Query 041108
Match_columns 102
No_of_seqs 103 out of 1005
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 03:52:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041108.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041108hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01807 GDX_N ubiquitin-like d 99.9 3E-21 6.5E-26 117.8 8.8 74 1-80 1-74 (74)
2 cd01793 Fubi Fubi ubiquitin-li 99.8 1.2E-20 2.5E-25 115.3 8.9 74 1-82 1-74 (74)
3 PTZ00044 ubiquitin; Provisiona 99.8 1.8E-20 4E-25 114.3 9.2 75 1-81 1-75 (76)
4 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 1.8E-20 3.9E-25 114.8 8.7 71 1-77 2-72 (73)
5 cd01803 Ubiquitin Ubiquitin. U 99.8 2.5E-20 5.3E-25 113.2 8.9 76 1-82 1-76 (76)
6 cd01806 Nedd8 Nebb8-like ubiq 99.8 8.5E-20 1.8E-24 110.8 9.5 75 1-81 1-75 (76)
7 cd01797 NIRF_N amino-terminal 99.8 5.2E-20 1.1E-24 114.0 8.6 74 1-80 1-76 (78)
8 cd01805 RAD23_N Ubiquitin-like 99.8 8E-20 1.7E-24 111.7 9.3 74 1-80 1-76 (77)
9 cd01804 midnolin_N Ubiquitin-l 99.8 1E-19 2.3E-24 112.4 9.5 75 1-82 2-76 (78)
10 cd01802 AN1_N ubiquitin-like d 99.8 8.2E-20 1.8E-24 118.5 8.9 76 1-82 28-103 (103)
11 cd01810 ISG15_repeat2 ISG15 ub 99.8 1.7E-19 3.8E-24 110.1 8.1 73 3-81 1-73 (74)
12 cd01809 Scythe_N Ubiquitin-lik 99.8 4.4E-19 9.4E-24 106.7 8.5 72 1-78 1-72 (72)
13 cd01792 ISG15_repeat1 ISG15 ub 99.8 5.5E-19 1.2E-23 109.4 8.7 74 1-80 3-78 (80)
14 cd01794 DC_UbP_C dendritic cel 99.8 5.5E-19 1.2E-23 107.3 7.4 70 3-78 1-70 (70)
15 cd01798 parkin_N amino-termina 99.8 1.6E-18 3.6E-23 104.5 7.6 70 3-78 1-70 (70)
16 cd01808 hPLIC_N Ubiquitin-like 99.8 5.3E-18 1.2E-22 102.6 8.2 71 1-78 1-71 (71)
17 PF00240 ubiquitin: Ubiquitin 99.8 4.5E-18 9.7E-23 101.8 7.8 68 6-79 1-68 (69)
18 cd01812 BAG1_N Ubiquitin-like 99.7 1.1E-17 2.4E-22 100.5 8.3 70 1-77 1-70 (71)
19 cd01800 SF3a120_C Ubiquitin-li 99.7 1.4E-17 2.9E-22 102.3 7.7 70 8-83 5-74 (76)
20 cd01796 DDI1_N DNA damage indu 99.7 1.2E-17 2.5E-22 101.5 7.3 68 3-76 1-70 (71)
21 cd01813 UBP_N UBP ubiquitin pr 99.7 2.7E-17 5.9E-22 100.8 8.5 69 1-76 1-72 (74)
22 KOG0004 Ubiquitin/40S ribosoma 99.7 7E-17 1.5E-21 110.6 5.5 92 1-98 1-93 (156)
23 smart00213 UBQ Ubiquitin homol 99.7 3.8E-16 8.3E-21 91.2 7.1 64 1-71 1-64 (64)
24 cd01790 Herp_N Homocysteine-re 99.7 3.4E-16 7.3E-21 97.3 6.9 71 1-77 2-78 (79)
25 TIGR00601 rad23 UV excision re 99.7 6.6E-16 1.4E-20 119.3 9.2 76 1-82 1-79 (378)
26 cd01763 Sumo Small ubiquitin-r 99.6 3.3E-15 7.2E-20 93.9 9.2 76 1-82 12-87 (87)
27 cd01799 Hoil1_N Ubiquitin-like 99.6 2.6E-15 5.7E-20 92.3 8.2 69 2-77 2-74 (75)
28 KOG0005 Ubiquitin-like protein 99.6 9.7E-16 2.1E-20 90.2 4.5 70 1-76 1-70 (70)
29 KOG0003 Ubiquitin/60s ribosoma 99.6 1.3E-16 2.9E-21 103.7 0.5 77 1-83 1-77 (128)
30 cd01769 UBL Ubiquitin-like dom 99.6 3.3E-14 7.2E-19 83.9 7.9 67 5-77 2-68 (69)
31 cd01815 BMSC_UbP_N Ubiquitin-l 99.5 9.6E-14 2.1E-18 85.4 5.6 55 17-77 16-74 (75)
32 KOG0011 Nucleotide excision re 99.5 1.9E-13 4.1E-18 103.2 7.8 75 1-81 1-77 (340)
33 cd01788 ElonginB Ubiquitin-lik 99.4 7.2E-13 1.6E-17 87.0 8.5 84 1-90 1-92 (119)
34 KOG0010 Ubiquitin-like protein 99.4 3.9E-13 8.3E-18 105.9 7.4 74 1-81 16-89 (493)
35 cd01795 USP48_C USP ubiquitin- 99.4 1.7E-12 3.8E-17 83.5 6.5 63 12-80 16-79 (107)
36 PF11976 Rad60-SLD: Ubiquitin- 99.4 1.9E-12 4.2E-17 77.9 6.4 71 1-77 1-72 (72)
37 cd01814 NTGP5 Ubiquitin-like N 99.3 2.3E-12 4.9E-17 84.6 5.9 87 2-94 6-107 (113)
38 cd01789 Alp11_N Ubiquitin-like 99.3 1.4E-11 3.1E-16 77.0 8.6 76 2-77 3-80 (84)
39 PLN02560 enoyl-CoA reductase 99.3 3.5E-11 7.5E-16 91.0 8.9 76 1-76 1-81 (308)
40 PF14560 Ubiquitin_2: Ubiquiti 99.2 4.7E-11 1E-15 74.7 7.8 76 2-77 3-82 (87)
41 PF11543 UN_NPL4: Nuclear pore 99.2 5.6E-11 1.2E-15 73.9 5.6 72 1-76 5-78 (80)
42 KOG0001 Ubiquitin and ubiquiti 99.0 3.3E-09 7.1E-14 61.9 8.8 72 3-80 2-73 (75)
43 cd01801 Tsc13_N Ubiquitin-like 99.0 1.5E-09 3.3E-14 66.5 7.1 68 2-75 2-74 (77)
44 cd00196 UBQ Ubiquitin-like pro 98.9 2.9E-08 6.2E-13 54.9 7.5 67 5-77 2-68 (69)
45 KOG4248 Ubiquitin-like protein 98.8 5.8E-09 1.3E-13 88.1 6.5 74 2-82 4-77 (1143)
46 PF13881 Rad60-SLD_2: Ubiquiti 98.8 5.2E-08 1.1E-12 64.0 8.7 74 2-81 4-91 (111)
47 KOG3493 Ubiquitin-like protein 98.8 2.2E-09 4.8E-14 64.1 1.6 70 2-77 3-72 (73)
48 KOG4495 RNA polymerase II tran 98.6 5.8E-08 1.3E-12 62.2 4.2 64 1-68 1-65 (110)
49 KOG1872 Ubiquitin-specific pro 98.6 1.7E-07 3.6E-12 74.0 7.0 70 3-79 6-76 (473)
50 KOG0006 E3 ubiquitin-protein l 98.3 3.9E-06 8.4E-11 64.2 7.1 71 1-77 1-74 (446)
51 cd01811 OASL_repeat1 2'-5' oli 98.1 4.9E-05 1.1E-09 46.7 8.0 73 1-76 1-74 (80)
52 PF08817 YukD: WXG100 protein 98.0 1.7E-05 3.6E-10 48.7 5.3 68 2-75 4-78 (79)
