+.||+++...|..+.+++++..-|+.++..+..+.+++++-- .++.-+++.-
T Consensus 45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Y 104 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSV 104 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEE
Confidence 36899999999999999999999998656667766666667765421 2244555544
No 124
>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=91.42 E-value=1.2 Score=27.78 Aligned_cols=40 Identities=18% Similarity=0.249 Sum_probs=33.3
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEe
Q 033059 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF 45 (128)
Q Consensus 5 vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~ 45 (128)
++..+|++..+.|+.+.|..+|+.++++.++++.. +.|.|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 34557888999999999999999999999998876 55544
No 125
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=90.81 E-value=0.77 Score=38.23 Aligned_cols=42 Identities=24% Similarity=0.460 Sum_probs=37.5
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEc
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL 50 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L 50 (128)
+...+.+.++++.|+..|++.|...+|+|.+.|.|+|.|...
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~~ 364 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGLS 364 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCcc
Confidence 456788899999999999999999999999999999987643
No 126
>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=90.54 E-value=0.88 Score=27.69 Aligned_cols=55 Identities=16% Similarity=0.282 Sum_probs=37.3
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCC-------CeEEEeCCE-EcC------CCCccccccccCCcEEEEE
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPD-------QQRLIFAGK-QLE------DGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~-------~q~L~~~g~-~L~------d~~~L~~~gi~~g~~i~v~ 70 (128)
|++++++|+.+|-+.+.+...+... .-.|++.+- .|+ =+++|.++ +.+|+.|.|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 5789999999999999887433322 234444332 121 25789999 9999998874
No 127
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=90.18 E-value=1.6 Score=34.31 Aligned_cols=70 Identities=21% Similarity=0.260 Sum_probs=53.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhh--CCCCCCeEEEe----CCEE--cCCCCccccccccCCcEEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIF----AGKQ--LEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~--~ip~~~q~L~~----~g~~--L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
|-+.+|+..| ...+++.++++++.|-.+|-.-+ +..|+.+.+.- .|.. +..++++.++|++.|.++++-.
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-QRRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCC-ceeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 6788888777 48899999999999988886654 35566666653 2332 3467899999999999998876
No 128
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=90.01 E-value=2 Score=30.52 Aligned_cols=48 Identities=21% Similarity=0.329 Sum_probs=30.1
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCC---CeEEE--eCCEE---cCCCCccccc
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPD---QQRLI--FAGKQ---LEDGRTLADY 59 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~---~q~L~--~~g~~---L~d~~~L~~~ 59 (128)
.+.+-|+.+.||.||.+.+..+.+++.+ .++|+ ++++. +..+.+|.++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 4778899999999999999999998765 55654 67763 5667777665
No 129
>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=89.83 E-value=0.85 Score=36.99 Aligned_cols=64 Identities=36% Similarity=0.532 Sum_probs=42.0
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhh--CCC------CCCeEEEe--C--CE-EcCCC-------------CccccccccCC
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKE--GIP------PDQQRLIF--A--GK-QLEDG-------------RTLADYNIQKE 64 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~--~ip------~~~q~L~~--~--g~-~L~d~-------------~~L~~~gi~~g 64 (128)
..+.+.|-..+||.++|++|-... +.| ++++-|.+ + |. .|.|. .||++|+|.+|
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg 281 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDG 281 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TT
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCC
Confidence 457788889999999999996542 343 34455532 2 23 55543 36999999999
Q ss_pred cEEEEEEeec
Q 033059 65 STLHLVLRLR 74 (128)
Q Consensus 65 ~~i~v~~~~~ 74 (128)
++|.++.+..
T Consensus 282 a~vaLv~k~~ 291 (539)
T PF08337_consen 282 ATVALVPKQH 291 (539)
T ss_dssp EEEEEEES--
T ss_pred ceEEEeeccc
Confidence 9999998764
No 130
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=89.43 E-value=3 Score=24.73 Aligned_cols=61 Identities=21% Similarity=0.268 Sum_probs=48.0
Q ss_pred EEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 14 ~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
.+.|+++.....+-...++++++|+..--++ -.|--+...++-..+=++.|+.+.++.|-+
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRDr 80 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRDR 80 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccccc
Confidence 3578877777777777889999998776665 556677888888888889999998887654
No 131
>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=89.42 E-value=2.2 Score=25.79 Aligned_cols=45 Identities=13% Similarity=0.175 Sum_probs=35.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
+..|+. +|.+..+.++..-|...|+++|...+.+|+...-+.|-.
T Consensus 2 ~fKv~~-~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiD 46 (82)
T cd06397 2 QFKSSF-LGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYID 46 (82)
T ss_pred eEEEEe-CCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEc
Confidence 345543 566777888888899999999999999999888777743
No 132
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=89.20 E-value=1.7 Score=25.84 Aligned_cols=39 Identities=18% Similarity=0.372 Sum_probs=31.6
Q ss_pred CcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcCCCCccccc
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLADY 59 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~d~~~L~~~ 59 (128)
.|+.+|+.+..+.++++....+|+ -.|..++|+..+..+
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tL 59 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTL 59 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcC
Confidence 579999999999999997666665 489999888766654
No 133
>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=89.20 E-value=3 Score=24.37 Aligned_cols=56 Identities=20% Similarity=0.242 Sum_probs=40.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeC--CEEcCCCCcccc
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLEDGRTLAD 58 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~--g~~L~d~~~L~~ 58 (128)
+.|..++|+...+.+.|..||.+.-..+-+..++.++...+... .+.|+-+...+.
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~ 60 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSS 60 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceee
Confidence 45677899999999999999999999999999999988766543 446654444433
No 134
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=89.11 E-value=0.17 Score=23.72 Aligned_cols=22 Identities=41% Similarity=0.966 Sum_probs=19.5
Q ss_pred hhhhhhhcccCCcccccccccCCC
Q 033059 94 MICRKCYARLHPRAVNCRKKKCGH 117 (128)
Q Consensus 94 ~~Cr~c~~r~~~~~~~c~~~~c~~ 117 (128)
..|..|+..+..++.+|.. ||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~--CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPN--CGA 24 (26)
T ss_pred CCCcccCCcCCcccccChh--hCC
Confidence 4699999999999999997 984
No 135
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=88.39 E-value=0.87 Score=28.48 Aligned_cols=36 Identities=33% Similarity=0.616 Sum_probs=25.9
Q ss_pred EEEeCCEEcCCCCccccc-cccCCcEEEEEEeecCCC
Q 033059 42 RLIFAGKQLEDGRTLADY-NIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 42 ~L~~~g~~L~d~~~L~~~-gi~~g~~i~v~~~~~gg~ 77 (128)
.|.|.|+.|..+.+|++| |-.+-+.|.|-+..+|.+
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~g~g 39 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKRGQG 39 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccCCCC
Confidence 578999999999999999 233445555555556654
No 136
>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=88.17 E-value=3.1 Score=24.67 Aligned_cols=61 Identities=16% Similarity=0.343 Sum_probs=39.6
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhC-CCCCCeEE-----E-eCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRL-----I-FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~-ip~~~q~L-----~-~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
+.|-.-.+++.|+++|+..|.+++. +.|+...+ . -.|--|+.+-.+.+. ...+++|.++++
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~cDLD~d~~V~DV-f~~~~~vrvi~~ 70 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGCDLDPDFLVKDV-FNSNNVVRVILK 70 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCCCCCcccEeeee-eccCCEEEEEec
Confidence 3466667899999999999998875 33433222 1 234455556566554 346778877765
No 137
>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=87.80 E-value=2 Score=26.60 Aligned_cols=59 Identities=20% Similarity=0.374 Sum_probs=35.3
Q ss_pred EecCCCcHHHHHHHHHhhhCCCCCCeEEEe-CCE------Ec-CCC--Ccc--ccccccCCcEEEEEEeecCC
Q 033059 16 EVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AGK------QL-EDG--RTL--ADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 16 ~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~-~g~------~L-~d~--~~L--~~~gi~~g~~i~v~~~~~gg 76 (128)
++....||.+|-+.|.+.+ +..+..|+. +|+ +| ++. ..+ .++-+++|+.|.++....||
T Consensus 24 ~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 24 DGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred cCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCCCCC
Confidence 3435679999999998776 232333332 121 22 111 123 34668999999998877665
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=87.42 E-value=4.8 Score=24.59 Aligned_cols=56 Identities=23% Similarity=0.298 Sum_probs=40.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCe-EEE-eC-----CEEcCCCCcccc
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLI-FA-----GKQLEDGRTLAD 58 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q-~L~-~~-----g~~L~d~~~L~~ 58 (128)
|.|-..+|.+..+.|++.+|+.++-+.++.+.+...+.- .|+ +. -+.++|...|.+
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~vvd 67 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELVVE 67 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHHHH
Confidence 455567899999999999999999999999998765443 343 11 235566655433
No 139
>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=87.35 E-value=1.8 Score=27.47 Aligned_cols=45 Identities=16% Similarity=0.193 Sum_probs=34.2
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCC-eEEEeCCEEcCCCCccccc
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~-q~L~~~g~~L~d~~~L~~~ 59 (128)
+-|+.+.||++|...|.....++++. +-|+.++.....+.++++.
T Consensus 37 fLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~el 82 (104)
T PF02991_consen 37 FLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGEL 82 (104)
T ss_dssp EEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHH
T ss_pred EEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHH
Confidence 44788999999999999999988765 5566777666778888765
No 140
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=87.24 E-value=0.28 Score=22.38 Aligned_cols=20 Identities=35% Similarity=0.845 Sum_probs=17.9
Q ss_pred hhhhhcccCCcccccccccCCC
Q 033059 96 CRKCYARLHPRAVNCRKKKCGH 117 (128)
Q Consensus 96 Cr~c~~r~~~~~~~c~~~~c~~ 117 (128)
|..|...+...+.+|.. ||+
T Consensus 2 Cp~CG~~~~~~~~fC~~--CG~ 21 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPN--CGT 21 (23)
T ss_pred CcccCCCCCCcCcchhh--hCC
Confidence 78999999999999997 984
No 141
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=87.15 E-value=4.4 Score=23.92 Aligned_cols=58 Identities=17% Similarity=0.268 Sum_probs=43.4
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCEEcCCCCccccccccCCcEEEEE
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
..+.|+++.....+-...++++.+|+..--++ -.|--+...++..+.-++.|+.+.++
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 34688888888888888889999998877666 56777888999988888899988764
No 142
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=86.57 E-value=1.4 Score=34.64 Aligned_cols=74 Identities=15% Similarity=0.291 Sum_probs=59.8
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE--EeCCEEcCC---CCccccccccCCcEEEEEEeecC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLED---GRTLADYNIQKESTLHLVLRLRG 75 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L--~~~g~~L~d---~~~L~~~gi~~g~~i~v~~~~~g 75 (128)
+|.|+.++|.+|.=.++.+.-+..++..+...-++....+-| .|--++..| +++|.++.+.+...|.|+.+-++
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~r~ 394 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKKRA 394 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecCCc
Confidence 578999999999888988888999999998877777766666 377777743 57999999999988888776443
No 143
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=85.72 E-value=2.2 Score=36.53 Aligned_cols=62 Identities=18% Similarity=0.387 Sum_probs=48.0
Q ss_pred CCCEEEEEecC-CCcHHHHHHHHHhhhCCCCCCeEEEe-CCEEcCCCCcccccc-c-cCCcEEEEE
Q 033059 9 TGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTLADYN-I-QKESTLHLV 70 (128)
Q Consensus 9 ~g~~~~i~v~~-~~tV~~LK~~i~~~~~ip~~~q~L~~-~g~~L~d~~~L~~~g-i-~~g~~i~v~ 70 (128)
.|+...++... ..|+.+||..|....|+...++.++- +|.-+..++.|.+|. . .+.+-|++.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffF 68 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFF 68 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhccccCCCCceEEe
Confidence 47777887774 67899999999999999999998875 556777788888887 2 344556555
No 144
>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=85.18 E-value=6.5 Score=23.99 Aligned_cols=60 Identities=23% Similarity=0.379 Sum_probs=43.1
Q ss_pred EEEEEecCCCcHHHHHHHHHhhh-C--CCC--C-CeEEEeCC--EEcCCCCccccccccCCcEEEEEE
Q 033059 12 TITLEVESSDTIDNVKAKIQDKE-G--IPP--D-QQRLIFAG--KQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~-~--ip~--~-~q~L~~~g--~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
...+.|+.++|+.++=++++... | +++ . .+++.++| ..+..+.++++-||.+-+.|.+..
T Consensus 16 ~~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 16 LQLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 35578999999999999998653 4 333 2 46777888 899999999999999999998864
No 145
>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=84.98 E-value=3.1 Score=25.55 Aligned_cols=40 Identities=23% Similarity=0.346 Sum_probs=34.3
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE-EeCCEEc
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL-IFAGKQL 50 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L-~~~g~~L 50 (128)
..+.+.|++++|=.++|+.|+..+++++...+- .+.|+.-
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~k 61 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKK 61 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCce
Confidence 568999999999999999999999999988754 4777644
No 146
>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=84.71 E-value=5.5 Score=23.80 Aligned_cols=37 Identities=5% Similarity=0.130 Sum_probs=32.8
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCe
Q 033059 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 5 vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q 41 (128)
|-.++|+...+.|.|++|+.++-+......++.|++-
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh 40 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEH 40 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHh
Confidence 5567899999999999999999999999999988764
No 147
>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=84.68 E-value=3.4 Score=24.79 Aligned_cols=39 Identities=15% Similarity=0.342 Sum_probs=31.3
Q ss_pred CcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcCCCCccccc
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLADY 59 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~d~~~L~~~ 59 (128)
.|+.+|+.+..+.++++....+|+ -.|..++|+..+..+
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tL 61 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTL 61 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcC
Confidence 579999999999999976666555 589999888766554
No 148
>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=84.64 E-value=2.9 Score=24.82 Aligned_cols=40 Identities=20% Similarity=0.178 Sum_probs=24.2
Q ss_pred EEEeCCCC-EEEEEecC-CCcHHHHHHHHHhhhCC-CCCCeEE
Q 033059 4 FVKTLTGK-TITLEVES-SDTIDNVKAKIQDKEGI-PPDQQRL 43 (128)
Q Consensus 4 ~vk~~~g~-~~~i~v~~-~~tV~~LK~~i~~~~~i-p~~~q~L 43 (128)
+-|..+.+ ...+.++. ..+|.+||.+|.++.++ ...+.-|
T Consensus 2 ~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~lg~~~dfdL 44 (74)
T PF08783_consen 2 HYKFKSQKDYDTITFDGTSISVFDLKREIIEKKKLGKGTDFDL 44 (74)
T ss_dssp EEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT---TTTEEE
T ss_pred eEEecccCCccEEEECCCeeEHHHHHHHHHHHhCCCcCCcCCE
Confidence 33444433 34577774 67999999999877665 3334333
No 149
>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=84.58 E-value=2.6 Score=27.03 Aligned_cols=57 Identities=14% Similarity=0.151 Sum_probs=39.2
Q ss_pred EEEecCCCcHHHHHHHHHhhhCCCCCC-eEEEeCCEEcCCCCccccc----cccCCcEEEEEE
Q 033059 14 TLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADY----NIQKESTLHLVL 71 (128)
Q Consensus 14 ~i~v~~~~tV~~LK~~i~~~~~ip~~~-q~L~~~g~~L~d~~~L~~~----gi~~g~~i~v~~ 71 (128)
.+-|+.+.||+++...|....++++++ +-|..++.....+.+++++ +.. +..+++..
T Consensus 44 KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~-DGfLyl~Y 105 (112)
T cd01611 44 KYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKDE-DGFLYMTY 105 (112)
T ss_pred eEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCCC-CCEEEEEE
Confidence 345899999999999999999988876 4444566544556666554 333 44555544
No 150
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=84.43 E-value=0.32 Score=38.51 Aligned_cols=57 Identities=25% Similarity=0.286 Sum_probs=48.1
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
+..+-..|-.+|...|++++||+-+.++.+.+|++|.-.+||.+-|++....+.|++
T Consensus 54 ~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~ 110 (568)
T KOG2561|consen 54 KKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKINQELMVAV 110 (568)
T ss_pred hhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhhhhHHHHHh
Confidence 344445678899999999999999999999999999999999999998776665544
No 151
>PRK01777 hypothetical protein; Validated
Probab=83.51 E-value=8.4 Score=23.93 Aligned_cols=65 Identities=8% Similarity=0.068 Sum_probs=41.8
Q ss_pred CEEEEEeC-CC--CEEEEEecCCCcHHHHHHHHHhhhCCCCC--C-----eEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTL-TG--KTITLEVESSDTIDNVKAKIQDKEGIPPD--Q-----QRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~-~g--~~~~i~v~~~~tV~~LK~~i~~~~~ip~~--~-----q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|+|.|-.. .. ....+++++.+||.++-.++ |++.+ + ..+.-+|+....+. -+++|++|.++
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIy 74 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIY 74 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEe
Confidence 45555442 22 23567888999999987665 55444 2 35566788775544 45689999988
Q ss_pred Eeec
Q 033059 71 LRLR 74 (128)
Q Consensus 71 ~~~~ 74 (128)
-.+.
T Consensus 75 rPL~ 78 (95)
T PRK01777 75 RPLL 78 (95)
T ss_pred cCCC
Confidence 6553
No 152
>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=83.10 E-value=7.5 Score=23.04 Aligned_cols=47 Identities=23% Similarity=0.345 Sum_probs=38.8
Q ss_pred EEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCC--EEcC
Q 033059 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (128)
Q Consensus 5 vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g--~~L~ 51 (128)
|-.++|+.-.+.+.|.+||.++-..+-++-|+.++..-++.-| ++|+
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccc
Confidence 4457888899999999999999999999999999888776555 3553
No 153
>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=82.89 E-value=7.7 Score=23.05 Aligned_cols=41 Identities=29% Similarity=0.272 Sum_probs=31.6
Q ss_pred EEEEeCCCC----EEEEEecCCCcHHHHHHHHHhhhCC--CCCCeEE
Q 033059 3 IFVKTLTGK----TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRL 43 (128)
Q Consensus 3 i~vk~~~g~----~~~i~v~~~~tV~~LK~~i~~~~~i--p~~~q~L 43 (128)
|.|-..++. ...|.|++++|+.++-+.+.+++++ ++.+..|
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L 51 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCL 51 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEE
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEE
Confidence 344444555 7789999999999999999999998 3445566
No 154
>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=82.60 E-value=1.9 Score=31.44 Aligned_cols=72 Identities=18% Similarity=0.434 Sum_probs=45.6
Q ss_pred EEEEeCC--CCEEE----EEecCCCcHHHHHHHHHhhhCCCCCCeEEEeC----C--EEcCCCCccccccccCCcEEEEE
Q 033059 3 IFVKTLT--GKTIT----LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----G--KQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 3 i~vk~~~--g~~~~----i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~----g--~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|++|..+ .+++. +.|+.+.+|++|-..|.+..|+|++..-++|. + ..++...++....|.+|+.|.+-
T Consensus 71 lFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ 150 (249)
T PF12436_consen 71 LFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQ 150 (249)
T ss_dssp EEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEE
T ss_pred EEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEE
Confidence 5566543 23332 46888999999999999999999876555543 3 35678999999999999999887
Q ss_pred Eeec
Q 033059 71 LRLR 74 (128)
Q Consensus 71 ~~~~ 74 (128)
....
T Consensus 151 ~~~~ 154 (249)
T PF12436_consen 151 RAPS 154 (249)
T ss_dssp E--G
T ss_pred eccc
Confidence 6543
No 155
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=82.55 E-value=6.3 Score=25.27 Aligned_cols=38 Identities=5% Similarity=0.198 Sum_probs=32.9
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEc
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL 50 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L 50 (128)
-.+.|+++.|++.+-..|....+++++++-++|=....
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sF 84 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSF 84 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCcc
Confidence 45789999999999999999999999999888766544
No 156
>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=82.52 E-value=8 Score=22.98 Aligned_cols=35 Identities=29% Similarity=0.448 Sum_probs=29.1
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCC--CCCeEEE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLI 44 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip--~~~q~L~ 44 (128)
+....|.|+.++|..++-..+.++++++ +++..|+
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ 48 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALV 48 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEE
Confidence 5567899999999999999999999987 4555554
No 157
>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=81.63 E-value=5.2 Score=24.04 Aligned_cols=47 Identities=11% Similarity=0.130 Sum_probs=34.4
Q ss_pred CcHHHHHHHHHhhhCCCCCCeEE--EeCCEEcCCCCccccccccCCcEEEE
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~L--~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
.++.+|+.+..+.++++....+| .-.|..++|+..+..+ .+++.+.+
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~L--pdnT~lm~ 69 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTL--GDNTHFMV 69 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhC--CCCCEEEE
Confidence 57999999999999998655555 4689999888766554 34444433
No 158
>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=81.46 E-value=11 Score=23.83 Aligned_cols=64 Identities=28% Similarity=0.297 Sum_probs=43.8
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhh------CCCCC-CeEEEeCCE--EcCCCCcccccc-----ccCCcEEEEEEee
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKE------GIPPD-QQRLIFAGK--QLEDGRTLADYN-----IQKESTLHLVLRL 73 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~------~ip~~-~q~L~~~g~--~L~d~~~L~~~g-----i~~g~~i~v~~~~ 73 (128)
...+.+.++++.|+.+|.+.+-.+. .-+++ +..|--.|+ -|..+..|.+|. +..|..++|++..
T Consensus 28 ~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~~L~L~~ 105 (108)
T smart00144 28 QQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREPHLVLMT 105 (108)
T ss_pred ceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCceEEEEe
Confidence 3568899999999999998876541 12233 566666775 456677777773 4667777777643
No 159
>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=81.27 E-value=5.4 Score=24.45 Aligned_cols=40 Identities=23% Similarity=0.290 Sum_probs=35.4
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCe
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q 41 (128)
+|.|-.++|....+++..+++..++-+.+..+.++|.+-+
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~ 42 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQ 42 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHH
Confidence 5667778999999999999999999999999999997654
No 160
>KOG0007 consensus Splicing factor 3a, subunit 1 [RNA processing and modification]
Probab=81.21 E-value=0.76 Score=35.10 Aligned_cols=49 Identities=35% Similarity=0.575 Sum_probs=42.2
Q ss_pred CCCCEEEEEec-CCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCcc
Q 033059 8 LTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 56 (128)
Q Consensus 8 ~~g~~~~i~v~-~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L 56 (128)
.+|....+.+. .+..+..||.++....+++++.|++.+.|..|.|+..+
T Consensus 290 ~dg~~~~~~~~~~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~~l~d~~~~ 339 (341)
T KOG0007|consen 290 ADGQVIKITVQSLSENVASLKEKIADESQIPANKQKLRGEGAFLKDNRSL 339 (341)
T ss_pred CCCceeeeccccccccccccccccccccccchhheeeccCCcccCccccc
Confidence 46777778777 67789999999999999999999999999999887443
No 161
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=80.99 E-value=6.5 Score=24.24 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=33.5
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE-EeCCEE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL-IFAGKQ 49 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L-~~~g~~ 49 (128)
...+.+.|++++|=.++|+.|+..+++++....- ...|+.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCce
Confidence 4579999999999999999999999999988754 355543
No 162
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=80.42 E-value=0.79 Score=21.56 Aligned_cols=22 Identities=32% Similarity=0.708 Sum_probs=19.3
Q ss_pred hhhhhhcccCCcccccccccCCCC
Q 033059 95 ICRKCYARLHPRAVNCRKKKCGHS 118 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~~~c~~~ 118 (128)
.|.+|.+.++..+..|-. |||.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~--CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPH--CGYD 23 (26)
T ss_pred cCCCCcCCchhhcCcCCC--CCCC
Confidence 588999999999999986 9875
No 163
>KOG2827 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.26 E-value=2.1 Score=31.95 Aligned_cols=74 Identities=23% Similarity=0.196 Sum_probs=49.5
Q ss_pred HHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCCC--CCchhHHHHHhhccc--hhhhhh
Q 033059 23 IDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI--IEPSLMALARKYNQD--KMICRK 98 (128)
Q Consensus 23 V~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg~--~~~~~~~~a~k~~~~--k~~Cr~ 98 (128)
+.+.-+.++..+..++....++.+|+.|+...+-.+.+ +++..+.+||+ |...++++..+.+.+ ...||+
T Consensus 23 ~De~~~~~~~~tn~qs~e~y~~~nlKklEnk~~sgd~N------~~~~lRVlGGKGGFGS~LRA~g~~~NestN~~~cRD 96 (322)
T KOG2827|consen 23 ADERLQEWKDGTNGQSLEKYALENLKKLENKVKSGDGN------GATQLRVLGGKGGFGSCLRAVGLALNESTNNGKCRD 96 (322)
T ss_pred cHHHHHHHHhcccCCCcchhHHhhhHhhcCcccccccc------ceEEEEeccCCcchHHHHHHHHHHHhhhhhhhhHhh
Confidence 44455556666777777777888888887765544332 56677788874 778888885444444 347998
Q ss_pred hhcc
Q 033059 99 CYAR 102 (128)
Q Consensus 99 c~~r 102 (128)
-.+|
T Consensus 97 L~Gr 100 (322)
T KOG2827|consen 97 LIGR 100 (322)
T ss_pred hccc
Confidence 8763
No 164
>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=79.05 E-value=12 Score=22.81 Aligned_cols=58 Identities=5% Similarity=0.095 Sum_probs=37.6
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCC-eEEEeCCEEc-CCCCccccccc--cCCcEEEEE
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQL-EDGRTLADYNI--QKESTLHLV 70 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~-q~L~~~g~~L-~d~~~L~~~gi--~~g~~i~v~ 70 (128)
-.+-|+.+.|++++...|..+.++++++ +-|..+...+ ..+.+++++-- .++..+++.
T Consensus 18 ~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~ 79 (87)
T cd01612 18 KVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVS 79 (87)
T ss_pred cEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEE
Confidence 3456999999999999999999988776 4444455423 34456554311 344555554
No 165
>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=78.93 E-value=6.1 Score=23.85 Aligned_cols=39 Identities=15% Similarity=0.225 Sum_probs=30.1
Q ss_pred CcHHHHHHHHHhhhCCCCC--CeEE--EeCCEEcCCCCccccc
Q 033059 21 DTIDNVKAKIQDKEGIPPD--QQRL--IFAGKQLEDGRTLADY 59 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~--~q~L--~~~g~~L~d~~~L~~~ 59 (128)
.++.+|+.+..+.+.++.. ..+| --.|..++|+..+..+
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tL 63 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCL 63 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhC
Confidence 5799999999999999843 2444 4689999888766654
No 166
>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=78.61 E-value=7.4 Score=28.37 Aligned_cols=43 Identities=19% Similarity=0.312 Sum_probs=31.1
Q ss_pred EEEEEeC---CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE
Q 033059 2 QIFVKTL---TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (128)
Q Consensus 2 ~i~vk~~---~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~ 44 (128)
.|.++.. .+..|.+.++..+|-.+|-+.|++..+++|+.++|.
T Consensus 178 ~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 178 EVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp EEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred EEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 3455443 234789999999999999999999999999999986
No 167
>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=78.21 E-value=14 Score=23.12 Aligned_cols=41 Identities=22% Similarity=0.244 Sum_probs=30.8
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-CCeEE
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRL 43 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-~~q~L 43 (128)
|.|=-.++...++.++.++||++|-..++.++.++. +..+|
T Consensus 5 IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l 46 (97)
T cd01775 5 IRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQL 46 (97)
T ss_pred EEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEE
Confidence 344334666678999999999999999999988776 33343
No 168
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=78.12 E-value=2.5 Score=30.11 Aligned_cols=30 Identities=20% Similarity=0.450 Sum_probs=21.9
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCC
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPD 39 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~ 39 (128)
|-.|.+.|.+..|..++|++|++++|++..
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~k 161 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDK 161 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HH
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChh
Confidence 456888999999999999999999999853
No 169
>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=76.64 E-value=8.8 Score=22.92 Aligned_cols=34 Identities=12% Similarity=0.235 Sum_probs=30.4
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~ 44 (128)
..+.|.|+++.|=.++|+.|+..+++.+...+-.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~ 48 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTL 48 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 5799999999999999999999999998877653
No 170
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=76.48 E-value=3 Score=31.94 Aligned_cols=65 Identities=17% Similarity=0.173 Sum_probs=51.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhh-CCCCCCeEEEeCC---EEcC--CCCccccccccCCcE
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRLIFAG---KQLE--DGRTLADYNIQKEST 66 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~-~ip~~~q~L~~~g---~~L~--d~~~L~~~gi~~g~~ 66 (128)
.|.||.++|+.....+-.+++|.-|-..+..+. |.+-..++|+.+= +.|+ .+.||.++||.+-.+
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 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 378999999887777888899998888776654 5666778888665 5554 478999999998765
No 171
>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=76.04 E-value=16 Score=22.73 Aligned_cols=70 Identities=24% Similarity=0.417 Sum_probs=43.5
Q ss_pred EEEEEeC-CCCEEEEEecCCCcHHHHHHHHHhh--hCCCC----CCeEEEeCCE--EcCCCCcccccc-----ccCCcEE
Q 033059 2 QIFVKTL-TGKTITLEVESSDTIDNVKAKIQDK--EGIPP----DQQRLIFAGK--QLEDGRTLADYN-----IQKESTL 67 (128)
Q Consensus 2 ~i~vk~~-~g~~~~i~v~~~~tV~~LK~~i~~~--~~ip~----~~q~L~~~g~--~L~d~~~L~~~g-----i~~g~~i 67 (128)
.|.|... ....+.+.++.+.|+.+|-+.+-.. .+..+ ++..|--.|. -|..+.+|.+|. +..+-.+
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 4556555 4567899999999999999888655 22222 2566766675 466778888884 3556666
Q ss_pred EEEE
Q 033059 68 HLVL 71 (128)
Q Consensus 68 ~v~~ 71 (128)
+|++
T Consensus 98 ~L~L 101 (106)
T PF00794_consen 98 HLVL 101 (106)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 6655
No 172
>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=75.90 E-value=8.8 Score=23.11 Aligned_cols=39 Identities=13% Similarity=0.105 Sum_probs=29.7
Q ss_pred CcHHHHHHHHHhhhCCCCC-CeEEEeCCEEcCCCCccccc
Q 033059 21 DTIDNVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~-~q~L~~~g~~L~d~~~L~~~ 59 (128)
.++.+|+.+..+.++++.. .+.|.-.|..++|+..+..+
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tL 60 (79)
T cd06538 21 DSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQAL 60 (79)
T ss_pred CCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhC
Confidence 5799999999999999532 24445689999887766654
No 173
>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=74.92 E-value=2.5 Score=25.30 Aligned_cols=35 Identities=26% Similarity=0.484 Sum_probs=21.3
Q ss_pred HHHhhhCCCCCCeEEE---eCCEEcCCCCccccccccC
Q 033059 29 KIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQK 63 (128)
Q Consensus 29 ~i~~~~~ip~~~q~L~---~~g~~L~d~~~L~~~gi~~ 63 (128)
.|.++..+.|+...|+ .++.+|+-+++|.+|||++
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE 39 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE 39 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH
Confidence 3677788889888887 4567899899999999984
No 174
>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=74.42 E-value=16 Score=21.85 Aligned_cols=49 Identities=27% Similarity=0.344 Sum_probs=35.5
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCC--CCeEEE--e-CC--EEcCC-CCcccc
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPP--DQQRLI--F-AG--KQLED-GRTLAD 58 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~--~~q~L~--~-~g--~~L~d-~~~L~~ 58 (128)
+....|.|.+++|+.++-..+.++++++. ++..|+ . +| +.|.+ +.++.-
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl~~ 71 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPLQL 71 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcceEe
Confidence 56678999999999999999999999864 455554 3 45 35544 555433
No 175
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=73.43 E-value=12 Score=22.73 Aligned_cols=34 Identities=12% Similarity=0.246 Sum_probs=30.6
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~ 44 (128)
..+.|.|++..+=.++|+.|+..+++.+...+..