53 KOG1769 Ubiquitin-like protein 98.0 0.00021 4.5E-09 46.0 9.6 75 3-83 23-97 (99)
54 PF00789 UBX: UBX domain; Int 97.9 0.00015 3.3E-09 44.3 8.6 71 2-76 8-81 (82)
55 smart00166 UBX Domain present 97.8 0.00051 1.1E-08 42.0 8.8 71 2-76 6-79 (80)
56 cd01773 Faf1_like1_UBX Faf1 ik 97.7 0.00074 1.6E-08 42.2 9.1 75 2-78 7-81 (82)
57 PF13019 Telomere_Sde2: Telome 97.7 0.00055 1.2E-08 47.7 8.7 75 1-81 1-87 (162)
58 KOG0013 Uncharacterized conser 97.7 0.00011 2.3E-09 53.3 5.2 63 9-77 155-217 (231)
59 cd01772 SAKS1_UBX SAKS1-like U 97.6 0.0012 2.6E-08 40.6 8.6 70 2-76 6-78 (79)
60 cd01770 p47_UBX p47-like ubiqu 97.6 0.0012 2.6E-08 40.7 8.6 69 2-73 6-75 (79)
61 cd01767 UBX UBX (ubiquitin reg 97.6 0.0018 3.9E-08 39.3 9.0 67 2-73 4-73 (77)
62 PF11470 TUG-UBL1: GLUT4 regul 97.6 0.00034 7.4E-09 41.9 5.6 62 8-75 4-65 (65)
63 cd01774 Faf1_like2_UBX Faf1 ik 97.5 0.0017 3.7E-08 40.6 8.5 70 2-76 6-83 (85)
64 cd01771 Faf1_UBX Faf1 UBX doma 97.4 0.0038 8.2E-08 38.6 8.9 70 2-76 6-78 (80)
65 KOG1639 Steroid reductase requ 97.3 0.00057 1.2E-08 50.8 5.5 73 1-75 1-76 (297)
66 COG5417 Uncharacterized small 97.2 0.003 6.5E-08 38.9 6.7 69 1-75 5-80 (81)
67 KOG3206 Alpha-tubulin folding 97.1 0.0024 5.1E-08 46.4 6.9 70 13-82 15-85 (234)
68 PF10302 DUF2407: DUF2407 ubiq 97.1 0.0026 5.6E-08 40.8 6.0 58 2-65 2-64 (97)
69 COG5227 SMT3 Ubiquitin-like pr 96.7 0.011 2.4E-07 37.7 6.4 70 3-78 27-96 (103)
70 PF14836 Ubiquitin_3: Ubiquiti 96.3 0.037 8.1E-07 35.0 7.2 69 12-82 15-84 (88)
71 PF09379 FERM_N: FERM N-termin 96.3 0.039 8.4E-07 33.1 7.1 66 5-72 1-69 (80)
72 PRK06437 hypothetical protein; 96.1 0.072 1.6E-06 31.6 7.4 64 1-79 1-64 (67)
73 cd06406 PB1_P67 A PB1 domain i 95.9 0.049 1.1E-06 33.8 6.3 52 3-56 5-56 (80)
74 cd06409 PB1_MUG70 The MUG70 pr 95.7 0.11 2.5E-06 32.6 7.4 44 2-45 2-48 (86)
75 smart00666 PB1 PB1 domain. Pho 95.4 0.23 5E-06 29.8 7.9 46 2-48 3-48 (81)
76 PF15044 CLU_N: Mitochondrial 95.3 0.074 1.6E-06 32.5 5.3 59 17-81 1-61 (76)
77 KOG2086 Protein tyrosine phosp 94.9 0.069 1.5E-06 41.8 5.3 70 2-74 307-377 (380)
78 COG5100 NPL4 Nuclear pore prot 94.8 0.22 4.8E-06 39.7 7.9 77 1-78 1-79 (571)
79 cd00754 MoaD Ubiquitin domain 94.7 0.29 6.3E-06 29.1 6.9 59 12-81 17-79 (80)
80 PLN02799 Molybdopterin synthas 94.7 0.2 4.4E-06 30.3 6.2 68 1-79 2-79 (82)
81 KOG2982 Uncharacterized conser 94.5 0.1 2.2E-06 40.6 5.3 62 13-77 352-416 (418)
82 KOG4583 Membrane-associated ER 94.4 0.02 4.4E-07 44.3 1.3 58 2-65 11-72 (391)
83 PRK08364 sulfur carrier protei 94.3 0.54 1.2E-05 27.9 7.3 53 12-79 15-67 (70)
84 cd01760 RBD Ubiquitin-like dom 94.2 0.31 6.6E-06 29.6 6.0 46 3-48 2-47 (72)
85 KOG0012 DNA damage inducible p 94.0 0.11 2.5E-06 40.4 4.8 76 1-82 1-80 (380)
86 PRK06488 sulfur carrier protei 93.9 0.59 1.3E-05 27.2 6.7 64 1-81 1-64 (65)
87 PF14453 ThiS-like: ThiS-like 93.9 0.68 1.5E-05 27.0 6.8 56 1-78 1-56 (57)
88 smart00455 RBD Raf-like Ras-bi 93.7 0.88 1.9E-05 27.2 7.8 46 3-48 2-47 (70)
89 PF11620 GABP-alpha: GA-bindin 93.6 0.45 9.7E-06 30.0 6.1 71 14-90 6-77 (88)
90 PF00564 PB1: PB1 domain; Int 93.6 0.65 1.4E-05 27.8 6.8 45 3-48 4-49 (84)
91 KOG4250 TANK binding protein k 93.5 0.45 9.9E-06 40.1 7.6 40 9-48 323-362 (732)
92 smart00295 B41 Band 4.1 homolo 92.4 2.5 5.5E-05 28.9 9.6 67 2-68 5-72 (207)
93 TIGR01682 moaD molybdopterin c 92.2 1.6 3.4E-05 26.3 7.3 57 13-80 18-78 (80)
94 cd06407 PB1_NLP A PB1 domain i 91.9 1.3 2.8E-05 27.4 6.5 47 1-48 1-48 (82)
95 TIGR02958 sec_mycoba_snm4 secr 91.9 1.2 2.6E-05 35.6 7.9 70 2-78 4-80 (452)
96 PRK05863 sulfur carrier protei 91.9 1.6 3.4E-05 25.5 7.0 62 1-79 1-62 (65)
97 PRK05659 sulfur carrier protei 91.6 1.6 3.5E-05 25.1 6.8 63 1-79 1-63 (66)
98 PF02196 RBD: Raf-like Ras-bin 91.0 2.2 4.8E-05 25.5 7.1 46 3-48 3-48 (71)
99 PF02597 ThiS: ThiS family; I 90.7 0.94 2E-05 26.6 4.9 62 12-81 13-76 (77)
100 TIGR01687 moaD_arch MoaD famil 90.6 2.4 5.2E-05 25.8 6.8 61 11-81 16-87 (88)
101 cd05992 PB1 The PB1 domain is 90.2 2.5 5.5E-05 25.0 7.7 46 2-48 2-48 (81)
102 PRK08053 sulfur carrier protei 89.9 2.6 5.5E-05 24.6 7.2 64 1-80 1-64 (66)
103 PF10209 DUF2340: Uncharacteri 89.7 1.7 3.7E-05 29.0 5.9 63 16-78 21-108 (122)
104 cd00565 ThiS ThiaminS ubiquiti 88.8 2.4 5.1E-05 24.5 5.6 56 15-81 9-64 (65)
105 cd06397 PB1_UP1 Uncharacterize 88.8 4.1 8.9E-05 25.4 7.2 46 2-48 2-47 (82)
106 PRK06944 sulfur carrier protei 88.8 3 6.6E-05 23.9 7.4 63 1-80 1-63 (65)
107 cd06410 PB1_UP2 Uncharacterize 88.2 2.8 6.1E-05 26.7 6.0 44 5-48 17-61 (97)
108 PRK06083 sulfur carrier protei 87.3 3.9 8.5E-05 25.3 6.1 54 15-79 28-81 (84)
109 PF10407 Cytokin_check_N: Cdc1 86.5 3.9 8.5E-05 24.9 5.6 62 11-79 3-71 (73)
110 KOG2689 Predicted ubiquitin re 86.2 3.1 6.7E-05 31.6 6.0 74 2-76 212-285 (290)