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~ 55 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTL 55 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 5799999999999999999999999998887653
No 176
>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=72.86 E-value=11 Score=22.73 Aligned_cols=47 Identities=11% Similarity=0.095 Sum_probs=32.6
Q ss_pred CcHHHHHHHHHhhhCCCCC-CeEEEeCCEEcCCCCccccccccCCcEEEE
Q 033059 21 DTIDNVKAKIQDKEGIPPD-QQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~-~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
.++.+|+.+..+.++++.. .+.|.-.|..++|+..+..+ .+++.+.+
T Consensus 21 ~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tL--pdnT~lm~ 68 (81)
T cd06537 21 ASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELL--EDDTCLMV 68 (81)
T ss_pred cCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhC--CCCCEEEE
Confidence 5799999999999998633 33444689999888766554 34444433
No 177
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=71.82 E-value=14 Score=22.12 Aligned_cols=53 Identities=9% Similarity=0.127 Sum_probs=32.2
Q ss_pred CCcHHHHHHHHHhhhC---CCCC--CeEEEeCCEEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 20 SDTIDNVKAKIQDKEG---IPPD--QQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 20 ~~tV~~LK~~i~~~~~---ip~~--~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
-.||++|.+.+.++.. .--. ......+...+.+. ++-|++|++|.++....||
T Consensus 27 ~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~t~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 27 GATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGL----DTPLKDGDEVAFFPPVSGG 84 (84)
T ss_pred HHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccc----cccCCCCCEEEEeCCCCCC
Confidence 5789999999866654 1111 11222344444432 2346789999998877776
No 178
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=70.77 E-value=13 Score=23.15 Aligned_cols=60 Identities=15% Similarity=0.230 Sum_probs=41.4
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE-EeCCEE---------cCCCCccccccccCCcEEEE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL-IFAGKQ---------LEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L-~~~g~~---------L~d~~~L~~~gi~~g~~i~v 69 (128)
...+.+.|+++.|=.++|+.+++.+++.+..... ...|+. +..+..-+..-+..|..|.+
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 ENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 3578999999999999999999999998877644 344421 33444444444555555443
No 179
>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=69.23 E-value=8.5 Score=23.06 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=17.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhh
Q 033059 13 ITLEVESSDTIDNVKAKIQDKE 34 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~ 34 (128)
+.++++.++|+.++|+.+.++.
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A 23 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEA 23 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHG
T ss_pred eEEEccCcCcHHHHHHHHHHHH
Confidence 4678999999999999996654
No 180
>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=68.68 E-value=10 Score=22.16 Aligned_cols=43 Identities=21% Similarity=0.315 Sum_probs=29.3
Q ss_pred CcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEE
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
.|+++|.+..++++|+++ ...+.-+|-..+|=.. |.+|+.+++
T Consensus 26 ~SleeLl~ia~~kfg~~~-~~v~~~dgaeIdDI~~-----IRDgD~L~~ 68 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFSA-TKVLNEDGAEIDDIDV-----IRDGDHLYL 68 (69)
T ss_pred ccHHHHHHHHHHHhCCCc-eEEEcCCCCEEeEEEE-----EEcCCEEEE
Confidence 699999999999999973 3334445555544322 467787765
No 181
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=68.47 E-value=5.5 Score=26.52 Aligned_cols=29 Identities=17% Similarity=0.290 Sum_probs=24.4
Q ss_pred EEcCCCCccccccccCCcEEEEEEeecCC
Q 033059 48 KQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 48 ~~L~d~~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
+..+|+++|++.+++-|+.|.+.+..+.-
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~ 140 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNR 140 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCccc
Confidence 34588999999999999999999976543
No 182
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=66.52 E-value=30 Score=21.89 Aligned_cols=45 Identities=22% Similarity=0.302 Sum_probs=31.1
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC---CCeEEEeCC
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLIFAG 47 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~---~~q~L~~~g 47 (128)
|+|-..+|++..++|..-.+-.+++..+-.++|++. +.-..+.+|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~~~~~~~~~v~d~ 50 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPEHPRNYCFYVLDG 50 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS--CCCEEEEEE-S
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCccccccceEEEecc
Confidence 556677899999999999999999999999999876 333444555
No 183
>CHL00030 rpl23 ribosomal protein L23
Probab=66.20 E-value=18 Score=22.36 Aligned_cols=39 Identities=21% Similarity=0.135 Sum_probs=31.9
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK 48 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~ 48 (128)
...+.+.|+++.|=.++|+.|+..+++.+.....+ ..|+
T Consensus 19 ~n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~~~k 58 (93)
T CHL00030 19 KNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRLPRK 58 (93)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEcCCC
Confidence 45799999999999999999999999988776543 4443
No 184
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=65.12 E-value=10 Score=32.26 Aligned_cols=56 Identities=16% Similarity=0.267 Sum_probs=41.7
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--e--CCEEc--CCCCccccccccCCcEEEE
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--F--AGKQL--EDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~--~g~~L--~d~~~L~~~gi~~g~~i~v 69 (128)
.+.+.|+..+++..+|++|++..+++.+.++|+ | +|..+ .++.+|+.+ -++.+|.+
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~R~~~~N~~~~S~~~NetLs~~--~~~~~iTI 939 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIVRHASDNGSEASFMDNETLSGA--FQSCFITI 939 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEEEEecCCcchhhhccchhhhhh--cccceEEE
Confidence 366889999999999999999999999998886 2 34444 466777655 34445443
No 185
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=64.81 E-value=31 Score=21.44 Aligned_cols=56 Identities=25% Similarity=0.385 Sum_probs=37.5
Q ss_pred CCCcHHHHHHHHHhhh-CCCCCCeEEEeCCEE------c-CC-CCcc---ccccccCCcEEEEEEeecCC
Q 033059 19 SSDTIDNVKAKIQDKE-GIPPDQQRLIFAGKQ------L-ED-GRTL---ADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 19 ~~~tV~~LK~~i~~~~-~ip~~~q~L~~~g~~------L-~d-~~~L---~~~gi~~g~~i~v~~~~~gg 76 (128)
..+||.+|-..|.... .-|++ -++.+|.+ | .| ++-| .+|.+++|+.|.++..+.||
T Consensus 34 ~~~tvgdll~yi~~~~ie~r~~--lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIETRDS--LFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred CcccHHHHHHHHHHHHhcCCcc--eEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 3578999999888754 33333 34455532 2 33 3332 57899999999999888776
No 186
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=61.14 E-value=13 Score=22.37 Aligned_cols=22 Identities=23% Similarity=0.388 Sum_probs=18.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhh
Q 033059 13 ITLEVESSDTIDNVKAKIQDKE 34 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~ 34 (128)
+.+.++.+.|+.++|+.+.+..
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A 23 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQA 23 (78)
T ss_pred eeEEccccccHHHHHHHHHHHH
Confidence 4678889999999999997654
No 187
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=60.26 E-value=3.1 Score=23.53 Aligned_cols=23 Identities=30% Similarity=0.743 Sum_probs=17.5
Q ss_pred hhhhhhhhcccCC---cccccccccCCC
Q 033059 93 KMICRKCYARLHP---RAVNCRKKKCGH 117 (128)
Q Consensus 93 k~~Cr~c~~r~~~---~~~~c~~~~c~~ 117 (128)
..+|-+|.+.|.. ++..||. |||
T Consensus 20 iYiCgdC~~en~lk~~D~irCRe--CG~ 45 (62)
T KOG3507|consen 20 IYICGDCGQENTLKRGDVIRCRE--CGY 45 (62)
T ss_pred EEEeccccccccccCCCcEehhh--cch
Confidence 3479999988764 4588997 985
No 188
>PF12773 DZR: Double zinc ribbon
Probab=59.51 E-value=4.7 Score=21.46 Aligned_cols=23 Identities=43% Similarity=0.853 Sum_probs=17.5
Q ss_pred chhhhhhhhcccCCcccccccccCC
Q 033059 92 DKMICRKCYARLHPRAVNCRKKKCG 116 (128)
Q Consensus 92 ~k~~Cr~c~~r~~~~~~~c~~~~c~ 116 (128)
....|..|...+...+.+|.. ||
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~--CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPN--CG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCc--cc
Confidence 445788888888888888876 65
No 189
>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=59.44 E-value=40 Score=25.62 Aligned_cols=59 Identities=19% Similarity=0.223 Sum_probs=41.4
Q ss_pred EEecCCCcHHHHHHHHHhhh--------------C-CCCCCeEEEeCCEEcCCCCccccccc---cCCcEEEEEEee
Q 033059 15 LEVESSDTIDNVKAKIQDKE--------------G-IPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVLRL 73 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~--------------~-ip~~~q~L~~~g~~L~d~~~L~~~gi---~~g~~i~v~~~~ 73 (128)
+....-.-|..+...|.+++ . .|.+.+.|..+|++|+.+.||+...- +.+.-|.|.-|.
T Consensus 252 L~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 252 LNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred ecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 33333455788888888887 2 34456789999999999999987652 556666666554
No 190
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=59.09 E-value=40 Score=20.81 Aligned_cols=66 Identities=20% Similarity=0.327 Sum_probs=40.9
Q ss_pred CEEEEEec--CCCcHHHHHHHHHhhhCCCCCCeEEEeCCEE------c-CC-CC-ccc--cccccCCcEEEEEEeecCC
Q 033059 11 KTITLEVE--SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ------L-ED-GR-TLA--DYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 11 ~~~~i~v~--~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~------L-~d-~~-~L~--~~gi~~g~~i~v~~~~~gg 76 (128)
+.+.+.++ ...+|+.|-..+.....-|...--+..+|.. | .| ++ .+. +|.+++|+.|.++..+.||
T Consensus 18 R~~el~~~~~e~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfistlHGg 96 (96)
T COG5131 18 REIELTREEVEGSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred eeeEEEEcccCCcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEecccCC
Confidence 44566655 3567888888887743334333344455532 2 22 33 343 3889999999998888776
No 191
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=58.35 E-value=28 Score=23.82 Aligned_cols=39 Identities=10% Similarity=0.062 Sum_probs=32.8
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK 48 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~ 48 (128)
...+.|.|+++.|=.++|..|+..+++.+..+..+ ..|+
T Consensus 22 ~N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K 61 (158)
T PRK12280 22 KNVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKK 61 (158)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCc
Confidence 35799999999999999999999999998877554 4554
No 192
>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=57.91 E-value=48 Score=21.27 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=28.9
Q ss_pred CEEEEEeCCCCE--EEEEecCCCcHHHHHHHHHhhhCCC
Q 033059 1 MQIFVKTLTGKT--ITLEVESSDTIDNVKAKIQDKEGIP 37 (128)
Q Consensus 1 m~i~vk~~~g~~--~~i~v~~~~tV~~LK~~i~~~~~ip 37 (128)
|..++...+++. -.+.|+.++|+.++-+.+-+++.++
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk~d 62 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFRPD 62 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhccc
Confidence 567777665543 4588999999999999999998854
No 193
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=56.74 E-value=39 Score=20.58 Aligned_cols=42 Identities=24% Similarity=0.220 Sum_probs=32.2
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCC-CCCeEEE--eCCE--EcCCC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIP-PDQQRLI--FAGK--QLEDG 53 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip-~~~q~L~--~~g~--~L~d~ 53 (128)
.-++.|.|.+|+.+|=..++.++.+. |++..|+ -+|. .|.|+
T Consensus 15 ~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd 61 (87)
T cd01776 15 GKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPD 61 (87)
T ss_pred eeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcc
Confidence 46799999999999999999999964 6666665 3453 56554
No 194
>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=56.42 E-value=33 Score=19.04 Aligned_cols=59 Identities=12% Similarity=0.142 Sum_probs=38.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|.|..++|+... ++...|+.|+=..|....+-. ..--..+|+..+-+.. +++|++|.++
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--LPEGSTVLDVAYSIHSSLAKR--AVAAKVNGQLVDLDHP-----LEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHHC--EEEEEETTEEEETTSB-----B-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHhh--eeEEEEcCEECCCCCC-----cCCCCEEEEE
Confidence 456668887655 778889999999987665321 1223368877665544 4567887764
No 195
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=55.68 E-value=30 Score=20.60 Aligned_cols=46 Identities=7% Similarity=0.138 Sum_probs=32.3
Q ss_pred HHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEE
Q 033059 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 24 ~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
..++..++..+|.+.+..++.++...=.-...+..-.+.-|..|++
T Consensus 4 ~~~r~~~e~~~G~dl~~Vrvh~~~~a~~~~~~~~A~A~T~G~~I~f 49 (79)
T PF13699_consen 4 ESIRSRLERAFGADLSDVRVHTGPAASRAAAALGARAFTVGNDIYF 49 (79)
T ss_pred HHHHHHHHHHhCCCccceEEEeCCchhhhhhccCCeEEEECCEEEE
Confidence 3588999999999999999987744222223344444566888887
No 196
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=54.79 E-value=13 Score=24.02 Aligned_cols=29 Identities=28% Similarity=0.398 Sum_probs=23.6
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHH
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKI 30 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i 30 (128)
|+|.|.. +++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~i-~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITI-GGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEE-TTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEE-CCEEEEEEECCCHHHHHHHHhC
Confidence 7888866 5788999999998888888765
No 197
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=53.92 E-value=11 Score=28.71 Aligned_cols=46 Identities=20% Similarity=0.242 Sum_probs=37.5
Q ss_pred EEEecCCCcHHHHHHHHHhhhC--CCCCCeEEEeCCEEcCCCCccccc
Q 033059 14 TLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 14 ~i~v~~~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~~L~d~~~L~~~ 59 (128)
.+.++...||.+|+..+..+.+ -+..++-+++++..|.+..||.+.
T Consensus 167 fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 167 FLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred eEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhh
Confidence 4567778999999999999988 344567788999999999888754
No 198
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.90 E-value=46 Score=19.90 Aligned_cols=61 Identities=20% Similarity=0.249 Sum_probs=42.5
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCCeEEEe-CCEEcCCCCccccccccCCcEEEEEEeecC
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~-~g~~L~d~~~L~~~gi~~g~~i~v~~~~~g 75 (128)
++|++++....+-..-++++.+|+..--++- .|--+...++-...=++.|+.+.++.|-+-
T Consensus 31 ~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~iprdrv 92 (94)
T KOG3483|consen 31 LSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRV 92 (94)
T ss_pred ecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEecccccc
Confidence 3455555555555556778899987766664 455667777877777899999988876543
No 199
>PF02505 MCR_D: Methyl-coenzyme M reductase operon protein D; InterPro: IPR003901 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein D.; GO: 0015948 methanogenesis
Probab=52.74 E-value=35 Score=23.15 Aligned_cols=43 Identities=28% Similarity=0.410 Sum_probs=30.6
Q ss_pred EEEEecC-CCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccc
Q 033059 13 ITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 13 ~~i~v~~-~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~ 59 (128)
+.+++.. .+.+..+++...+.+.++. . +.-|+-+....|++||
T Consensus 77 i~lele~~~~~ie~I~~iCee~lpf~y---~-i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 77 IILELEDEEDVIEKIREICEEVLPFGY---D-IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEecCcHHHHHHHHHHHHHhCCCce---E-eeeeEEeccCCchhhh
Confidence 6677777 6777788777766653332 2 2468999999999998
No 200
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=52.34 E-value=9.8 Score=23.76 Aligned_cols=64 Identities=22% Similarity=0.384 Sum_probs=34.8
Q ss_pred CEEEEEec---CCCcHHHHHHHHHhhhCCCCCCeEEEeCC------E-Ec-CC-CCcc---ccccccCCcEEEEEEeecC
Q 033059 11 KTITLEVE---SSDTIDNVKAKIQDKEGIPPDQQRLIFAG------K-QL-ED-GRTL---ADYNIQKESTLHLVLRLRG 75 (128)
Q Consensus 11 ~~~~i~v~---~~~tV~~LK~~i~~~~~ip~~~q~L~~~g------~-~L-~d-~~~L---~~~gi~~g~~i~v~~~~~g 75 (128)
+.+.++++ ...|+.+|-..|....--+ +--++..+ - +| +| ++-| .+|-+++|++|.++..+.|
T Consensus 18 k~h~v~l~~~~~~~ti~~Li~~l~~nll~~--r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiSTLHG 95 (96)
T PF09138_consen 18 KKHKVSLPSDGEPATIKDLIDYLRDNLLKE--RPELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHG 95 (96)
T ss_dssp SEEEEEE-SSCSC-BHHHHHHHHCCCT-SS--GHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT-
T ss_pred eeEEEEcCCCCCCcCHHHHHHHHHHhccCC--CHhHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCC
Confidence 56778877 6789999998887643211 21222111 1 12 22 2333 4688999999999988887
Q ss_pred C
Q 033059 76 G 76 (128)
Q Consensus 76 g 76 (128)
|
T Consensus 96 G 96 (96)
T PF09138_consen 96 G 96 (96)
T ss_dssp -
T ss_pred C
Confidence 6
No 201
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=51.50 E-value=60 Score=20.52 Aligned_cols=69 Identities=20% Similarity=0.207 Sum_probs=48.2
Q ss_pred EEEEe--cCCCcHHHHHHHHHhhhCCCC---CCeEEEeCCEEcCCCC-ccccccccCCcEEEEEEeecCCCCCchh
Q 033059 13 ITLEV--ESSDTIDNVKAKIQDKEGIPP---DQQRLIFAGKQLEDGR-TLADYNIQKESTLHLVLRLRGGIIEPSL 82 (128)
Q Consensus 13 ~~i~v--~~~~tV~~LK~~i~~~~~ip~---~~q~L~~~g~~L~d~~-~L~~~gi~~g~~i~v~~~~~gg~~~~~~ 82 (128)
..+.+ .+-.|+.++-..+.+..++.+ -.+..++.++.+.... .|-.+.+..+ ++.+.+|-..-.+.+..
T Consensus 21 ~k~~l~~~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~ll~~~~~~L~H~~~~~~-~l~l~vrs~~~~l~d~l 95 (104)
T PF14807_consen 21 RKQNLPSSSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQLLNSSPVCLLHCRVNAG-TLDLWVRSSDSPLTDCL 95 (104)
T ss_pred EEEeccccCcCCHHHHHHHHHHhcCceEEEEeCccceeeeeccCCCCeEEEEEEecCC-eEEEEEEcCCCCcHHHH
Confidence 34444 355788888888887777432 3346788999998766 8888888777 88888887655544443
No 202
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=50.45 E-value=38 Score=19.66 Aligned_cols=55 Identities=18% Similarity=0.291 Sum_probs=37.4
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccc--cccCCcEEEEEEee
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLVLRL 73 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~--gi~~g~~i~v~~~~ 73 (128)
.....+|.++.. ++..|+.+.++-+-.+|..+.+...+..+ ....|+++.+.+.-
T Consensus 15 g~~V~~V~~~sp--------A~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R 71 (82)
T PF13180_consen 15 GVVVVSVIPGSP--------AAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLR 71 (82)
T ss_dssp SEEEEEESTTSH--------HHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEE
T ss_pred eEEEEEeCCCCc--------HHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEE
Confidence 344455666553 34568999999999999999765544433 45788999888754
No 203
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=49.69 E-value=45 Score=22.45 Aligned_cols=34 Identities=9% Similarity=0.135 Sum_probs=29.9
Q ss_pred CCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEE
Q 033059 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (128)
Q Consensus 10 g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L 43 (128)
..++.|.|+...+=.++|+.|+..+++.+..+.-
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNT 115 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNT 115 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEe
Confidence 3579999999999999999999999998877644
No 204
>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=49.62 E-value=15 Score=20.54 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=20.1
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHh
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD 32 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~ 32 (128)
|.|.+.+.+|..|.++...-.--.-|+..++.
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 67899999999988885532223334444543
No 205
>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=48.75 E-value=56 Score=19.97 Aligned_cols=47 Identities=17% Similarity=0.342 Sum_probs=29.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEc--CCCCccccc
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL--EDGRTLADY 59 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L--~d~~~L~~~ 59 (128)
-.+.|+.+.|++.+-..|..+.++.+++...+|=+... ..+.+++++
T Consensus 18 ~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L 66 (87)
T PF04110_consen 18 KKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDL 66 (87)
T ss_dssp -EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHH
T ss_pred cEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHH
Confidence 45789999999999999999999877666555544433 345555543
No 206
>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=48.46 E-value=31 Score=20.93 Aligned_cols=30 Identities=30% Similarity=0.452 Sum_probs=19.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHh
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQD 32 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~ 32 (128)
+.|...+|.+|.++|+.+.-+..-|..|+.
T Consensus 38 ~iitf~ngatfqvevpgsqhi~sqkk~ier 67 (102)
T PF01376_consen 38 VIITFKNGATFQVEVPGSQHIDSQKKAIER 67 (102)
T ss_dssp EEEEETTS-EEEE--SSTTSTTTHHHHHHH
T ss_pred EEEEecCCcEEEEecCCccchhhhHHHHHH
Confidence 456677899999999988766666655544
No 207
>PHA00626 hypothetical protein
Probab=47.84 E-value=7.5 Score=21.82 Aligned_cols=18 Identities=22% Similarity=0.351 Sum_probs=12.3
Q ss_pred hhhhhhcccCCccccccc
Q 033059 95 ICRKCYARLHPRAVNCRK 112 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~ 112 (128)
.|.+|+.+.+..+..|++
T Consensus 2 ~CP~CGS~~Ivrcg~cr~ 19 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRG 19 (59)
T ss_pred CCCCCCCceeeeeceecc
Confidence 477777776667666665
No 208
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=47.72 E-value=7.3 Score=19.45 Aligned_cols=32 Identities=28% Similarity=0.503 Sum_probs=15.7
Q ss_pred HhhccchhhhhhhhcccCCcccccccccCCCCCCC
Q 033059 87 RKYNQDKMICRKCYARLHPRAVNCRKKKCGHSNQL 121 (128)
Q Consensus 87 ~k~~~~k~~Cr~c~~r~~~~~~~c~~~~c~~~~~~ 121 (128)
.+.+..-..|.+|.....+....|.. || |.++
T Consensus 5 ~~~~l~~~rC~~Cg~~~~pPr~~Cp~--C~-s~~l 36 (37)
T PF12172_consen 5 AEGRLLGQRCRDCGRVQFPPRPVCPH--CG-SDEL 36 (37)
T ss_dssp HTT-EEEEE-TTT--EEES--SEETT--TT-----
T ss_pred cCCEEEEEEcCCCCCEecCCCcCCCC--cC-cccc
Confidence 34444455799999887777789976 97 4443
No 209
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of 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 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 the release of active DFF40/CAD nuclease.
Probab=47.67 E-value=56 Score=19.56 Aligned_cols=31 Identities=16% Similarity=0.158 Sum_probs=24.2
Q ss_pred CcHHHHHHHHHhhhCCCCCCeE--EEeCCEEcC
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQR--LIFAGKQLE 51 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q~--L~~~g~~L~ 51 (128)
.++.+|+.+..+.+.++....+ |--.|..+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGTeVt 53 (77)
T cd06535 21 KNLKELLRKGCRLLQLPCAGSRLCLYEDGTEVT 53 (77)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEeh
Confidence 5799999999999999865444 446788874
No 210
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=46.78 E-value=7.4 Score=22.57 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=14.4
Q ss_pred cHHHHHHHHHhhhCCCCCCe
Q 033059 22 TIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 22 tV~~LK~~i~~~~~ip~~~q 41 (128)
|+.++.+.+++.+|++++++
T Consensus 1 t~~~Ii~~Va~~~~v~~~~i 20 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVEDI 20 (70)
T ss_dssp -HHHHHHHHHHHTT--HHHH
T ss_pred CHHHHHHHHHHHHCCCHHHH
Confidence 68889999999999987664
No 211
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=44.62 E-value=9 Score=18.16 Aligned_cols=20 Identities=25% Similarity=0.610 Sum_probs=16.2
Q ss_pred hhhhhhcccCCcccccccccCC
Q 033059 95 ICRKCYARLHPRAVNCRKKKCG 116 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~~~c~ 116 (128)
.|..|...|......|.. ||
T Consensus 6 ~C~~C~~~N~~~~~~C~~--C~ 25 (30)
T PF00641_consen 6 KCPSCTFMNPASRSKCVA--CG 25 (30)
T ss_dssp EETTTTEEEESSSSB-TT--T-
T ss_pred cCCCCcCCchHHhhhhhC--cC
Confidence 588999999999999997 87
No 212
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=43.58 E-value=61 Score=18.34 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=29.7
Q ss_pred EEEEecCCCcHHHHHHHHHhhh--CCCCCCeEEEeCCEEcCC
Q 033059 13 ITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIFAGKQLED 52 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~--~ip~~~q~L~~~g~~L~d 52 (128)
-.+.|+.+.|..+|-+.+.+.. .-.+-..-++.+|..|.+
T Consensus 18 ~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~lr~ 59 (65)
T PF08154_consen 18 TPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEELRT 59 (65)
T ss_pred CCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEEeec
Confidence 4578888999999999988877 234445677788887653
No 213
>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=42.02 E-value=40 Score=21.89 Aligned_cols=61 Identities=18% Similarity=0.307 Sum_probs=35.3
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhC-CCC----CCeEEEe-----------------CCEE-cCCCCccccccccCCcEE
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEG-IPP----DQQRLIF-----------------AGKQ-LEDGRTLADYNIQKESTL 67 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~-ip~----~~q~L~~-----------------~g~~-L~d~~~L~~~gi~~g~~i 67 (128)
..+.|-.-.+.|+.||=..|.+..- .+. -.++++| .|.. -+|++||++++...|+.|
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyi 116 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYI 116 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EE
T ss_pred CeeEEEEcccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEE
Confidence 3566667789999999988876321 000 0123333 2332 367899999999999999
Q ss_pred EEEE
Q 033059 68 HLVL 71 (128)
Q Consensus 68 ~v~~ 71 (128)
.+.+
T Consensus 117 dvaI 120 (120)
T PF06487_consen 117 DVAI 120 (120)
T ss_dssp EEEE
T ss_pred EEeC
Confidence 8764
No 214
>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=41.83 E-value=80 Score=19.18 Aligned_cols=45 Identities=11% Similarity=0.214 Sum_probs=34.2
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCC-CeEEEeCC
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIFAG 47 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~-~q~L~~~g 47 (128)
+|.+.. +|..+...++++.|..+|.+++.+.+..+.+ .+.+.|-.
T Consensus 2 ~~K~~y-~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~D 47 (83)
T cd06404 2 RVKAAY-NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWID 47 (83)
T ss_pred eEEEEe-cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEEC
Confidence 344433 6778888999999999999999999987653 55666644
No 215
>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=41.71 E-value=37 Score=22.07 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=19.2
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCC
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQ 40 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~ 40 (128)
++|+.+.|+.+|-+.+++++|+.+..
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~lev~m 62 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYGLEVTM 62 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS-EEEE
T ss_pred EEEcCCCCHHHHHHHHHHHhCceEEE
Confidence 56666899999999999999987654
No 216
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=41.10 E-value=15 Score=20.42 Aligned_cols=20 Identities=20% Similarity=0.484 Sum_probs=16.7
Q ss_pred cHHHHHHHHHhhhCCCCCCe
Q 033059 22 TIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 22 tV~~LK~~i~~~~~ip~~~q 41 (128)
|+.++.+.+++.++++++++
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 57888999999999988764
No 217
>COG2029 Uncharacterized conserved protein [Function unknown]
Probab=40.68 E-value=10 Score=26.20 Aligned_cols=29 Identities=21% Similarity=0.437 Sum_probs=20.8
Q ss_pred EEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 42 RLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 42 ~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
+|-|.|..+...+....|||+..+.|.+.
T Consensus 12 ~ldYdGSqI~~~wA~~~fgI~gdSiVvfr 40 (189)
T COG2029 12 RLDYDGSQIRSAWAYRNFGIKGDSIVVFR 40 (189)
T ss_pred cccCchhhhhhhHhHhhcCcCCceEEEEe
Confidence 36677777777777888888776666554
No 218
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=40.58 E-value=44 Score=21.51 Aligned_cols=44 Identities=11% Similarity=0.184 Sum_probs=32.1
Q ss_pred EEecCCCcHHHHHHHHHhhhCCCCCCeEEE-eCCEEcCCCCcccc
Q 033059 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLAD 58 (128)
Q Consensus 15 i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~-~~g~~L~d~~~L~~ 58 (128)
+-|+.+.||+++-..|..+..++|++--++ .++....-..++++
T Consensus 49 yLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~p~ts~~ms~ 93 (116)
T KOG1654|consen 49 YLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTSPPTSATMSA 93 (116)
T ss_pred eeccccccHHHHHHHHHHHhccChhHeEEEEEcCcCCcchhhHHH
Confidence 457788999999999999999998876555 45554444444443
No 219
>KOG2013 consensus SMT3/SUMO-activating complex, catalytic component UBA2 [Posttranslational modification, protein turnover, chaperones]
Probab=40.09 E-value=53 Score=26.84 Aligned_cols=56 Identities=23% Similarity=0.365 Sum_probs=35.5
Q ss_pred EEEEec-CCCcHHHHHHHHH-hhhCCCCCCeEEEeCCEEc-----C--CCCccccccccCCcEEEEE
Q 033059 13 ITLEVE-SSDTIDNVKAKIQ-DKEGIPPDQQRLIFAGKQL-----E--DGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 13 ~~i~v~-~~~tV~~LK~~i~-~~~~ip~~~q~L~~~g~~L-----~--d~~~L~~~gi~~g~~i~v~ 70 (128)
..+.+. ...|+.+|-..|- .+++..| ++.|.+ ...+ + .+++|+++||.+|+.|.+.
T Consensus 445 ~~l~ln~~~~~~~~L~D~ivk~r~~~~p-dvsll~-~~Li~~~d~e~n~~k~lsel~i~ngsli~~~ 509 (603)
T KOG2013|consen 445 LVLELNTRKSTLRDLVDKIVKTRLGYLP-DVSLLD-DDLIDDMDFEDNLDKTLSELGILNGSLINVK 509 (603)
T ss_pred eEEEeccccchHHHHHHHHHHHHhccCc-ccchhh-hhhcccccchhhhhhhHHhhCCCCCceEeee
Confidence 345555 3578888888774 4556544 444433 2222 1 3679999999999976554
No 220
>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=39.23 E-value=1.1e+02 Score=20.82 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=29.8
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccc
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~ 59 (128)
+.+++.....+.++++...+.+-++- . +.-|+-+....|++||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~pF~y---~-i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLPFGY---E-VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCCCce---E-eeeeeEeecCCchhhh
Confidence 56666677778888777766654332 1 2467788888899888
No 221
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=39.11 E-value=36 Score=21.81 Aligned_cols=27 Identities=26% Similarity=0.634 Sum_probs=14.1
Q ss_pred HHHHHHHHhhhCCCCCCeEEEeCCEEcC
Q 033059 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLE 51 (128)
Q Consensus 24 ~~LK~~i~~~~~ip~~~q~L~~~g~~L~ 51 (128)
...++.+.+ .++++++..++++|-.++
T Consensus 148 ~~~~~~l~~-~~~~~~ki~vI~ngid~~ 174 (177)
T PF13439_consen 148 ESTKDELIK-FGIPPEKIHVIYNGIDTD 174 (177)
T ss_dssp HHHHHHHHH-HT--SS-EEE----B-CC
T ss_pred HHHHHHHHH-hCCcccCCEEEECCccHH
Confidence 356677777 899999999999997654
No 222
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=37.89 E-value=46 Score=27.74 Aligned_cols=36 Identities=19% Similarity=0.368 Sum_probs=25.9
Q ss_pred EEEEEeCCCCEEEEEecCC---------CcHHHHHHHHHhhhCCC
Q 033059 2 QIFVKTLTGKTITLEVESS---------DTIDNVKAKIQDKEGIP 37 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~---------~tV~~LK~~i~~~~~ip 37 (128)
.|+|...+|++..+..... .|+.+||.+|++++|+.
T Consensus 250 ~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~ 294 (603)
T PRK05841 250 NITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLD 294 (603)
T ss_pred EEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhccccc
Confidence 5777777787655443322 57999999999988864
No 223
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=36.80 E-value=1.1e+02 Score=23.49 Aligned_cols=36 Identities=14% Similarity=0.248 Sum_probs=24.4
Q ss_pred EEEEecC-CCcHHHHHHHHHhhhC--CCCCCeEEEeCCE
Q 033059 13 ITLEVES-SDTIDNVKAKIQDKEG--IPPDQQRLIFAGK 48 (128)
Q Consensus 13 ~~i~v~~-~~tV~~LK~~i~~~~~--ip~~~q~L~~~g~ 48 (128)
..|.++. ..+|.|||.+|-.+-. --.+-+-|+|+|.