111 TIGR01683 thiS thiamine biosyn 86.2 4.7 0.0001 23.2 5.9 60 9-81 4-63 (64)
112 PRK01777 hypothetical protein; 86.0 5.3 0.00012 25.3 6.3 67 1-82 4-80 (95)
113 PF12754 Blt1: Cell-cycle cont 85.8 0.24 5.2E-06 37.9 0.0 41 20-66 103-158 (309)
114 cd06411 PB1_p51 The PB1 domain 85.3 3.2 7E-05 25.6 4.8 37 12-48 8-44 (78)
115 cd01787 GRB7_RA RA (RAS-associ 85.2 4.1 8.8E-05 25.6 5.3 39 3-41 5-43 (85)
116 cd01818 TIAM1_RBD Ubiquitin do 84.6 3.5 7.6E-05 25.4 4.7 40 4-43 3-42 (77)
117 cd06398 PB1_Joka2 The PB1 doma 84.1 8.2 0.00018 24.3 7.0 40 9-48 8-53 (91)
118 PRK11840 bifunctional sulfur c 84.0 6.9 0.00015 30.3 7.2 68 1-84 1-68 (326)
119 cd06396 PB1_NBR1 The PB1 domai 84.0 5.2 0.00011 24.8 5.4 29 9-37 8-38 (81)
120 PRK07440 hypothetical protein; 82.6 7.9 0.00017 22.9 6.4 59 9-80 10-68 (70)
121 PF10790 DUF2604: Protein of U 82.1 8.3 0.00018 23.2 5.5 65 9-79 4-72 (76)
122 PTZ00380 microtubule-associate 81.9 3.9 8.5E-05 27.3 4.6 63 11-80 41-107 (121)
123 PF14451 Ub-Mut7C: Mut7-C ubiq 81.5 7.8 0.00017 23.8 5.6 53 10-77 22-75 (81)
124 PRK11130 moaD molybdopterin sy 80.7 9.9 0.00022 22.9 7.0 56 15-81 19-80 (81)
125 PRK07696 sulfur carrier protei 79.8 9.8 0.00021 22.3 6.7 63 1-79 1-64 (67)
126 PF08825 E2_bind: E2 binding d 79.4 2 4.4E-05 26.7 2.4 61 15-77 1-70 (84)
127 cd01817 RGS12_RBD Ubiquitin do 79.3 12 0.00026 22.8 6.7 44 5-48 4-47 (73)
128 PF00788 RA: Ras association ( 79.0 11 0.00024 22.4 6.7 42 3-44 5-52 (93)
129 cd01768 RA RA (Ras-associating 78.7 12 0.00025 22.5 6.0 35 10-44 12-48 (87)
130 cd06408 PB1_NoxR The PB1 domai 78.4 14 0.0003 23.2 6.7 44 3-47 3-47 (86)
131 KOG0007 Splicing factor 3a, su 77.1 1.3 2.8E-05 34.0 1.3 50 7-62 289-339 (341)
132 PF14732 UAE_UbL: Ubiquitin/SU 76.9 4.8 0.0001 25.0 3.6 55 20-76 8-67 (87)
133 COG0089 RplW Ribosomal protein 76.9 6.9 0.00015 25.0 4.3 39 10-48 21-60 (94)
134 PF12436 USP7_ICP0_bdg: ICP0-b 76.7 1.5 3.3E-05 32.2 1.5 65 15-80 89-154 (249)
135 cd01764 Urm1 Urm1-like ubuitin 76.4 11 0.00024 23.6 5.3 63 15-79 23-91 (94)
136 TIGR03636 L23_arch archaeal ri 76.2 8.9 0.00019 23.4 4.6 33 11-43 15-47 (77)
137 KOG4572 Predicted DNA-binding 75.9 11 0.00023 33.2 6.3 65 9-78 3-70 (1424)
138 cd01777 SNX27_RA Ubiquitin dom 75.8 9.5 0.00021 24.0 4.7 40 2-41 3-42 (87)
139 PF00276 Ribosomal_L23: Riboso 74.7 7.5 0.00016 24.3 4.1 38 11-48 21-59 (91)
140 PRK14548 50S ribosomal protein 74.4 10 0.00022 23.6 4.6 34 11-44 22-55 (84)
141 COG3760 Uncharacterized conser 74.4 10 0.00022 26.5 4.9 59 3-77 48-106 (164)
142 PRK05738 rplW 50S ribosomal pr 74.2 11 0.00024 23.6 4.8 39 10-48 20-59 (92)
143 PF12436 USP7_ICP0_bdg: ICP0-b 73.9 13 0.00029 27.2 5.8 36 11-46 190-225 (249)
144 PF08783 DWNN: DWNN domain; I 72.6 11 0.00024 22.9 4.4 34 3-36 1-36 (74)
145 cd01611 GABARAP Ubiquitin doma 72.3 24 0.00052 23.0 6.2 58 15-79 45-107 (112)
146 PF03671 Ufm1: Ubiquitin fold 71.8 17 0.00037 22.2 4.9 59 13-76 18-76 (76)
147 smart00314 RA Ras association 71.6 20 0.00043 21.7 5.8 34 10-43 15-50 (90)
148 PF08337 Plexin_cytopl: Plexin 71.2 12 0.00027 30.8 5.5 67 11-80 202-291 (539)
149 KOG2507 Ubiquitin regulatory p 69.9 9.5 0.00021 30.8 4.5 80 2-87 316-400 (506)
150 cd01775 CYR1_RA Ubiquitin doma 69.7 27 0.00058 22.5 6.7 33 7-39 9-41 (97)
151 CHL00030 rpl23 ribosomal prote 69.0 14 0.00031 23.3 4.4 39 10-48 19-58 (93)
152 PF14533 USP7_C2: Ubiquitin-sp 68.6 5.8 0.00012 28.5 2.9 30 10-39 132-161 (213)
153 PF02991 Atg8: Autophagy prote 67.3 14 0.00031 23.8 4.2 57 16-79 38-99 (104)
154 PF11834 DUF3354: Domain of un 66.7 9.1 0.0002 22.9 3.0 43 21-75 26-68 (69)
155 PRK10872 relA (p)ppGpp synthet 64.3 37 0.0008 29.2 7.2 75 2-99 405-479 (743)
156 KOG1364 Predicted ubiquitin re 62.9 9.5 0.00021 29.8 3.2 68 2-72 279-349 (356)
157 KOG2561 Adaptor protein NUB1, 60.8 7.3 0.00016 31.8 2.3 59 14-78 53-111 (568)
158 COG2104 ThiS Sulfur transfer p 60.4 34 0.00073 20.3 6.5 63 2-78 2-64 (68)
159 cd01782 AF6_RA_repeat1 Ubiquit 59.4 48 0.001 21.8 5.8 37 1-37 24-62 (112)
160 PF00794 PI3K_rbd: PI3-kinase 57.5 45 0.00098 20.9 6.4 60 2-65 18-84 (106)
161 PF14847 Ras_bdg_2: Ras-bindin 57.0 34 0.00073 22.1 4.6 36 3-38 3-38 (105)
162 PRK12280 rplW 50S ribosomal pr 55.1 33 0.00072 23.9 4.6 39 10-48 22-61 (158)
163 cd01776 Rin1_RA Ubiquitin doma 54.2 37 0.0008 21.3 4.2 36 9-44 11-48 (87)
164 PF01376 Enterotoxin_b: Heat-l 53.6 21 0.00045 22.5 3.0 41 3-43 38-87 (102)
165 cd01766 Ufm1 Urm1-like ubiquit 52.7 53 0.0011 20.2 5.4 61 13-78 18-78 (82)
166 PF06234 TmoB: Toluene-4-monoo 52.4 56 0.0012 20.5 6.6 63 12-78 16-84 (85)
167 KOG3439 Protein conjugation fa 51.2 48 0.001 21.9 4.6 36 13-48 47-82 (116)
168 PF03931 Skp1_POZ: Skp1 family 51.0 17 0.00037 20.7 2.3 32 1-32 1-32 (62)