T Consensus 16 SRI~FdGTGl~vfdlKrEII~q~Klg~g~DFdLl~yn~~ 54 (427)
T COG5222 16 SRISFDGTGLPVFDLKREIINQRKLGSGKDFDLLFYNGE 54 (427)
T ss_pred ceeEeccCCccHHHHHHHHHHhhhccCCccceEEEecCC
Confidence 3466664 5899999999865543 3345566778886
No 224
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=36.79 E-value=9.9 Score=21.54 Aligned_cols=21 Identities=33% Similarity=0.676 Sum_probs=17.0
Q ss_pred chhhhhhhhcccCCccccccc
Q 033059 92 DKMICRKCYARLHPRAVNCRK 112 (128)
Q Consensus 92 ~k~~Cr~c~~r~~~~~~~c~~ 112 (128)
..-.|.+|+..+..++.+||+
T Consensus 24 ~~F~CPnCG~~~I~RC~~CRk 44 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCRK 44 (59)
T ss_pred CEeeCCCCCCeeEeechhHHh
Confidence 334688998888899999998
No 225
>COG3369 Zinc finger domain containing protein (CDGSH-type) [Function unknown]
Probab=35.69 E-value=17 Score=21.71 Aligned_cols=10 Identities=60% Similarity=1.371 Sum_probs=5.5
Q ss_pred cccccccCCCCCC
Q 033059 108 VNCRKKKCGHSNQ 120 (128)
Q Consensus 108 ~~c~~~~c~~~~~ 120 (128)
.=|| ||+|.|
T Consensus 32 ~LCr---CG~S~N 41 (78)
T COG3369 32 ALCR---CGHSEN 41 (78)
T ss_pred EEEe---ccCcCC
Confidence 4455 666654
No 226
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=35.57 E-value=60 Score=22.16 Aligned_cols=84 Identities=19% Similarity=0.266 Sum_probs=46.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCC-------CCeEEEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-------DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~-------~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|.|.+ +.+|+.+.++++|.+++.++-..--..+|... ..-.++++|+....-.++... -+|..|.=+--+
T Consensus 2 ~~i~l-tvNG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~~--~~G~~ItTiEGl 78 (156)
T COG2080 2 MPITL-TVNGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAVQ--AEGAEITTIEGL 78 (156)
T ss_pred CcEEE-EECCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHHH--hCCCeEEEeecc
Confidence 34555 34889999999999997776442222222211 223677888876554444332 456666544433
Q ss_pred cC--CCCCchhHHHHH
Q 033059 74 RG--GIIEPSLMALAR 87 (128)
Q Consensus 74 ~g--g~~~~~~~~~a~ 87 (128)
.+ +..++...+...
T Consensus 79 ~~~~~~l~~vQ~Af~e 94 (156)
T COG2080 79 AKKDGGLHPVQQAFLE 94 (156)
T ss_pred cCCCCCcCHHHHHHHH
Confidence 32 223555444443
No 227
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 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 family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=35.37 E-value=73 Score=19.19 Aligned_cols=25 Identities=12% Similarity=0.271 Sum_probs=19.5
Q ss_pred CCCcHHHHHHHHHhhhCCCCCCeEE
Q 033059 19 SSDTIDNVKAKIQDKEGIPPDQQRL 43 (128)
Q Consensus 19 ~~~tV~~LK~~i~~~~~ip~~~q~L 43 (128)
++-+-.+++++|++.++++++.+.+
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv 35 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVV 35 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEE
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEE
Confidence 5667999999999999998777654
No 228
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=34.66 E-value=1.1e+02 Score=18.60 Aligned_cols=68 Identities=15% Similarity=0.187 Sum_probs=34.1
Q ss_pred CEEEEEeC--CC-CEEEEEecCCCcHHHHHHHH--Hhh-hCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEee
Q 033059 1 MQIFVKTL--TG-KTITLEVESSDTIDNVKAKI--QDK-EGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 1 m~i~vk~~--~g-~~~~i~v~~~~tV~~LK~~i--~~~-~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~ 73 (128)
|+|.|-.. +. ....+++++.+||.+=-+.- .+. -.+..+..++---|+....+. -+++|+.|.++-.+
T Consensus 1 i~VeV~yA~p~~q~~~~l~vp~GtTv~~Ai~~Sgi~~~~p~idl~~~~vGIfGk~~~~d~-----~L~~GDRVEIYRPL 74 (84)
T PF03658_consen 1 IRVEVAYALPERQVILTLEVPEGTTVAQAIEASGILEQFPEIDLEKNKVGIFGKLVKLDT-----VLRDGDRVEIYRPL 74 (84)
T ss_dssp EEEEEEEEETTCEEEEEEEEETT-BHHHHHHHHTHHHH-TT--TTTSEEEEEE-S--TT------B--TT-EEEEE-S-
T ss_pred CEEEEEEECCCeEEEEEEECCCcCcHHHHHHHcCchhhCcccCcccceeeeeeeEcCCCC-----cCCCCCEEEEeccC
Confidence 45555432 22 23567899999988765432 222 246667777765666555443 45679999987554
No 229
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=34.61 E-value=58 Score=20.75 Aligned_cols=56 Identities=13% Similarity=0.122 Sum_probs=34.9
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCC-----------CCeEEEeCCEE-cCCCCccccccccCCcEE
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPP-----------DQQRLIFAGKQ-LEDGRTLADYNIQKESTL 67 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~-----------~~q~L~~~g~~-L~d~~~L~~~gi~~g~~i 67 (128)
+|.+++.+.+||.++-..|.+...-+. ..--+..||+. |.=...+.++.-..+..|
T Consensus 20 ~y~v~~~~~~tVLd~L~~Ik~~~D~sLafr~sCr~giCGsCam~ING~~~LAC~t~v~~~~~~~~~~i 87 (110)
T PF13085_consen 20 EYEVPVEPGMTVLDALNYIKEEQDPSLAFRYSCRSGICGSCAMRINGRPRLACKTQVDDLIEKFGNVI 87 (110)
T ss_dssp EEEEEGGSTSBHHHHHHHHHHHT-TT--B--SSSSSSSSTTEEEETTEEEEGGGSBGGGCTTSETBEE
T ss_pred EEEecCCCCCcHHHHHHHHHhccCCCeEEEecCCCCCCCCCEEEECCceecceeeEchhccCCCcceE
Confidence 477888899999999999988753221 11245568885 555555655543333344
No 230
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=34.55 E-value=90 Score=19.03 Aligned_cols=26 Identities=15% Similarity=0.178 Sum_probs=20.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHH
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVK 27 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK 27 (128)
+|++...++....+++++..||.+.-
T Consensus 4 ~v~~~~~~~~~~~~~~~~g~tLLda~ 29 (97)
T TIGR02008 4 KVTLVNPDGGEETIECPDDQYILDAA 29 (97)
T ss_pred EEEEEECCCCEEEEEECCCCcHHHHH
Confidence 56666567778889999999987763
No 231
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=34.20 E-value=15 Score=19.87 Aligned_cols=16 Identities=31% Similarity=0.621 Sum_probs=8.9
Q ss_pred ccchhhhhhhhcccCC
Q 033059 90 NQDKMICRKCYARLHP 105 (128)
Q Consensus 90 ~~~k~~Cr~c~~r~~~ 105 (128)
.+.+.+|+.|+.++.-
T Consensus 19 ~Cgf~IC~~C~~~i~~ 34 (48)
T PF14570_consen 19 ECGFQICRFCYHDILE 34 (48)
T ss_dssp TTS----HHHHHHHTT
T ss_pred cCCCcHHHHHHHHHHh
Confidence 3667899999977764
No 232
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=33.89 E-value=26 Score=20.26 Aligned_cols=16 Identities=13% Similarity=0.308 Sum_probs=10.5
Q ss_pred CccccccccCCcEEEE
Q 033059 54 RTLADYNIQKESTLHL 69 (128)
Q Consensus 54 ~~L~~~gi~~g~~i~v 69 (128)
..|...|+++|++|.+
T Consensus 47 ~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHTTT--TT-EEEE
T ss_pred HHHHHcCCCCCCEEEE
Confidence 4678889999999975
No 233
>PF04017 DUF366: Domain of unknown function (DUF366); InterPro: IPR007162 This is an archaeal family of unknown function.; PDB: 2DDZ_E.
Probab=33.51 E-value=27 Score=24.42 Aligned_cols=30 Identities=20% Similarity=0.317 Sum_probs=16.1
Q ss_pred EEEeCCEEcCCCCccccccccCCcEEEEEE
Q 033059 42 RLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 42 ~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~ 71 (128)
++-|.|.+|..-+....+||+.++.|.+.-
T Consensus 9 ~i~YDGsqi~slWAy~~fgi~gdSIV~FrG 38 (183)
T PF04017_consen 9 RIDYDGSQISSLWAYRNFGIQGDSIVVFRG 38 (183)
T ss_dssp E--BSSGGGSTTHHHHHH---SSEEEEEEE
T ss_pred CcCcChhhhhHHHHHHhcCCCCCeEEEEEc
Confidence 455677777766777777776666665543
No 234
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=32.94 E-value=1.1e+02 Score=18.03 Aligned_cols=64 Identities=11% Similarity=0.160 Sum_probs=35.3
Q ss_pred EEEEEeCCCC---EEEEEecCCCcHHHHHHHHHhhhC--CCCCCe---EEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 2 QIFVKTLTGK---TITLEVESSDTIDNVKAKIQDKEG--IPPDQQ---RLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 2 ~i~vk~~~g~---~~~i~v~~~~tV~~LK~~i~~~~~--ip~~~q---~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
+|+-|..++. .-.+.+...+||.|+=.+|....+ ...... ..-++|+...-+ +-+++|++|.++
T Consensus 3 rvytk~~g~~~d~~~~liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~s~~~~gq~Vgl~-----~~L~d~DvVeI~ 74 (75)
T cd01666 3 RVYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQRVGLD-----HVLEDEDVVQIV 74 (75)
T ss_pred EEEeCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHhCCeeEEeccCCcCCCeECCCC-----CEecCCCEEEEe
Confidence 4455544322 234778889999999998875432 111110 011455555443 344668888764
No 235
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=32.90 E-value=53 Score=20.70 Aligned_cols=24 Identities=25% Similarity=0.523 Sum_probs=17.6
Q ss_pred HHHHHHHHHhhhCCCCCCeEEEeC
Q 033059 23 IDNVKAKIQDKEGIPPDQQRLIFA 46 (128)
Q Consensus 23 V~~LK~~i~~~~~ip~~~q~L~~~ 46 (128)
...|-+.++++.|||++++-+.|.
T Consensus 76 s~~i~~~l~~~LgIp~~Riyi~f~ 99 (114)
T PF01187_consen 76 SAAITEFLEEELGIPPDRIYINFH 99 (114)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEEE
T ss_pred HHHHHHHHHHHhCCCcCceEEEEE
Confidence 556777788999999999988764
No 236
>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=32.76 E-value=1.6e+02 Score=21.00 Aligned_cols=71 Identities=11% Similarity=0.105 Sum_probs=45.3
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhC--CCCCCeEE-EeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRL-IFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~--ip~~~q~L-~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
|.++...|.....++..+.....|-..++.... ...+...+ =.+|-+|+....+. .+-..++.+.|-.+..
T Consensus 152 v~~~He~G~~~r~Dl~~~~~~~~i~~~~a~~~~~~~~~~~~~~~G~SG~vl~~~~~~~-~~~~~~~~FIVRGr~~ 225 (245)
T PF01577_consen 152 VETKHERGKRKRRDLNIDEFTESILRLLAKKTYRGRIVDDIKIKGDSGLVLPRRKLIG-FGRTRDDFFIVRGRHE 225 (245)
T ss_pred EECCccCCCcccEECCccHHHHHHHHHHHhhcCCCcccccceeccceEEEEeCCcccC-ccccCCCeEEEEeccC
Confidence 444566677677788877788888888876643 44556666 35566777666666 6655666555544443
No 237
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=32.44 E-value=73 Score=19.26 Aligned_cols=40 Identities=18% Similarity=0.336 Sum_probs=29.8
Q ss_pred EEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE--eCCEEcC
Q 033059 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE 51 (128)
Q Consensus 12 ~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~--~~g~~L~ 51 (128)
.+.+-++.+.+..+|.+.|....+--.++..++ |.|..+.
T Consensus 9 DiS~~v~~~~~~~~i~~~i~~~~~~~l~~v~l~D~y~~~~l~ 50 (94)
T PF03147_consen 9 DISFVVPEDVPFADIEEVIRSAGGPLLESVELFDVYRGEKLP 50 (94)
T ss_dssp EEEEEEETTS-HHHHHHHHHHHHTTTEEEEEEEEEEESTTSG
T ss_pred cEEEEECCCCCHHHHHHHHHHhCccceeEEEEEEEEcCCCCC
Confidence 467788899999999999988876556677775 7775554
No 238
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=32.39 E-value=33 Score=19.68 Aligned_cols=24 Identities=21% Similarity=0.558 Sum_probs=19.1
Q ss_pred chhhhhhhhcccCCcccccccccCCC
Q 033059 92 DKMICRKCYARLHPRAVNCRKKKCGH 117 (128)
Q Consensus 92 ~k~~Cr~c~~r~~~~~~~c~~~~c~~ 117 (128)
..++|++|-...+.+..-|-- ||+
T Consensus 3 ~~kAC~~Ck~l~~~d~e~CP~--Cgs 26 (64)
T COG2093 3 TEKACKNCKRLTPEDTEICPV--CGS 26 (64)
T ss_pred hhHHHhhccccCCCCCccCCC--CCC
Confidence 357899998888888888886 874
No 239
>PF04023 FeoA: FeoA domain; InterPro: IPR007167 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria. This domain also occurs at the C terminus in related proteins. The transporter Feo is composed of three proteins: FeoA a small, soluble SH3-domain protein probably located in the cytosol; FeoB, a large protein with a cytosolic N-terminal G-protein domain and a C-terminal integral inner-membrane domain containing two 'Gate' motifs which likely functions as the Fe2+ permease; and FeoC, a small protein apparently functioning as an [Fe-S]-dependent transcriptional repressor [, ]. Feo allows the bacterial cell to acquire iron from its environment. ; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 1G3T_A 1C0W_B 1BI3_A 1QVP_A 1BI1_A 1BYM_A 2QQB_A ....
Probab=31.95 E-value=52 Score=18.63 Aligned_cols=21 Identities=24% Similarity=0.374 Sum_probs=16.0
Q ss_pred CccccccccCCcEEEEEEeec
Q 033059 54 RTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 54 ~~L~~~gi~~g~~i~v~~~~~ 74 (128)
..|.++|+.+|+.|.+.-+..
T Consensus 26 ~~L~~lGl~~G~~i~v~~~~~ 46 (74)
T PF04023_consen 26 RRLADLGLTPGSEITVIRKNP 46 (74)
T ss_dssp HHHHHCT-STTEEEEEEEEET
T ss_pred HHHHHCCCCCCCEEEEEEeCC
Confidence 468899999999999886543
No 240
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=31.78 E-value=1.2e+02 Score=19.26 Aligned_cols=27 Identities=7% Similarity=0.096 Sum_probs=21.3
Q ss_pred CEEEEEeCCCCEEEEEecCCCcHHHHH
Q 033059 1 MQIFVKTLTGKTITLEVESSDTIDNVK 27 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~~~tV~~LK 27 (128)
++|++...+|....+++.+..|+.+.-
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a~ 27 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEAA 27 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHHH
Confidence 467777788988999999888876653
No 241
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=30.86 E-value=95 Score=22.51 Aligned_cols=24 Identities=21% Similarity=0.182 Sum_probs=19.8
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhh
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKE 34 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~ 34 (128)
++|.+++++.+||.++-..|.+..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~ 47 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQ 47 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcC
Confidence 447788889999999999998754
No 242
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=30.29 E-value=36 Score=19.60 Aligned_cols=23 Identities=22% Similarity=0.458 Sum_probs=15.4
Q ss_pred chhhhhhhhcccCCcccccccccCCCC
Q 033059 92 DKMICRKCYARLHPRAVNCRKKKCGHS 118 (128)
Q Consensus 92 ~k~~Cr~c~~r~~~~~~~c~~~~c~~~ 118 (128)
..++|++|-.... ...|-- ||++
T Consensus 4 ~~~AC~~C~~i~~--~~~Cp~--Cgs~ 26 (64)
T PRK06393 4 QYRACKKCKRLTP--EKTCPV--HGDE 26 (64)
T ss_pred hhhhHhhCCcccC--CCcCCC--CCCC
Confidence 4678999987663 346654 7754
No 243
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=29.95 E-value=22 Score=17.46 Aligned_cols=20 Identities=35% Similarity=1.019 Sum_probs=9.1
Q ss_pred hhhhhcccCC---cccccccccCCC
Q 033059 96 CRKCYARLHP---RAVNCRKKKCGH 117 (128)
Q Consensus 96 Cr~c~~r~~~---~~~~c~~~~c~~ 117 (128)
|.+|.+.+.. +...|.. |||
T Consensus 3 C~~Cg~~~~~~~~~~irC~~--CG~ 25 (32)
T PF03604_consen 3 CGECGAEVELKPGDPIRCPE--CGH 25 (32)
T ss_dssp ESSSSSSE-BSTSSTSSBSS--SS-
T ss_pred CCcCCCeeEcCCCCcEECCc--CCC
Confidence 4555544333 2356665 763
No 244
>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=29.78 E-value=1.5e+02 Score=20.18 Aligned_cols=28 Identities=25% Similarity=0.285 Sum_probs=20.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCCCC
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQ 40 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~~~ 40 (128)
..|.|+.+.|+.+|-..|...++..-..
T Consensus 20 Rri~Vp~~~tl~~Lh~~Iq~afgw~~~H 47 (179)
T PF07929_consen 20 RRIEVPADITLADLHEVIQAAFGWDDDH 47 (179)
T ss_dssp EEEEEETT-BHHHHHHHHHHHTT----S
T ss_pred EEEEECCCCCHHHHHHHHHHHhCcCCCE
Confidence 4589999999999999999999876543
No 245
>cd01778 RASSF1_RA Ubiquitin-like domain of RASSF1 tumour supproessor protein. RASSF1 (also known as RASSF3 and NORE1) is a tumour suppressor protein with a C-terminal Ras-associating (RA) domain that binds Ras. RASSF1 also binds the proapoptotic protein kinase MST1 and is thus thought to regulate the proapoptotic signalling pathway. RASSF1 also associates with microtubule-associated proteins like MAP1B and regulates tubulin polymerization. RASSF1 also binds CDC20 and regulates mitosis by inhibiting the anaphase-promoting complex and preventing degradation of cyclin A and cyclin B until the spindle checkpoint becomes fully operational.
Probab=29.77 E-value=1.5e+02 Score=18.58 Aligned_cols=34 Identities=15% Similarity=0.139 Sum_probs=27.3
Q ss_pred CCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCe
Q 033059 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 8 ~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q 41 (128)
+.+..-.+.|+.++|+.++-+.+-.++.+.-+.+
T Consensus 14 p~~s~k~v~IsS~tTt~eVI~~LL~KF~v~~nP~ 47 (96)
T cd01778 14 PKDTAKHLHISSKTTVREVIEALLKKFLVVDNPR 47 (96)
T ss_pred cCCceeEEEEecCCcHHHHHHHHHHhheeccCCc
Confidence 3566778999999999999999999988754443
No 246
>PF07971 Glyco_hydro_92: Glycosyl hydrolase family 92; InterPro: IPR012939 This domain occurs within alpha-1,2-mannosidases, which remove alpha-1,2-linked mannose residues from Man(9)(GlcNAc)(2) by hydrolysis. They are critical for the maturation of N-linked oligosaccharides and ER-associated degradation [].; PDB: 2WW2_C 2WVY_B 2WVZ_B 2WW0_H 2WZS_D 2WVX_B 2WW1_D 2WW3_C.
Probab=29.64 E-value=1.5e+02 Score=24.21 Aligned_cols=57 Identities=21% Similarity=0.277 Sum_probs=35.4
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEe
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~ 72 (128)
+++|+..+|+++.|...... .-.+--|.+.++|+.++... |..-.|..|.+|++.+.
T Consensus 443 ~~~i~l~~g~~~~I~a~n~s-------------~~n~YIqsv~lNGk~~~~~~-i~~~~i~~GG~L~f~mg 499 (502)
T PF07971_consen 443 KVTIHLGNGKTFTIEAKNNS-------------AENIYIQSVTLNGKPLTRPW-ITHDDIMNGGTLEFEMG 499 (502)
T ss_dssp EEEEE-CCC-EEEEE-TT-B-------------TTB-EEEEEEETTEEE-SSE-EEHHHHHC-EEEEEEEE
T ss_pred eEEEEcCCCCEEEEEecCCC-------------CCCceEeEEEECCEECcCCE-EeHHHHhCCCEEEEEeC
Confidence 46777778888888876533 00123467889999996554 66667889999988763
No 247
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=29.47 E-value=93 Score=19.52 Aligned_cols=25 Identities=4% Similarity=0.131 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 23 IDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 23 V~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
...|=+.+++..|+|++++.+.|..
T Consensus 78 ~~~i~~~l~~~lgi~~~rv~I~f~~ 102 (116)
T PTZ00397 78 AAAITKILASHLKVKSERVYIEFKD 102 (116)
T ss_pred HHHHHHHHHHHhCcCcccEEEEEEE
Confidence 3445556667789999999887643
No 248
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=29.38 E-value=37 Score=19.64 Aligned_cols=18 Identities=11% Similarity=0.130 Sum_probs=14.9
Q ss_pred CCccccccccCCcEEEEE
Q 033059 53 GRTLADYNIQKESTLHLV 70 (128)
Q Consensus 53 ~~~L~~~gi~~g~~i~v~ 70 (128)
+..|.+.|+++|++|.+.
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 457889999999999763
No 249
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=29.25 E-value=64 Score=16.27 Aligned_cols=13 Identities=15% Similarity=0.391 Sum_probs=9.8
Q ss_pred CCCeEEEeCCEEc
Q 033059 38 PDQQRLIFAGKQL 50 (128)
Q Consensus 38 ~~~q~L~~~g~~L 50 (128)
...+.|+|+|++.
T Consensus 5 ~~qLTIfY~G~V~ 17 (36)
T PF06200_consen 5 TAQLTIFYGGQVC 17 (36)
T ss_pred CCcEEEEECCEEE
Confidence 3566888999965
No 250
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=28.36 E-value=1.3e+02 Score=20.20 Aligned_cols=25 Identities=20% Similarity=0.280 Sum_probs=21.0
Q ss_pred EEEEEeCCCCEEEEEecCCCcHHHH
Q 033059 2 QIFVKTLTGKTITLEVESSDTIDNV 26 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~~~tV~~L 26 (128)
+|+|...+|....+++.+..|+.+.
T Consensus 37 ~I~~~~~dG~~~~v~~~~G~sLLea 61 (143)
T PTZ00490 37 KVCVKKRDGTHCDVEVPVGMSLMHA 61 (143)
T ss_pred EEEEEcCCCCEEEEEECCCccHHHH
Confidence 5788888898899999998888775
No 251
>PF10787 YfmQ: Uncharacterised protein from bacillus cereus group; InterPro: IPR019723 This entry represents proteins conserved in the Bacillus cereus group. Several members are called YfmQ but the function is not known.
Probab=28.15 E-value=63 Score=21.70 Aligned_cols=48 Identities=17% Similarity=0.315 Sum_probs=36.8
Q ss_pred CCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCc------------cccccccCCcE
Q 033059 19 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT------------LADYNIQKEST 66 (128)
Q Consensus 19 ~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~------------L~~~gi~~g~~ 66 (128)
|+..|+.|-.+.+-.-.++.+.-.+.++|+.|+++.. |..|.+.+|+.
T Consensus 23 Pt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~K~~~I~~FNeAiFLekyY~~P~~e 82 (149)
T PF10787_consen 23 PTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGEDKSQIIDQFNEAIFLEKYYIPPGNE 82 (149)
T ss_pred cHHHHHHHHHHheecccccccceEEEECCeecCchHHHHHHHHHhHHHHHHhhccCCCCc
Confidence 6667888877777777777788889999999987543 67778777665
No 252
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=28.10 E-value=1e+02 Score=16.27 Aligned_cols=55 Identities=15% Similarity=0.197 Sum_probs=32.1
Q ss_pred eCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEE
Q 033059 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 7 ~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
..+|. .++++..+|+.++-+.+.. +++..-.....+|+..+-+.. +.+|++|.++
T Consensus 5 ~~~g~--~~~~~~~~t~~~~~~~~~~--~~~~~~va~~vng~~vdl~~~-----l~~~~~ve~v 59 (60)
T cd01668 5 TPKGE--IIELPAGATVLDFAYAIHT--EIGNRCVGAKVNGKLVPLSTV-----LKDGDIVEII 59 (60)
T ss_pred CCCCC--EEEcCCCCCHHHHHHHHCh--HhhhheEEEEECCEECCCCCC-----CCCCCEEEEE
Confidence 34555 3567788899997665532 233333445578887654433 4567777654
No 253
>PRK06959 putative threonine-phosphate decarboxylase; Provisional
Probab=28.07 E-value=76 Score=23.85 Aligned_cols=28 Identities=29% Similarity=0.325 Sum_probs=21.4
Q ss_pred CCCcHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 19 SSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 19 ~~~tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
|+.. .+|++.|++.+|++..++.++.+|
T Consensus 52 p~~~-~~L~~~ia~~~~~~~~~~I~i~~G 79 (339)
T PRK06959 52 PEDD-DGLAACAARYYGAPDAAHVLPVAG 79 (339)
T ss_pred CCch-HHHHHHHHHHhCCCCcccEEECcC
Confidence 4555 899999999999975455666666
No 254
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=27.97 E-value=1.6e+02 Score=18.44 Aligned_cols=32 Identities=22% Similarity=0.418 Sum_probs=25.1
Q ss_pred EEEEecCCCcHHHHHHHHHhhhCCCC---CCeEEE
Q 033059 13 ITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLI 44 (128)
Q Consensus 13 ~~i~v~~~~tV~~LK~~i~~~~~ip~---~~q~L~ 44 (128)
..+.|+.++|+.++-...-.++|+.- ++..|+
T Consensus 19 ~sv~V~~~tt~~dvv~eaL~kfGl~~~~~~~y~Lv 53 (97)
T cd01783 19 VSIRVNKDTTVQDVILEVLPLFGLQAECPESFRLI 53 (97)
T ss_pred EEEEecccchHHHHHHHHHHHhCcccCCccccEEE
Confidence 46788899999999999999998654 455553
No 255
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=27.64 E-value=1.6e+02 Score=18.51 Aligned_cols=40 Identities=10% Similarity=0.265 Sum_probs=27.3
Q ss_pred CEEEEEecCCCcHHHHHHHHHhhhC-CCCCCeEEE----eCCEEc
Q 033059 11 KTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI----FAGKQL 50 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~~~-ip~~~q~L~----~~g~~L 50 (128)
....+.+.++.+..++++++.+... ++.++..|+ ++|.+-
T Consensus 29 ~i~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vivltDl~GGSp~ 73 (116)
T TIGR00824 29 NVGAVPFVPGENAETLQEKYNAALADLDTEEEVLFLVDIFGGSPY 73 (116)
T ss_pred CeEEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCHH
Confidence 3566788889999999999877653 555554443 566653
No 256
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=27.27 E-value=49 Score=16.59 Aligned_cols=15 Identities=20% Similarity=0.304 Sum_probs=10.0
Q ss_pred CCCcHHHHHHHHHhh
Q 033059 19 SSDTIDNVKAKIQDK 33 (128)
Q Consensus 19 ~~~tV~~LK~~i~~~ 33 (128)
.+.||.+||..+.+.
T Consensus 2 ~sltV~~Lk~iL~~~ 16 (35)
T PF12949_consen 2 KSLTVAQLKRILDEH 16 (35)
T ss_dssp TT--SHHHHHHHHHH
T ss_pred CcCcHHHHHHHHHHc
Confidence 467999999887654
No 257
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=25.96 E-value=20 Score=26.58 Aligned_cols=64 Identities=23% Similarity=0.371 Sum_probs=48.0
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEEeCCE--------------------EcCC----CCccccccccCC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK--------------------QLED----GRTLADYNIQKE 64 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~~~g~--------------------~L~d----~~~L~~~gi~~g 64 (128)
.|..+.++++..++|.|.+..+++...+.+...++++.+- .+.| ++.++...+..|
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~vss~~~kll~~~llk~iahl~~p~mkEh~f~vti~~Dk~irnq~~sg~nvn~g 90 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAVVSSKPNKLLALNLLKEIAHLVSPLMKEHHFKVTILVDKYIRNQRLSGMNVNHG 90 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeeeeccchHHHHhhhhhhhhhhhhhhhhccccceeEEeehhHHHhhhhhccccCCc
Confidence 4677889999999999999999988888877766655431 1222 234666778899
Q ss_pred cEEEEEEe
Q 033059 65 STLHLVLR 72 (128)
Q Consensus 65 ~~i~v~~~ 72 (128)
+++.+..+
T Consensus 91 ski~lslr 98 (278)
T KOG4842|consen 91 SKIMLSLR 98 (278)
T ss_pred ceEEEEee
Confidence 99998888
No 258
>COG1978 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.94 E-value=1.9e+02 Score=19.41 Aligned_cols=34 Identities=15% Similarity=0.317 Sum_probs=26.5
Q ss_pred EEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCC
Q 033059 4 FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIP 37 (128)
Q Consensus 4 ~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip 37 (128)
..++-.|..+..++.....+.+|+++|..++...
T Consensus 53 ~~r~gsGa~~f~~v~~v~ki~slrqrI~~Eta~S 86 (152)
T COG1978 53 HHRSGSGAKVFYNVEKVPKINSLRQRIMEETARS 86 (152)
T ss_pred EEEcCCCcEEEEEeEEcCchhhHHHHHHHHHHHH
Confidence 4466678888888887777999999998876543
No 259
>PRK08453 fliD flagellar capping protein; Validated
Probab=25.81 E-value=76 Score=26.88 Aligned_cols=24 Identities=25% Similarity=0.518 Sum_probs=22.2
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHh
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQD 32 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~ 32 (128)
+|+++.|+|+..+|+.+|.++|-.
T Consensus 136 ~G~~~sIdi~~gtTL~~L~~~INd 159 (673)
T PRK08453 136 QGKDYAIDIKAGMTLGDVAQSITD 159 (673)
T ss_pred CCEEEEEEeCCCCcHHHHHHHhcC
Confidence 688999999999999999999984
No 260
>KOG4261 consensus Talin [Cytoskeleton]
Probab=25.60 E-value=1.9e+02 Score=25.29 Aligned_cols=66 Identities=24% Similarity=0.336 Sum_probs=46.7
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhC---CCCCCeEEEe------CCEEcCCCCccccccccCCcEEEE
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIF------AGKQLEDGRTLADYNIQKESTLHL 69 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~---ip~~~q~L~~------~g~~L~d~~~L~~~gi~~g~~i~v 69 (128)
+.|... +-.-++.+.|+++|.|--..|.+++- .-+.+..|+. +|--|+...+|.+|-+.++++|..
T Consensus 6 l~i~~~-~v~ktmqfepst~vyda~~~ire~~~~~~~~a~~yglf~~de~~~k~~wle~grt~~~y~~~n~d~~ey 80 (1003)
T KOG4261|consen 6 LKISSA-NVVKTMQFEPSTLVYDACKVIREKFAEADVGASEYGLFLSDEDPSKGIWLEAGRTLDYYMLRNGDTLEY 80 (1003)
T ss_pred EEEEec-ceeeeeeecCchHHHHHHHHHHHHhhhcccCchhcceeeecCCcccceeecCCccHHHHHHhcccccch
Confidence 444332 45677899999999998887877653 2245555543 344578889999999999998863
No 261
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=25.07 E-value=74 Score=15.60 Aligned_cols=18 Identities=17% Similarity=0.479 Sum_probs=12.4
Q ss_pred CCcHHHHHHHHHhhhCCCC
Q 033059 20 SDTIDNVKAKIQDKEGIPP 38 (128)
Q Consensus 20 ~~tV~~LK~~i~~~~~ip~ 38 (128)
.+||.+||+.+.+ .|+|.
T Consensus 3 ~l~v~eLk~~l~~-~gL~~ 20 (35)
T PF02037_consen 3 KLTVAELKEELKE-RGLST 20 (35)
T ss_dssp TSHHHHHHHHHHH-TTS-S
T ss_pred cCcHHHHHHHHHH-CCCCC
Confidence 5789999987655 45654
No 262
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=24.98 E-value=21 Score=20.32 Aligned_cols=20 Identities=35% Similarity=0.609 Sum_probs=15.1
Q ss_pred hhhhhhhhcccCCccccccc
Q 033059 93 KMICRKCYARLHPRAVNCRK 112 (128)
Q Consensus 93 k~~Cr~c~~r~~~~~~~c~~ 112 (128)
.-.|.+|+-.+..++..||+
T Consensus 27 ~F~CPnCGe~~I~Rc~~CRk 46 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKCRK 46 (61)
T ss_pred EeeCCCCCceeeehhhhHHH
Confidence 34578888777788888887
No 263
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=24.77 E-value=47 Score=18.92 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=13.6
Q ss_pred hhhhhhhcccCCcccccccccCCCC
Q 033059 94 MICRKCYARLHPRAVNCRKKKCGHS 118 (128)
Q Consensus 94 ~~Cr~c~~r~~~~~~~c~~~~c~~~ 118 (128)
.+|++|..... ...|-- ||++
T Consensus 4 kAC~~C~~i~~--~~~CP~--Cgs~ 24 (61)
T PRK08351 4 KACRHCHYITT--EDRCPV--CGSR 24 (61)
T ss_pred hhhhhCCcccC--CCcCCC--CcCC
Confidence 48999997763 335554 6644
No 264
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=24.30 E-value=1.2e+02 Score=16.30 Aligned_cols=24 Identities=17% Similarity=0.524 Sum_probs=15.2
Q ss_pred HHHHHHHHHhhhCCCCCCeEEEeC
Q 033059 23 IDNVKAKIQDKEGIPPDQQRLIFA 46 (128)
Q Consensus 23 V~~LK~~i~~~~~ip~~~q~L~~~ 46 (128)
+..+-+.+.+.+|.|++...+++.