169 PF14533 USP7_C2: Ubiquitin-sp 48.3 36 0.00079 24.3 4.1 51 12-65 35-90 (213)
170 PTZ00191 60S ribosomal protein 47.9 50 0.0011 22.7 4.5 34 10-43 82-115 (145)
171 PF02192 PI3K_p85B: PI3-kinase 47.3 34 0.00073 20.9 3.3 22 13-34 2-23 (78)
172 smart00266 CAD Domains present 45.1 64 0.0014 19.6 4.2 48 21-76 19-68 (74)
173 PF02505 MCR_D: Methyl-coenzym 44.7 54 0.0012 22.8 4.2 43 13-65 77-120 (153)
174 COG1977 MoaD Molybdopterin con 44.3 50 0.0011 20.1 3.7 55 17-81 24-83 (84)
175 PF03658 Ub-RnfH: RnfH family 43.9 78 0.0017 19.7 5.7 71 1-82 1-77 (84)
176 cd06919 Asp_decarbox Aspartate 43.6 14 0.0003 24.3 1.2 58 26-92 5-62 (111)
177 KOG3391 Transcriptional co-rep 43.1 35 0.00075 23.5 3.1 59 20-81 61-139 (151)
178 PF04126 Cyclophil_like: Cyclo 43.0 30 0.00065 22.6 2.8 29 1-30 1-29 (120)
179 TIGR00223 panD L-aspartate-alp 42.4 16 0.00035 24.5 1.4 59 26-93 6-64 (126)
180 PRK05841 flgE flagellar hook p 41.8 37 0.00079 28.5 3.6 38 2-39 250-296 (603)
181 PRK05449 aspartate alpha-decar 41.5 16 0.00034 24.6 1.2 59 26-93 6-64 (126)
182 PF11069 DUF2870: Protein of u 41.1 48 0.001 21.3 3.3 33 42-81 3-37 (98)
183 PF08299 Bac_DnaA_C: Bacterial 40.5 16 0.00035 21.5 1.1 19 22-40 1-19 (70)
184 PHA02090 hypothetical protein 40.5 5.5 0.00012 23.9 -1.0 39 5-43 32-70 (79)
185 cd01615 CIDE_N CIDE_N domain, 40.3 76 0.0016 19.5 4.1 48 21-76 21-70 (78)
186 cd06405 PB1_Mekk2_3 The PB1 do 40.2 70 0.0015 19.7 3.8 35 5-39 3-38 (79)
187 smart00143 PI3K_p85B PI3-kinas 40.2 41 0.00088 20.7 2.8 23 13-35 2-24 (78)
188 PRK09570 rpoH DNA-directed RNA 40.1 50 0.0011 20.3 3.2 48 22-81 19-66 (79)
189 cd06539 CIDE_N_A CIDE_N domain 39.9 90 0.0019 19.2 4.5 48 21-76 21-70 (78)
190 cd06404 PB1_aPKC PB1 domain is 39.8 93 0.002 19.4 4.4 43 5-47 3-47 (83)
191 TIGR03260 met_CoM_red_D methyl 39.3 71 0.0015 22.1 4.2 43 13-65 76-118 (150)
192 PF09269 DUF1967: Domain of un 39.2 18 0.00039 21.4 1.2 17 60-76 47-63 (69)
193 cd01666 TGS_DRG_C TGS_DRG_C: 38.1 91 0.002 18.7 5.2 21 14-34 18-38 (75)
194 TIGR03595 Obg_CgtA_exten Obg f 37.2 24 0.00051 20.9 1.4 18 59-76 46-63 (69)
195 PF09358 UBA_e1_C: Ubiquitin-a 36.9 47 0.001 21.9 3.0 27 14-40 36-62 (125)
196 KOG0156 Cytochrome P450 CYP2 s 36.1 27 0.00059 28.2 2.0 74 15-100 337-411 (489)
197 PF11305 DUF3107: Protein of u 35.2 1.1E+02 0.0023 18.7 4.1 34 1-35 1-34 (74)
198 COG1978 Uncharacterized protei 34.7 96 0.0021 21.4 4.2 33 4-36 53-85 (152)
199 cd06536 CIDE_N_ICAD CIDE_N dom 34.6 1.1E+02 0.0024 18.9 4.2 48 21-76 21-72 (80)
200 PF02017 CIDE-N: CIDE-N domain 34.3 1.1E+02 0.0024 18.7 7.9 62 3-75 5-69 (78)
201 PF07929 PRiA4_ORF3: Plasmid p 34.1 1.1E+02 0.0024 20.9 4.6 80 2-81 6-101 (179)
202 PF14807 AP4E_app_platf: Adapt 34.0 1.1E+02 0.0025 19.6 4.3 62 18-86 28-93 (104)
203 PF12195 End_beta_barrel: Beta 33.8 53 0.0012 20.3 2.6 35 61-95 22-56 (83)
204 smart00760 Bac_DnaA_C Bacteria 32.9 31 0.00067 19.5 1.4 19 22-40 1-19 (60)
205 KOG2660 Locus-specific chromos 32.4 42 0.0009 26.1 2.4 46 13-64 166-213 (331)
206 PF01187 MIF: Macrophage migra 31.8 62 0.0013 20.6 2.9 26 22-47 75-100 (114)
207 KOG4598 Putative ubiquitin-spe 31.8 1.3E+02 0.0029 26.4 5.4 63 12-78 878-942 (1203)
208 KOG1654 Microtubule-associated 31.8 89 0.0019 20.7 3.5 37 15-51 49-85 (116)
209 PF14319 Zn_Tnp_IS91: Transpos 31.5 11 0.00024 24.4 -0.7 14 85-98 87-100 (111)
210 smart00144 PI3K_rbd PI3-kinase 31.3 1.4E+02 0.0031 18.9 6.6 72 3-78 20-104 (108)
211 PF13085 Fer2_3: 2Fe-2S iron-s 31.0 80 0.0017 20.5 3.3 24 11-34 19-42 (110)
212 PF09469 Cobl: Cordon-bleu ubi 30.6 37 0.0008 21.0 1.5 38 29-69 2-39 (79)
213 KOG0159 Cytochrome P450 CYP11/ 30.1 56 0.0012 27.0 2.9 66 22-99 375-440 (519)
214 cd06538 CIDE_N_FSP27 CIDE_N do 29.9 1.4E+02 0.003 18.4 4.0 48 21-76 21-69 (79)
215 KOG4147 Uncharacterized conser 29.6 54 0.0012 21.7 2.3 62 16-77 28-112 (127)
216 cd01612 APG12_C Ubiquitin-like 29.5 1.4E+02 0.0031 18.4 6.4 59 14-79 19-82 (87)
217 PF02824 TGS: TGS domain; Int 28.5 1.2E+02 0.0025 17.1 3.6 31 3-35 1-31 (60)
218 PF13699 DUF4157: Domain of un 28.1 1.1E+02 0.0023 18.5 3.3 47 24-76 4-50 (79)
219 PRK06959 putative threonine-ph 26.8 81 0.0018 23.7 3.2 29 19-48 52-80 (339)
220 cd02787 MopB_CT_ydeP The MopB_ 26.5 1.3E+02 0.0029 18.6 3.7 16 62-77 40-55 (112)
221 cd06537 CIDE_N_B CIDE_N domain 25.5 1.7E+02 0.0038 18.1 4.3 65 3-77 5-70 (81)
222 PF05402 PqqD: Coenzyme PQQ sy 25.0 57 0.0012 18.4 1.7 23 17-39 26-48 (68)
223 PRK08453 fliD flagellar cappin 23.8 2.4E+02 0.0052 24.2 5.6 26 9-34 136-161 (673)
224 PRK07570 succinate dehydrogena 23.6 1.5E+02 0.0033 21.9 4.0 24 11-34 20-44 (250)
225 TIGR00824 EIIA-man PTS system, 23.4 2.1E+02 0.0045 18.2 4.2 38 11-48 29-71 (116)
226 PF14420 Clr5: Clr5 domain 23.0 99 0.0022 17.2 2.3 22 18-39 18-39 (54)
227 PRK14692 lagellar hook-associa 22.9 81 0.0017 27.3 2.7 34 6-39 257-292 (749)
228 PRK13552 frdB fumarate reducta 22.5 1.8E+02 0.0038 21.3 4.1 24 11-34 24-47 (239)
229 COG0853 PanD Aspartate 1-decar 22.3 39 0.00084 22.7 0.6 56 26-90 5-60 (126)
230 PF06487 SAP18: Sin3 associate 21.7 1E+02 0.0023 20.3 2.6 64 12-77 38-120 (120)
231 PRK13605 endoribonuclease SymE 21.6 1E+02 0.0022 20.3 2.4 41 1-41 56-96 (113)
232 PF12480 DUF3699: Protein of u 21.6 1.8E+02 0.0039 17.6 3.4 19 1-19 27-45 (77)
233 cd07153 Fur_like Ferric uptake 21.1 2.2E+02 0.0047 17.6 4.0 36 9-47 79-114 (116)
234 KOG3260 Calcyclin-binding prot 20.9 1.5E+02 0.0032 21.5 3.3 36 62-97 74-110 (224)
235 PF13592 HTH_33: Winged helix- 20.7 1.1E+02 0.0023 17.2 2.2 22 19-40 3-24 (60)
236 TIGR02008 fdx_plant ferredoxin 20.7 2.1E+02 0.0047 17.5 3.8 26 2-27 4-29 (97)
No 1
>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=99.86 E-value=3e-21 Score=117.81 Aligned_cols=74 Identities=23% Similarity=0.394 Sum_probs=71.6
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+||..+|+++.++|++++||++||++|++++|+|+++|+|+|+|+ .|+|+.+|++|||++++++++.++++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~------~L~d~~~L~~~~i~~~~~l~l~~~~~ 74 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGK------ALADDKRLSDYSIGPNAKLNLVVRPP 74 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCE------ECCCCCCHHHCCCCCCCEEEEEEcCC
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999998753
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=99.84 E-value=1.2e-20 Score=115.26 Aligned_cols=74 Identities=22% Similarity=0.361 Sum_probs=70.6
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+||. ++++.++|++++||++||++|++++|+|+++|+|+|+|+ .|+|+.+|++|+|++++++++.++++
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk------~L~D~~tL~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGV------PLEDDATLGQCGVEELCTLEVAGRLL 72 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCe------ECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 8999998 478999999999999999999999999999999999999 99999999999999999999999987
Q ss_pred CC
Q 041108 81 DD 82 (102)
Q Consensus 81 ~~ 82 (102)
++
T Consensus 73 GG 74 (74)
T cd01793 73 GG 74 (74)
T ss_pred CC
Confidence 63
No 3
>PTZ00044 ubiquitin; Provisional
Probab=99.84 E-value=1.8e-20 Score=114.34 Aligned_cols=75 Identities=25% Similarity=0.378 Sum_probs=72.9
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+||..+|+++.+++++++||++||.+|++.+|+|+++|+|+|+|+ .|+|+.+|++|++++|++|++.+++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~------~L~d~~~l~~~~i~~~~~i~l~~~~~ 74 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGK------QMSDDLKLSDYKVVPGSTIHMVLQLR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCE------EccCCCcHHHcCCCCCCEEEEEEEcc
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999999876
Q ss_pred C
Q 041108 81 D 81 (102)
Q Consensus 81 ~ 81 (102)
+
T Consensus 75 g 75 (76)
T PTZ00044 75 G 75 (76)
T ss_pred C
Confidence 5
No 4
>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=99.84 E-value=1.8e-20 Score=114.81 Aligned_cols=71 Identities=24% Similarity=0.374 Sum_probs=68.9
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+|+|++..|+.+.+++++++||++||++|+++.|+|+++|||+|+|+ .|+|+.+|++|||++|++|+++.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk------~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYT------IFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCc------CCCCCCCHHHcCCCCCCEEEEEe
Confidence 789999999999999999999999999999999999999999999999 99999999999999999999985
No 5
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.84 E-value=2.5e-20 Score=113.20 Aligned_cols=76 Identities=25% Similarity=0.409 Sum_probs=73.2
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+..+|+.+.+++++++||++||++|++.+|+|+++|+|+|+|+ .|+|+.+|++||+++|++|++.+++.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~------~L~d~~~L~~~~i~~~~~i~l~~~~~ 74 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGK------QLEDGRTLSDYNIQKESTLHLVLRLR 74 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCE------ECCCCCcHHHcCCCCCCEEEEEEEcc
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999999976
Q ss_pred CC
Q 041108 81 DD 82 (102)
Q Consensus 81 ~~ 82 (102)
|+
T Consensus 75 gg 76 (76)
T cd01803 75 GG 76 (76)
T ss_pred CC
Confidence 53
No 6
>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=99.83 E-value=8.5e-20 Score=110.83 Aligned_cols=75 Identities=25% Similarity=0.360 Sum_probs=72.5
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+..+|+.+.+++++++||++||++|++..|+|+++|+|+|+|+ .|+|+.+|++|++++|++|++.++..