T Consensus 20 ~~~it~~~~~~lg~~~~~i~V~i~ 43 (60)
T PF01361_consen 20 AEAITDAVVEVLGIPPERISVVIE 43 (60)
T ss_dssp HHHHHHHHHHHHTS-GGGEEEEEE
T ss_pred HHHHHHHHHHHhCcCCCeEEEEEE
Confidence 445555566678999888776553
No 265
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=24.07 E-value=65 Score=20.16 Aligned_cols=21 Identities=29% Similarity=0.651 Sum_probs=8.7
Q ss_pred HHHHHHhhhCCCCCCeEEEeCC
Q 033059 26 VKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 26 LK~~i~~~~~ip~~~q~L~~~g 47 (128)
+++.+.+ .+++++++.++++|
T Consensus 140 ~~~~l~~-~g~~~~ri~vipnG 160 (160)
T PF13579_consen 140 MRRYLRR-YGVPPDRIHVIPNG 160 (160)
T ss_dssp HHHHHHH-H---GGGEEE----
T ss_pred HHHHHHH-hCCCCCcEEEeCcC
Confidence 4444555 67777777777765
No 266
>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=23.92 E-value=93 Score=18.99 Aligned_cols=39 Identities=13% Similarity=0.286 Sum_probs=24.5
Q ss_pred CCCCCCeEEEeCCEEcCCCCccccccccCCcEEEEEEeec
Q 033059 35 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
Q Consensus 35 ~ip~~~q~L~~~g~~L~d~~~L~~~gi~~g~~i~v~~~~~ 74 (128)
.||+.+-+++|+|+.+.-. -+..-+|..|++|.+.-+..
T Consensus 5 ~i~vkra~Vly~g~k~~i~-d~~~~~v~Hge~VsffCknk 43 (85)
T PF09014_consen 5 KIPVKRARVLYNGEKVWIQ-DLFKNGVLHGEIVSFFCKNK 43 (85)
T ss_dssp --SSSS-EEEETTEEEEHH-HHTTT-BETT-EEEEEEEET
T ss_pred ccceeEEEEEECCEEechh-hcccCceeeCCEEEEEEcCC
Confidence 5788889999999976321 12334678899999887754
No 267
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=23.66 E-value=3.5 Score=23.41 Aligned_cols=22 Identities=27% Similarity=0.646 Sum_probs=17.5
Q ss_pred hhhhhhcccCCcccccccccCCC
Q 033059 95 ICRKCYARLHPRAVNCRKKKCGH 117 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~~~c~~ 117 (128)
-|..|+..++++-.+|+. .|+.
T Consensus 5 HC~~CG~~Ip~~~~fCS~-~C~~ 26 (59)
T PF09889_consen 5 HCPVCGKPIPPDESFCSP-KCRE 26 (59)
T ss_pred cCCcCCCcCCcchhhhCH-HHHH
Confidence 588999999999888864 4753
No 268
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=23.64 E-value=42 Score=17.78 Aligned_cols=22 Identities=32% Similarity=0.754 Sum_probs=18.8
Q ss_pred hhhhhhcccCCcccccccccCC
Q 033059 95 ICRKCYARLHPRAVNCRKKKCG 116 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~~~c~ 116 (128)
.|..|+..+.-++-.|..+.|+
T Consensus 13 kCp~CGt~NG~R~~~CKN~~C~ 34 (44)
T PF14952_consen 13 KCPKCGTYNGTRGLSCKNKSCP 34 (44)
T ss_pred cCCcCcCccCcccccccCCccc
Confidence 5888999998888888888886
No 269
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=23.36 E-value=1.4e+02 Score=16.10 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=13.2
Q ss_pred HHHHHHhhhCCCCCCeEEEe
Q 033059 26 VKAKIQDKEGIPPDQQRLIF 45 (128)
Q Consensus 26 LK~~i~~~~~ip~~~q~L~~ 45 (128)
|-+.+++.+++|+++..+++
T Consensus 24 it~~l~~~~~~p~~~v~V~i 43 (61)
T PRK02220 24 VTAAVSKNTGAPAEHIHVII 43 (61)
T ss_pred HHHHHHHHhCcChhhEEEEE
Confidence 33445566789988876654
No 270
>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=23.01 E-value=3.8e+02 Score=21.05 Aligned_cols=18 Identities=17% Similarity=0.444 Sum_probs=15.0
Q ss_pred hhhhcccCCcccccccccCC
Q 033059 97 RKCYARLHPRAVNCRKKKCG 116 (128)
Q Consensus 97 r~c~~r~~~~~~~c~~~~c~ 116 (128)
.-|-+-+++|+-+|.+ |-
T Consensus 108 TlCvSSQvGC~mgC~F--Ca 125 (371)
T PRK14461 108 TVCVSTQAGCGMGCVF--CA 125 (371)
T ss_pred eEEEEccCCccCCCCc--cc
Confidence 4688889999999995 84
No 271
>cd07028 RNAP_RPB3_like RPB3 subunit of RNA polymerase. The eukaryotic RPB3 subunit of RNA polymerase (RNAP), as well as its archaeal (D subunit) and bacterial (alpha subunit) counterparts, is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. The RPB3 subunit is similar to the bacterial RNAP alpha subunit in that it contains two subdomains: one subdomain is similar to the eukaryotic Rpb11/AC19/archaeal L subunit which is involved in dimerization; and
Probab=22.85 E-value=2.6e+02 Score=19.95 Aligned_cols=61 Identities=7% Similarity=0.104 Sum_probs=39.0
Q ss_pred CEEEEEeCCCCEEEEEecC-CCcH-HHHHHHH-HhhhCCCCCCeEEEeCCEEcCCCCccccccc
Q 033059 1 MQIFVKTLTGKTITLEVES-SDTI-DNVKAKI-QDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 61 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~-~~tV-~~LK~~i-~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi 61 (128)
|+|.|...+.....|.+.. +.|+ -.|+.-+ ++.-++..+..++.=|...|.|+.-...+|+
T Consensus 1 ~~i~i~~~~~~~~~f~l~g~~~t~aNaLRRiLLsevP~~AI~~V~I~~NtS~~~DE~iaHrlgl 64 (212)
T cd07028 1 PQVKIREADKDNVDFILSGVDLAMANALRRVMIAEVPTMAVDSVEVETNTSVLADEILAHRLGL 64 (212)
T ss_pred CcEEEEEcCCCEEEEEEEccChhHHHHHHHHHHHcCcceEEEEEEEEcCCCcccceeeeeeeee
Confidence 6788988888888888763 4454 4555544 3444555566666556667777665555554
No 272
>PF02594 DUF167: Uncharacterised ACR, YggU family COG1872; InterPro: IPR003746 This entry describes proteins of unknown function. Structures for two of these proteins, YggU from Escherichia coli and MTH637 from the archaea Methanobacterium thermoautotrophicum, have been determined; they have a core 2-layer alpha/beta structure consisting of beta(2)-loop-alpha-beta(2)-alpha [, ].; PDB: 1YH5_A 1N91_A 1JRM_A.
Probab=22.61 E-value=90 Score=18.45 Aligned_cols=26 Identities=8% Similarity=0.162 Sum_probs=19.4
Q ss_pred cHHHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 22 TIDNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 22 tV~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
-=.+|-+.+++.+++|.+++.|+.+.
T Consensus 41 AN~ali~~La~~l~v~ks~i~i~~G~ 66 (77)
T PF02594_consen 41 ANKALIRFLAKALGVPKSDIEIVSGH 66 (77)
T ss_dssp HHHHHHHHHHHHCT--TTCEEECC-C
T ss_pred hHHHHHHHHHHHhCCCcccEEEEecC
Confidence 46788889999999999999987654
No 273
>PF00550 PP-binding: Phosphopantetheine attachment site; InterPro: IPR006163 Phosphopantetheine (or pantetheine 4' phosphate) is the prosthetic group of acyl carrier proteins (ACP) in some multienzyme complexes where it serves as a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups []. The amino-terminal region of the ACP proteins is well defined and consists of alpha four helices arranged in a right-handed bundle held together by interhelical hydrophobic interactions. The Asp-Ser-Leu (DSL)motif is conserved in all of the ACP sequences, and the 4'-PP prosthetic group is covalently linked via a phosphodiester bond to the serine residue. The DSL sequence is present at the amino terminus of helix II, a domain of the protein referred to as the recognition helix and which is responsible for the interaction of ACPs with the enzymes of type II fatty acid synthesis [].; GO: 0048037 cofactor binding; PDB: 3EJB_E 3EJE_G 1L0I_A 2FHS_C 3EJD_E 2FAE_B 2FAD_B 2FAC_B 2K94_A 1ACP_A ....
Probab=22.55 E-value=1.3e+02 Score=16.29 Aligned_cols=29 Identities=14% Similarity=0.453 Sum_probs=19.4
Q ss_pred HHHHHHHhhhCCCCCCeEEEeCCEEcCCCCcccccccc
Q 033059 25 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 62 (128)
Q Consensus 25 ~LK~~i~~~~~ip~~~q~L~~~g~~L~d~~~L~~~gi~ 62 (128)
.|++.+++..+++++. ++.+..+.++|+.
T Consensus 2 ~l~~~~~~~l~~~~~~---------i~~~~~~~~lG~D 30 (67)
T PF00550_consen 2 QLREIIAEVLGVDPEE---------IDPDTDFFDLGLD 30 (67)
T ss_dssp HHHHHHHHHHTSSGGC---------TSTTSBTTTTTSS
T ss_pred HHHHHHHHHHCcCHhh---------CCCCCCHHHhCCc
Confidence 5677777777766554 4666777777763
No 274
>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=22.44 E-value=2.5e+02 Score=18.88 Aligned_cols=71 Identities=17% Similarity=0.173 Sum_probs=37.2
Q ss_pred CEEEEEeCCCCEEEEEecC-CCcHHHHHHHHHhhh----CCCCCCe----EEE-eCCEEcCCCCccccccccCCcEEEEE
Q 033059 1 MQIFVKTLTGKTITLEVES-SDTIDNVKAKIQDKE----GIPPDQQ----RLI-FAGKQLEDGRTLADYNIQKESTLHLV 70 (128)
Q Consensus 1 m~i~vk~~~g~~~~i~v~~-~~tV~~LK~~i~~~~----~ip~~~q----~L~-~~g~~L~d~~~L~~~gi~~g~~i~v~ 70 (128)
|+|+|.. +...+.+.+.. +.||.+|-++-...+ +..++.. .|. -.|-+|+.+..|.+. +.+.+.|..+
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 8999977 34556777774 689999976654433 3444433 233 255688777777665 2356666666
Q ss_pred Eee
Q 033059 71 LRL 73 (128)
Q Consensus 71 ~~~ 73 (128)
..-
T Consensus 79 ydE 81 (145)
T PF12053_consen 79 YDE 81 (145)
T ss_dssp EEE
T ss_pred ecc
Confidence 553
No 275
>PRK13605 endoribonuclease SymE; Provisional
Probab=22.39 E-value=1.1e+02 Score=19.68 Aligned_cols=39 Identities=13% Similarity=0.238 Sum_probs=25.8
Q ss_pred EEEEEeCCCCEEEEEecC-CCcHHHHHHHHHhhhCCCCCCe
Q 033059 2 QIFVKTLTGKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 2 ~i~vk~~~g~~~~i~v~~-~~tV~~LK~~i~~~~~ip~~~q 41 (128)
.|.|+...|. +.|.+.+ .-...+|.+.+.....+.+..|
T Consensus 57 ~V~V~V~~G~-LVIt~~~~~~~~~el~~~l~~v~~~s~~kq 96 (113)
T PRK13605 57 AVDVRVMEGC-IVLTAQPPAAEESELMQSLRQVCKLSARKQ 96 (113)
T ss_pred eEEEEEeCCE-EEEEeCCCCcccHHHHHHHHHHHHhhhHHH
Confidence 5677777765 5555554 3458888888888776665544
No 276
>PF11525 CopK: Copper resistance protein K; InterPro: IPR021604 CopK is a periplasmic dimeric protein which is strongly up-regulated in the presence of copper, leading to a high periplasmic accumulation []. CopK has two different binding sites for Cu(I), each with a different affinity for the metal. Binding of the first Cu(I) ion induces a conformational change of CopK which involves dissociation of the dimeric apo-protein. Binding of a second Cu(I) further increases the plasticity of the protein. CopK has features that are common with functionally related proteins such as a structure consisting of an all-beta fold and a methionine-rich Cu(I) binding site []. ; PDB: 3N7E_B 3N7D_B 3DSP_A 3DSO_A 2K0Q_A 2KM0_A 2LEL_A.
Probab=22.29 E-value=82 Score=18.51 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=11.8
Q ss_pred ccccccccCCcEEEEE
Q 033059 55 TLADYNIQKESTLHLV 70 (128)
Q Consensus 55 ~L~~~gi~~g~~i~v~ 70 (128)
.-..+.+++|++|++.
T Consensus 6 ~~ksi~LkDGstvyiF 21 (73)
T PF11525_consen 6 AKKSIPLKDGSTVYIF 21 (73)
T ss_dssp EEEEEEBTTSEEEEEE
T ss_pred hheeEecCCCCEEEEE
Confidence 3456678899999875
No 277
>PF07984 DUF1693: Domain of unknown function (DUF1693) ; InterPro: IPR012937 This domain occurs in many hypothetical proteins. It also occurs in some prion-like proteins.
Probab=22.22 E-value=96 Score=23.75 Aligned_cols=40 Identities=33% Similarity=0.525 Sum_probs=32.1
Q ss_pred EEEEeCCCCEEEEEecCCCcHHHHHHHHHhhhCCCCCCeEEE
Q 033059 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (128)
Q Consensus 3 i~vk~~~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~~~q~L~ 44 (128)
|-|.+ .|...+++|.+.+-|..++..+++. ||++.+.+|.
T Consensus 17 v~Ihg-rgnfPTl~v~l~~LI~~Vr~~L~~~-GI~VkdVRLN 56 (320)
T PF07984_consen 17 VPIHG-RGNFPTLEVRLKDLIQVVRDRLEER-GIPVKDVRLN 56 (320)
T ss_pred ceecc-CCCceeEEeeHHHHHHHHHHHHHHc-CCCccceEEe
Confidence 34444 3566789999999999999999887 9999998884
No 278
>COG1918 FeoA Fe2+ transport system protein A [Inorganic ion transport and metabolism]
Probab=21.90 E-value=98 Score=18.28 Aligned_cols=23 Identities=22% Similarity=0.291 Sum_probs=17.5
Q ss_pred CccccccccCCcEEEEEEeecCC
Q 033059 54 RTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 54 ~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
..|.+.|+.+|+.|.+.-+-+.|
T Consensus 25 ~RL~~mG~~~G~~i~vi~~aplg 47 (75)
T COG1918 25 RRLLSMGIVPGASITVVRKAPLG 47 (75)
T ss_pred HHHHHcCCCCCCEEEEEEecCCC
Confidence 45778888888888887765555
No 279
>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=21.81 E-value=1.6e+02 Score=21.48 Aligned_cols=23 Identities=4% Similarity=0.105 Sum_probs=18.9
Q ss_pred CEEEEEecCCCcHHHHHHHHHhh
Q 033059 11 KTITLEVESSDTIDNVKAKIQDK 33 (128)
Q Consensus 11 ~~~~i~v~~~~tV~~LK~~i~~~ 33 (128)
++|.+++++.+||.++-..|.+.