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~------~L~d~~tl~~~~i~~g~~i~l~~~~~ 74 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGK------QMNDDKTAADYKLEGGSVLHLVLALR 74 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCe------EccCCCCHHHcCCCCCCEEEEEEEcc
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999999876
Q ss_pred C
Q 041108 81 D 81 (102)
Q Consensus 81 ~ 81 (102)
+
T Consensus 75 g 75 (76)
T cd01806 75 G 75 (76)
T ss_pred C
Confidence 5
No 7
>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=99.83 E-value=5.2e-20 Score=113.96 Aligned_cols=74 Identities=19% Similarity=0.179 Sum_probs=70.5
Q ss_pred CEEEEEeCCCcE-EEEE-ecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTL-FYIQ-VENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~-~~i~-v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+||+.+|++ +.++ +++++||++||++|++.+|+|++.|||+|+|+ .|+|+.+|++|||++|++|+++++
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk------~L~D~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGK------QMEDGHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCE------ECCCCCCHHHcCCCCCCEEEEEEe
Confidence 999999999987 6885 89999999999999999999999999999999 999999999999999999999998
Q ss_pred cC
Q 041108 79 PL 80 (102)
Q Consensus 79 ~~ 80 (102)
..
T Consensus 75 ~~ 76 (78)
T cd01797 75 QD 76 (78)
T ss_pred cC
Confidence 64
No 8
>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=99.83 E-value=8e-20 Score=111.66 Aligned_cols=74 Identities=24% Similarity=0.393 Sum_probs=71.4
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCC--CCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKL--PCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gi--p~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+|++.+|+.+.+++++++||++||++|++.+|+ |+++|+|+|+|+ .|+|+.+|++|||++|++|+++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~------~L~d~~~L~~~~i~~~~~i~~~~~ 74 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGK------ILKDDTTLEEYKIDEKDFVVVMVS 74 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCE------EccCCCCHHHcCCCCCCEEEEEEe
Confidence 899999999999999999999999999999999999 999999999999 999999999999999999999987
Q ss_pred cC
Q 041108 79 PL 80 (102)
Q Consensus 79 ~~ 80 (102)
.+
T Consensus 75 ~~ 76 (77)
T cd01805 75 KP 76 (77)
T ss_pred cC
Confidence 64
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=99.82 E-value=1e-19 Score=112.39 Aligned_cols=75 Identities=33% Similarity=0.439 Sum_probs=71.6
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+...|+.+.+++++++||++||++|+++.|+++++|+|+|+|+ .|+|+ +|++|||++|++|+++....
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk------~L~d~-~L~~~gi~~~~~i~l~~~~~ 74 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRET------RLSSG-KLQDLGLGDGSKLTLVPTVE 74 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCc------CCCCC-cHHHcCCCCCCEEEEEeecc
Confidence 899999999999999999999999999999999999999999999999 99998 99999999999999998876
Q ss_pred CC
Q 041108 81 DD 82 (102)
Q Consensus 81 ~~ 82 (102)
++
T Consensus 75 ~~ 76 (78)
T cd01804 75 AG 76 (78)
T ss_pred cc
Confidence 54
No 10
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.82 E-value=8.2e-20 Score=118.51 Aligned_cols=76 Identities=26% Similarity=0.361 Sum_probs=73.3
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+||..+|+++.++|++++||++||++|++..|+|+++|+|+|+|+ .|+|+.+|++|+|++|++|++.+++.
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk------~L~D~~tL~dy~I~~~stL~l~~~l~ 101 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNM------ELEDEYCLNDYNISEGCTLKLVLAMR 101 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCE------ECCCCCcHHHcCCCCCCEEEEEEecC
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999999876
Q ss_pred CC
Q 041108 81 DD 82 (102)
Q Consensus 81 ~~ 82 (102)
++
T Consensus 102 GG 103 (103)
T cd01802 102 GG 103 (103)
T ss_pred CC
Confidence 63
No 11
>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=99.81 E-value=1.7e-19 Score=110.05 Aligned_cols=73 Identities=23% Similarity=0.397 Sum_probs=70.4
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
|+||+.+|+++.+++++++||++||++|++..|+|+++|+|+|+|+ .|+|+.+|++|||++++++++..++.+
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~------~L~D~~tL~~~~i~~~~tl~l~~~l~g 73 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGR------PMEDEHPLGEYGLKPGCTVFMNLRLRG 73 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCE------ECCCCCCHHHcCCCCCCEEEEEEEccC
Confidence 5899999999999999999999999999999999999999999999 999999999999999999999998765
No 12
>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=99.80 E-value=4.4e-19 Score=106.67 Aligned_cols=72 Identities=28% Similarity=0.424 Sum_probs=69.4
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+|+..+|+.+.+++++++||++||++|++.+|+|+++|+|+|+|+ .|+|+.+|++||+++|+++++..+
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 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGR------VLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCE------ECCCcCcHHHCCCCCCCEEEEEeC
Confidence 899999999999999999999999999999999999999999999999 999999999999999999998753
No 13
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.79 E-value=5.5e-19 Score=109.41 Aligned_cols=74 Identities=28% Similarity=0.445 Sum_probs=70.5
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE--EeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLIL--LLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L--~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+|+..+|+.+.+++++++||++||++|++..|+|+++|+| .|+|+ .|+|+.+|++|||++|++|++.++
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~------~L~D~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSRE------VLQDGVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCC------CCCCCCCHHHcCCCCCCEEEEEEE
Confidence 7899999999999999999999999999999999999999999 78898 999999999999999999999998
Q ss_pred cC
Q 041108 79 PL 80 (102)
Q Consensus 79 ~~ 80 (102)
..
T Consensus 77 ~~ 78 (80)
T cd01792 77 NC 78 (80)
T ss_pred cc
Confidence 53
No 14
>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=99.79 E-value=5.5e-19 Score=107.32 Aligned_cols=70 Identities=17% Similarity=0.219 Sum_probs=66.7
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
+.||..+|+++.+++++++||++||++|++..|+|+++|+|+|+|+ .|+|+.+|++|+|++|++|++++.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~------~L~D~~~l~~~~i~~~~tv~~~~~ 70 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGK------LLTDKTRLQETKIQKDYVVQVIVN 70 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCe------ECCCCCCHHHcCCCCCCEEEEEeC
Confidence 3578999999999999999999999999999999999999999999 999999999999999999999863
No 15
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.77 E-value=1.6e-18 Score=104.53 Aligned_cols=70 Identities=21% Similarity=0.398 Sum_probs=67.1
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+||+.+|+++.+++++++||++||++|+++.|+|+++|+|+|+|+ .|+|+.+|++|||++|+++++..|
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 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGK------ELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCe------ECCCCCcHHHcCCCCCCEEEEEeC
Confidence 5789999999999999999999999999999999999999999999 999999999999999999999754
No 16
>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=99.76 E-value=5.3e-18 Score=102.62 Aligned_cols=71 Identities=27% Similarity=0.400 Sum_probs=67.3
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+|++.+|+ ..+++++++||++||++|++..|+++++|+|.|+|+ .|+|+.+|++||+++|++|++.++
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-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGK------ILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCe------EcCCCCcHHHcCCCCCCEEEEEEC
Confidence 68999999997 489999999999999999999999999999999999 999999999999999999999864
No 17
>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=99.76 E-value=4.5e-18 Score=101.79 Aligned_cols=68 Identities=38% Similarity=0.646 Sum_probs=65.1
Q ss_pred EeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 6 EILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 6 ~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|+.+|+.+.+++++++||.+||++|++++++|++.|+|+|+|+ .|+|+.+|++|||++|++|++.+++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~------~L~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGK------ELDDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTE------EESTTSBTGGGTTSTTEEEEEEESS
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeee------cccCcCcHHHcCCCCCCEEEEEEec
Confidence 5678999999999999999999999999999999999999999 9999999999999999999998864
No 18
>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=99.75 E-value=1.1e-17 Score=100.46 Aligned_cols=70 Identities=26% Similarity=0.364 Sum_probs=66.5
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+|+|+.. |+.+.+++++++||++||++|++.+|+|+++|+|+|+|+ .|+|+.+|++||+++|++|+++.