T Consensus 23 q~y~v~~~~~~tvLdaL~~I~~~ 45 (249)
T PRK08640 23 EEFEIPYRPNMNVISALMEIRRN 45 (249)
T ss_pred EEEEecCCCCCcHHHHHHHHHhc
Confidence 45777888999999999999764
No 280
>PF01623 Carla_C4: Carlavirus putative nucleic acid binding protein; InterPro: IPR002568 This family of carlavirus nucleic acid binding proteins includes a motif for a potential C-4 type zinc finger this has four highly conserved cysteine residues and is a conserved feature of the carlaviruses 3' terminal ORF []. These proteins may function as viral transcriptional regulators. The carlavirus family includes Garlic latent virus and Potato virus S and Potato virus M, these viruses are positive strand, ssRNA with no DNA stage.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent
Probab=21.80 E-value=40 Score=20.87 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=20.3
Q ss_pred hhhhhhhcccCC--cccccccccCCCC
Q 033059 94 MICRKCYARLHP--RAVNCRKKKCGHS 118 (128)
Q Consensus 94 ~~Cr~c~~r~~~--~~~~c~~~~c~~~ 118 (128)
-.|..||--.|| ..++|.++.|--+
T Consensus 54 gRC~RCyRv~Ppf~~t~rCDnkTC~PG 80 (91)
T PF01623_consen 54 GRCHRCYRVYPPFYFTKRCDNKTCVPG 80 (91)
T ss_pred CCCCCCeeecCCceeCccCCCCcccCC
Confidence 369999998888 5699999999533
No 281
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=21.76 E-value=74 Score=17.36 Aligned_cols=21 Identities=0% Similarity=0.116 Sum_probs=14.2
Q ss_pred CCccccccccCCcEEEEEEee
Q 033059 53 GRTLADYNIQKESTLHLVLRL 73 (128)
Q Consensus 53 ~~~L~~~gi~~g~~i~v~~~~ 73 (128)
.....+++++.|+.|++.++.
T Consensus 39 ~~~~~~L~L~~G~~V~~~ik~ 59 (64)
T PF03459_consen 39 PESAEELGLKPGDEVYASIKA 59 (64)
T ss_dssp HHHHHHCT-STT-EEEEEE-G
T ss_pred HHHHHHcCCCCCCEEEEEEeh
Confidence 345777889999999998864
No 282
>PF12143 PPO1_KFDV: Protein of unknown function (DUF_B2219); InterPro: IPR022740 This domain represents the C terminus of polyphenol oxidases. This region is primarily found in eukaryotes, although a few bacterial members also exist. It is typically between 138 and 152 amino acids in length and the family is found in association with PF00264 from PFAM and PF12142 from PFAM. Many members are plant or plastid polyphenol oxidases, and there is a highly conserved KFDV sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process
Probab=21.73 E-value=96 Score=20.43 Aligned_cols=26 Identities=23% Similarity=0.314 Sum_probs=21.4
Q ss_pred CCCccccccccCCcEEEEEEeecCCC
Q 033059 52 DGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
Q Consensus 52 d~~~L~~~gi~~g~~i~v~~~~~gg~ 77 (128)
=...|.++|..+++.|.|.+=+++|.
T Consensus 93 itdlLedLga~~d~sIvVTLVPr~g~ 118 (130)
T PF12143_consen 93 ITDLLEDLGAEDDDSIVVTLVPRGGG 118 (130)
T ss_pred hhHHHHHhCCCCCCEEEEEEEEccCC
Confidence 34568999999999999888888774
No 283
>PF14178 YppF: YppF-like protein
Probab=21.46 E-value=1.1e+02 Score=17.33 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=16.7
Q ss_pred CcHHHHHHHHHhhhCCCCCCe
Q 033059 21 DTIDNVKAKIQDKEGIPPDQQ 41 (128)
Q Consensus 21 ~tV~~LK~~i~~~~~ip~~~q 41 (128)
+.|.+||+...+..+..|..+
T Consensus 1 M~l~eLk~~F~~~k~y~p~~~ 21 (60)
T PF14178_consen 1 MNLHELKQKFMQKKKYEPEDM 21 (60)
T ss_pred CCHHHHHHHHHHHhccCcccH
Confidence 468899999998888777654
No 284
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=21.26 E-value=1.6e+02 Score=16.13 Aligned_cols=20 Identities=25% Similarity=0.464 Sum_probs=13.1
Q ss_pred HHHHHHhhhCCCCCCeEEEe
Q 033059 26 VKAKIQDKEGIPPDQQRLIF 45 (128)
Q Consensus 26 LK~~i~~~~~ip~~~q~L~~ 45 (128)
|-+.+.+.+++|+++..+++
T Consensus 24 it~~l~~~lg~p~~~v~V~i 43 (64)
T PRK01964 24 VTEAISATLDVPKERVRVIV 43 (64)
T ss_pred HHHHHHHHhCcChhhEEEEE
Confidence 33444556789998876654
No 285
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=21.12 E-value=43 Score=14.93 Aligned_cols=20 Identities=25% Similarity=0.580 Sum_probs=15.7
Q ss_pred hhhhhhcccCCcccccccccCC
Q 033059 95 ICRKCYARLHPRAVNCRKKKCG 116 (128)
Q Consensus 95 ~Cr~c~~r~~~~~~~c~~~~c~ 116 (128)
.|..|...+......|.. |+
T Consensus 4 ~C~~C~~~N~~~~~~C~~--C~ 23 (26)
T smart00547 4 ECPACTFLNFASRSKCFA--CG 23 (26)
T ss_pred cCCCCCCcChhhhccccc--cC
Confidence 477788888888888875 76
No 286
>PLN02248 cellulose synthase-like protein
Probab=21.10 E-value=41 Score=30.03 Aligned_cols=23 Identities=26% Similarity=0.475 Sum_probs=17.7
Q ss_pred ccchhhhhhhhcccCCccccccc
Q 033059 90 NQDKMICRKCYARLHPRAVNCRK 112 (128)
Q Consensus 90 ~~~k~~Cr~c~~r~~~~~~~c~~ 112 (128)
.|.+++||+||.-....-..|-+
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~ 171 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPG 171 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCC
Confidence 47888999999666666667766
No 287
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=21.08 E-value=1.5e+02 Score=18.87 Aligned_cols=24 Identities=21% Similarity=0.454 Sum_probs=19.1
Q ss_pred HHHHHHHHhhhCCCCCCeEEEeCC
Q 033059 24 DNVKAKIQDKEGIPPDQQRLIFAG 47 (128)
Q Consensus 24 ~~LK~~i~~~~~ip~~~q~L~~~g 47 (128)
..|=+.++++.|||++++-+.|..
T Consensus 79 ~~i~~~l~~~LgIp~dRiYI~f~d 102 (113)
T PTZ00450 79 PRITAAITKECGIPAERIYVFYYS 102 (113)
T ss_pred HHHHHHHHHHcCCCcccEEEEEEc
Confidence 455566788899999999888764
No 288
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=20.94 E-value=91 Score=18.13 Aligned_cols=21 Identities=14% Similarity=0.153 Sum_probs=15.2
Q ss_pred CCCccccccccCCcEEEEEEe
Q 033059 52 DGRTLADYNIQKESTLHLVLR 72 (128)
Q Consensus 52 d~~~L~~~gi~~g~~i~v~~~ 72 (128)
+..-+..+|+.+|+.|.+...
T Consensus 15 Pk~i~~~lgl~~Gd~v~v~~~ 35 (74)
T TIGR02609 15 PKEVLESLGLKEGDTLYVDEE 35 (74)
T ss_pred CHHHHHHcCcCCCCEEEEEEE
Confidence 344577889999999976543
No 289
>PF12563 Hemolysin_N: Hemolytic toxin N terminal; InterPro: IPR022220 This domain family is found in bacteria, and is approximately 190 amino acids in length. The family is found in association with PF07968 from PFAM, PF00652 from PFAM. This family is a bacterial virulence factor - hemolysin - which forms pores in erythrocytes and causes them to lyse. ; PDB: 1XEZ_A 3O44_I.
Probab=20.87 E-value=1.9e+02 Score=20.39 Aligned_cols=41 Identities=20% Similarity=0.302 Sum_probs=25.0
Q ss_pred CCEEEEEecCC---CcHHHHHHHHHhhhCCCCCC-eEEE--eCCEEc
Q 033059 10 GKTITLEVESS---DTIDNVKAKIQDKEGIPPDQ-QRLI--FAGKQL 50 (128)
Q Consensus 10 g~~~~i~v~~~---~tV~~LK~~i~~~~~ip~~~-q~L~--~~g~~L 50 (128)
++.+.|+++.. +--.+.|+++.+..|+.... +.++ |+|+.|
T Consensus 76 ~krylvDFS~iede~~k~~aq~~~r~~~G~sF~~dfiiITehKGeLL 122 (187)
T PF12563_consen 76 NKRYLVDFSQIEDEEEKAQAQAKFRKQYGLSFDSDFIIITEHKGELL 122 (187)
T ss_dssp --EEEEE-TT--SHHHHHHHHHHHHHHHS-B--SSEEEEEEETTEEE
T ss_pred CCeEEEEccccCChHHHHHHHHHHHHHhCcCccCCEEEEEcccCcEe
Confidence 45567777642 34788999999999976544 4443 999866
No 290
>PF14420 Clr5: Clr5 domain
Probab=20.80 E-value=1.3e+02 Score=16.32 Aligned_cols=23 Identities=13% Similarity=0.462 Sum_probs=19.1
Q ss_pred ecCCCcHHHHHHHHHhhhCCCCC
Q 033059 17 VESSDTIDNVKAKIQDKEGIPPD 39 (128)
Q Consensus 17 v~~~~tV~~LK~~i~~~~~ip~~ 39 (128)
+..+.|+.++.+.++...|+.+.
T Consensus 17 ~~e~~tl~~v~~~M~~~~~F~at 39 (54)
T PF14420_consen 17 IDENKTLEEVMEIMKEEHGFKAT 39 (54)
T ss_pred HhCCCcHHHHHHHHHHHhCCCcC
Confidence 45688999999999999887765
No 291
>PHA00689 hypothetical protein
Probab=20.79 E-value=46 Score=18.15 Aligned_cols=19 Identities=47% Similarity=0.997 Sum_probs=13.3
Q ss_pred cCCcccccccccCCCCCCCccc
Q 033059 103 LHPRAVNCRKKKCGHSNQLRPK 124 (128)
Q Consensus 103 ~~~~~~~c~~~~c~~~~~~~~~ 124 (128)
.-|+|.-|.+ || .+.||+-
T Consensus 13 qepravtckr--cg-ktglrwe 31 (62)
T PHA00689 13 QEPRAVTCKR--CG-KTGLRWE 31 (62)
T ss_pred cCcceeehhh--cc-ccCceee
Confidence 3477788876 98 5588763
No 292
>PRK09555 feoA ferrous iron transport protein A; Reviewed
Probab=20.74 E-value=1.2e+02 Score=17.70 Aligned_cols=23 Identities=17% Similarity=0.187 Sum_probs=18.5
Q ss_pred CccccccccCCcEEEEEEeecCC
Q 033059 54 RTLADYNIQKESTLHLVLRLRGG 76 (128)
Q Consensus 54 ~~L~~~gi~~g~~i~v~~~~~gg 76 (128)
..|.+.|+.+|+.|.+.-+.+-|
T Consensus 24 ~rL~~mGl~pG~~V~v~~~aP~g 46 (74)
T PRK09555 24 QKLLSLGMLPGSSFNVVRVAPLG 46 (74)
T ss_pred HHHHHcCCCCCCEEEEEEECCCC
Confidence 56889999999999988776533
No 293
>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated
Probab=20.36 E-value=2.9e+02 Score=20.18 Aligned_cols=23 Identities=4% Similarity=0.193 Sum_probs=17.7
Q ss_pred CEEEEE-ecCCCcHHHHHHHHHhh
Q 033059 11 KTITLE-VESSDTIDNVKAKIQDK 33 (128)
Q Consensus 11 ~~~~i~-v~~~~tV~~LK~~i~~~ 33 (128)
++|.++ +++.+||.++-..|.+.
T Consensus 20 q~y~v~~~~~~~tvLd~L~~Ik~~ 43 (250)
T PRK07570 20 ETYEVDDISPDMSFLEMLDVLNEQ 43 (250)
T ss_pred EEEEecCCCCCCcHHHHHHHHHHH
Confidence 346666 66889999999999654
No 294
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=20.20 E-value=2e+02 Score=16.87 Aligned_cols=43 Identities=28% Similarity=0.539 Sum_probs=30.9
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhhhCCCC---CCeEEE-eCCEEcC
Q 033059 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLI-FAGKQLE 51 (128)
Q Consensus 9 ~g~~~~i~v~~~~tV~~LK~~i~~~~~ip~---~~q~L~-~~g~~L~ 51 (128)
+|+.+.+.||.-+++.-+-++...+.+.++ ..+++. ++|..+.
T Consensus 8 ng~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~ 54 (91)
T cd05484 8 NGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLS 54 (91)
T ss_pred CCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEee
Confidence 688899999988887777777777777543 334554 7787664
No 295
>KOG4361 consensus BCL2-associated athanogene-like proteins and related BAG family chaperone regulators [Signal transduction mechanisms]
Probab=20.08 E-value=35 Score=26.34 Aligned_cols=59 Identities=17% Similarity=0.339 Sum_probs=44.1
Q ss_pred EEEEecCCCcHH---HHHHHHHhhhCCCCCCe--EEEeCCEEcCC-CCccccccccCCcEEEEEE
Q 033059 13 ITLEVESSDTID---NVKAKIQDKEGIPPDQQ--RLIFAGKQLED-GRTLADYNIQKESTLHLVL 71 (128)
Q Consensus 13 ~~i~v~~~~tV~---~LK~~i~~~~~ip~~~q--~L~~~g~~L~d-~~~L~~~gi~~g~~i~v~~ 71 (128)
+.+.+.+..+.. ++++......++.-.++ +++|.++.+.| ...|...|..+-+.+.++.
T Consensus 73 ~~~~i~p~~~~g~~~d~a~~~~~~ag~sh~d~~~k~~y~~~e~rd~~l~l~~~g~p~~sk~~~~~ 137 (344)
T KOG4361|consen 73 HGLAIVPQYPSGNALDLAKPLTEDAGLSHYDQEVKLVYVDKELRDQSLRLSSAGVPDASKINVVP 137 (344)
T ss_pred cccccccccccccchhhhcccccccceeecccccccceecccccccccccccccCcccccceecc
Confidence 334555555544 88888888888777776 89999999876 4578888988888887764
No 296
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=20.06 E-value=1.1e+02 Score=15.86 Aligned_cols=18 Identities=0% Similarity=0.126 Sum_probs=13.9
Q ss_pred ccccccccCCcEEEEEEe
Q 033059 55 TLADYNIQKESTLHLVLR 72 (128)
Q Consensus 55 ~L~~~gi~~g~~i~v~~~ 72 (128)
.+..++|+.|+.|.+...
T Consensus 15 ~~~~l~l~~Gd~v~i~~~ 32 (47)
T PF04014_consen 15 IREKLGLKPGDEVEIEVE 32 (47)
T ss_dssp HHHHTTSSTTTEEEEEEE
T ss_pred HHHHcCCCCCCEEEEEEe
Confidence 456678999999988765
No 297
>TIGR01003 PTS_HPr_family Phosphotransferase System HPr (HPr) Family. The HPr family are bacterial proteins (or domains of proteins) which function in phosphoryl transfer system (PTS) systems. They include energy-coupling components which catalyze sugar uptake via a group translocation mechanism. The functions of most of these proteins are not known, but they presumably function in PTS-related regulatory capacities. All seed members are stand-alone HPr proteins, although the model also recognizes HPr domains of PTS fusion proteins. This family includes the related NPr protein.
Probab=20.06 E-value=2e+02 Score=16.86 Aligned_cols=34 Identities=9% Similarity=0.116 Sum_probs=25.1
Q ss_pred CCCeEEEeCCEEcCCCC--ccccccccCCcEEEEEE
Q 033059 38 PDQQRLIFAGKQLEDGR--TLADYNIQKESTLHLVL 71 (128)
Q Consensus 38 ~~~q~L~~~g~~L~d~~--~L~~~gi~~g~~i~v~~ 71 (128)
..++.|.++|+..+-.. .|-.+|++.|+.|.+..
T Consensus 30 ~s~I~i~~~~~~~dakSil~ll~Lg~~~G~~i~i~~ 65 (82)
T TIGR01003 30 DSEITLTKNGKEVNAKSIMGIMMLGAGQGTEVTVSA 65 (82)
T ss_pred CCEEEEEECCEEEehHhHHHHHhcCCCCCCEEEEEE
Confidence 45678888887664333 46677899999999886
Done!