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-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGK------ERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCc------ccCccCcHHHcCCCCCCEEEEec
Confidence 68999997 899999999999999999999999999999999999999 99999999999999999999874
No 19
>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=99.74 E-value=1.4e-17 Score=102.26 Aligned_cols=70 Identities=21% Similarity=0.249 Sum_probs=66.2
Q ss_pred CCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCC
Q 041108 8 LTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDG 83 (102)
Q Consensus 8 ~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~ 83 (102)
++|+++.+++++++||++||++|++.+|+|+++|+|+|+|+ .|+|+.+|++|+|++|++|+++++..++.
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 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGI------FIKDSNSLAYYNLANGTIIHLQLKERGGR 74 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCE------EcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence 46899999999999999999999999999999999999999 99999999999999999999999987753
No 20
>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=99.74 E-value=1.2e-17 Score=101.48 Aligned_cols=68 Identities=26% Similarity=0.349 Sum_probs=64.0
Q ss_pred EEEEeC-CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCC-CccccCCCCCCCEEEEE
Q 041108 3 VAVEIL-TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDE-VPLADCGVKDGSHIYLF 76 (102)
Q Consensus 3 v~V~~~-~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~-~~L~~~gI~~~~~i~l~ 76 (102)
++|+.. +|+++.+++++++||++||++|++++|+|++.|+|+|+|+ .|+|+ .+|++|||++|++|++.
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 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGR------ELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCe------EccCCcccHHHcCCCCCCEEEEe
Confidence 578999 8999999999999999999999999999999999999999 99887 68999999999999874
No 21
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.73 E-value=2.7e-17 Score=100.81 Aligned_cols=69 Identities=23% Similarity=0.300 Sum_probs=64.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEe---CCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLL---SSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~---~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
|.|.|+. +|+.+.+++++++||++||++|++.+|+|+++|+|+| +|+ .++|+.+|++|+|++|+.|+++
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-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGK------PAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCC------cCCCCcCHHHcCCCCCCEEEEE
Confidence 6788888 4788999999999999999999999999999999996 888 9999999999999999999987
No 22
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=7e-17 Score=110.60 Aligned_cols=92 Identities=23% Similarity=0.410 Sum_probs=86.6
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+.+.|++..+++.+++||..+|.+|+...|||+++|+|+|.|+ .|+|..+|+||+|+.-++++++++..
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~------qLedgrtlSDY~Iqkestl~l~l~l~ 74 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGK------QLEDGRTLSDYNIQKESTLHLVLRLR 74 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhc------ccccCCccccccccccceEEEEEEec
Confidence 899999999999999999999999999999999999999999999999 99999999999999999999999988
Q ss_pred CCCC-ceeEEEecCCcCCC
Q 041108 81 DDGS-TQHSVFTIPEWLNP 98 (102)
Q Consensus 81 ~~~~-~~~~~~~~~~~~~~ 98 (102)
|+.. ++..++++|....+
T Consensus 75 Gg~kkrkkk~~~~pk~~~~ 93 (156)
T KOG0004|consen 75 GGAKKRKKKSYTTPKKIKS 93 (156)
T ss_pred CCcccccccccccccccCC
Confidence 8655 67789999987764
No 23
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.66 E-value=3.8e-16 Score=91.21 Aligned_cols=64 Identities=27% Similarity=0.456 Sum_probs=61.1
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGS 71 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~ 71 (102)
|+|+||..+ +.+.+++++++||++||++|+..+|+|+++|+|+|+|+ .|+|+.+|++||+++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~------~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGK------VLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCE------ECCCCCCHHHcCCcCCC
Confidence 899999998 78899999999999999999999999999999999999 99999999999999875
No 24
>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=99.66 E-value=3.4e-16 Score=97.26 Aligned_cols=71 Identities=14% Similarity=0.046 Sum_probs=63.0
Q ss_pred CEEEEEeCCCcEE--EEEecCCCcHHHHHHHHHhhcC--CCCccEEEEeCCCCCCCCccCCCCCccccCC--CCCCCEEE
Q 041108 1 MKVAVEILTGTLF--YIQVENDATVADLKREIGAQQK--LPCDRLILLLSSDHSCPMTQDHDEVPLADCG--VKDGSHIY 74 (102)
Q Consensus 1 M~v~V~~~~g~~~--~i~v~~~~TV~dLK~~I~~~~g--ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~g--I~~~~~i~ 74 (102)
|.++||+.+|+.+ .+++++++||++||++|++..+ .++++|||+|+|+ +|+|+.+|++|+ +.+|.+||
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GK------iLkD~~tL~~~~~~~~~~~tiH 75 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGK------LLPDHLKLRDVLRKQDEYHMVH 75 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCe------eccchhhHHHHhhcccCCceEE
Confidence 5789999999885 4555899999999999999875 4589999999999 999999999996 99999999
Q ss_pred EEe
Q 041108 75 LFF 77 (102)
Q Consensus 75 l~~ 77 (102)
+..
T Consensus 76 LV~ 78 (79)
T cd01790 76 LVC 78 (79)
T ss_pred EEe
Confidence 874
No 25
>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=99.65 E-value=6.6e-16 Score=119.31 Aligned_cols=76 Identities=24% Similarity=0.359 Sum_probs=72.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcC---CCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQK---LPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~g---ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+|+||+.+|+++.|+|++++||.+||++|++..| +++++|||+|+|+ +|+|+.+|++|+|+++++|++++
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~Gk------iL~Dd~tL~dy~I~e~~~Ivvmv 74 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGK------ILSDDKTVREYKIKEKDFVVVMV 74 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCE------ECCCCCcHHHcCCCCCCEEEEEe
Confidence 99999999999999999999999999999999998 9999999999999 99999999999999999999998
Q ss_pred ecCCC
Q 041108 78 KPLDD 82 (102)
Q Consensus 78 ~~~~~ 82 (102)
.....
T Consensus 75 ~k~k~ 79 (378)
T TIGR00601 75 SKPKT 79 (378)
T ss_pred ccCCC
Confidence 87543
No 26
>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=99.63 E-value=3.3e-15 Score=93.92 Aligned_cols=76 Identities=16% Similarity=0.318 Sum_probs=72.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+..+|+.+.+.|.+++|+..||.+++++.|+|++.|+++|+|+ .|+++.++.+|++.+|++|+++++..
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~ 85 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQ------RIRDNQTPDDLGMEDGDEIEVMLEQT 85 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCe------ECCCCCCHHHcCCCCCCEEEEEEecc
Confidence 679999999999999999999999999999999999999999999999 99999999999999999999999876
Q ss_pred CC
Q 041108 81 DD 82 (102)
Q Consensus 81 ~~ 82 (102)
++
T Consensus 86 GG 87 (87)
T cd01763 86 GG 87 (87)
T ss_pred cC
Confidence 63
No 27
>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=99.63 E-value=2.6e-15 Score=92.31 Aligned_cols=69 Identities=23% Similarity=0.349 Sum_probs=60.9
Q ss_pred EEEEEeC--CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC-CCCCccccCCCC-CCCEEEEEe
Q 041108 2 KVAVEIL--TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD-HDEVPLADCGVK-DGSHIYLFF 77 (102)
Q Consensus 2 ~v~V~~~--~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L-~d~~~L~~~gI~-~~~~i~l~~ 77 (102)
.+.|..+ .|.++.+++++++||++||.+|++++|+|+++|+| |+|+ .| +|+.+|++||++ +|+++++++
T Consensus 2 ~~~~~~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~------~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 2 NVSVEDAQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQ------RLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred EEEEeccccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCC------eeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 4555544 57889999999999999999999999999999999 9998 66 577999999998 889999985
No 28
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=9.7e-16 Score=90.16 Aligned_cols=70 Identities=24% Similarity=0.365 Sum_probs=67.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
|.|.|++++|+.+.+++++.++|..+|+.|+++.|+||..|||+|.|+ .+.|+.+-.+|++.-|+++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gk------qm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGK------QMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccc------cccccccHHHhhhccceeEeeC
Confidence 789999999999999999999999999999999999999999999999 9999999999999999999873
No 29
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.60 E-value=1.3e-16 Score=103.67 Aligned_cols=77 Identities=26% Similarity=0.389 Sum_probs=74.3
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+++++...|++.++++++++||..+|..|..+.|+||+.|+|.|+|+ +|+|+.++++||++--++++++.++.
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k------~LED~~Tla~Y~i~~~~Tl~~~~rL~ 74 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGK------QLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhccc------ccccCCcccccCccchhhhhhhHHHh
Confidence 789999999999999999999999999999999999999999999999 99999999999999999999999988
Q ss_pred CCC
Q 041108 81 DDG 83 (102)
Q Consensus 81 ~~~ 83 (102)
++.
T Consensus 75 GG~ 77 (128)
T KOG0003|consen 75 GGI 77 (128)
T ss_pred cCC
Confidence 763
No 30
>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=99.55 E-value=3.3e-14 Score=83.91 Aligned_cols=67 Identities=36% Similarity=0.577 Sum_probs=63.5
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+..+|+.+.+++++++||.+||++|++.+|+|+++|+|+|+|+ .++|+.+|.+|++.+++.|++..
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~------~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGK------ILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCc------CCCCcCCHHHCCCCCCCEEEEEE
Confidence 67778999999999999999999999999999999999999999 99999999999999999999874
No 31
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.47 E-value=9.6e-14 Score=85.41 Aligned_cols=55 Identities=29% Similarity=0.356 Sum_probs=49.8
Q ss_pred ecC-CCcHHHHHHHHHhhc--CCC-CccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 17 VEN-DATVADLKREIGAQQ--KLP-CDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 17 v~~-~~TV~dLK~~I~~~~--gip-~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|++ ++||.+||++|+++. |++ +++|||+|+|+ .|+|+.+|++|||++|++|+++.
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GK------iL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGR------KLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCc------CCCCCCcHHHcCCCCCCEEEEEe
Confidence 444 799999999999996 475 99999999999 99999999999999999999975
No 32
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.46 E-value=1.9e-13 Score=103.25 Aligned_cols=75 Identities=25% Similarity=0.417 Sum_probs=72.9
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcC--CCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQK--LPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~g--ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+||++.|++|.+++.+++||.++|+.|+...| +|++.|+|+|+|+ +|+|+.++.+|+|++++.|.+++.
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~Gk------iL~D~~tv~Eykv~E~~fiVvMls 74 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGK------ILKDETTVGEYKVKEKKFIVVMLS 74 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecce------eccCCcchhhhccccCceEEEEEe
Confidence 89999999999999999999999999999999999 9999999999999 999999999999999999999998
Q ss_pred cCC
Q 041108 79 PLD 81 (102)
Q Consensus 79 ~~~ 81 (102)
...
T Consensus 75 K~k 77 (340)
T KOG0011|consen 75 KDK 77 (340)
T ss_pred cCc
Confidence 765
No 33
>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=99.45 E-value=7.2e-13 Score=86.96 Aligned_cols=84 Identities=25% Similarity=0.301 Sum_probs=74.0
Q ss_pred CEEEEEeCCC-cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCC-------CCCCE
Q 041108 1 MKVAVEILTG-TLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGV-------KDGSH 72 (102)
Q Consensus 1 M~v~V~~~~g-~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI-------~~~~~ 72 (102)
|.++++.+.. .++++++.++.||.+||++|+.....||+.|+|+..+. +|+|+++|++||+ ++.++
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~q------vLeD~kTL~d~g~t~~~akaq~pA~ 74 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQ------LLDDGKTLGDCGFTSQTARPQAPAT 74 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCce------eecccccHHHcCccccccccCCCCe
Confidence 6778887755 55789999999999999999999999999999996667 9999999999999 67999
Q ss_pred EEEEeecCCCCCceeEEE
Q 041108 73 IYLFFKPLDDGSTQHSVF 90 (102)
Q Consensus 73 i~l~~~~~~~~~~~~~~~ 90 (102)
+-+.++..++.++...|.
T Consensus 75 vgLa~r~~d~~fE~l~I~ 92 (119)
T cd01788 75 VGLAFRSSDDTFEPLRIE 92 (119)
T ss_pred EEEEEecCCCCccceeee
Confidence 999999878888775554
No 34
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.43 E-value=3.9e-13 Score=105.86 Aligned_cols=74 Identities=26% Similarity=0.425 Sum_probs=69.4
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
++|+||+.++ ++.+.|..+.||.+||+.|...++.++++++|+|.|+ +|+|+.+|..|||+||.||||+++..
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGr------ILKD~dTL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGR------ILKDDDTLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCc------cccChhhHHHcCCCCCcEEEEEeccC
Confidence 3688888876 7899999999999999999999999999999999999 99999999999999999999999875
Q ss_pred C
Q 041108 81 D 81 (102)
Q Consensus 81 ~ 81 (102)
.
T Consensus 89 ~ 89 (493)
T KOG0010|consen 89 P 89 (493)
T ss_pred C
Confidence 3
No 35
>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=99.37 E-value=1.7e-12 Score=83.50 Aligned_cols=63 Identities=21% Similarity=0.057 Sum_probs=57.6
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC-CCCCccccCCCCCCCEEEEEeecC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD-HDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L-~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
...++|++++||.+||.+|..+++++|++|+|++.|+ .| +|+++|++|||.+|++|.+.+..+
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~------~L~DDsrTLssyGv~sgSvl~LlideP 79 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGK------ILSDDCATLGTLGVIPESVILLKADEP 79 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCc------eeccCCccHHhcCCCCCCEEEEEecCC
Confidence 3578899999999999999999999999999999998 55 677999999999999999998654
No 36
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=99.37 E-value=1.9e-12 Score=77.91 Aligned_cols=71 Identities=18% Similarity=0.328 Sum_probs=65.9
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCC-ccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPC-DRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~-~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+|+|+..+|+.+.+.+.++.++..|++.+++..|+++ +..+++|.|. .|+++.+++++|+.+|++|.+.+
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~------~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGK------RLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTE------EE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCE------EcCCCCCHHHCCCCCCCEEEEEC
Confidence 68999999999999999999999999999999999999 9999999999 99999999999999999999874
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=99.35 E-value=2.3e-12 Score=84.56 Aligned_cols=87 Identities=15% Similarity=0.189 Sum_probs=68.3
Q ss_pred EEEEEeCCCcEE-EEEecCCCcHHHHHHHHHhhc-----CCC--CccEEEEeCCCCCCCCccCCCCCccccCC------C
Q 041108 2 KVAVEILTGTLF-YIQVENDATVADLKREIGAQQ-----KLP--CDRLILLLSSDHSCPMTQDHDEVPLADCG------V 67 (102)
Q Consensus 2 ~v~V~~~~g~~~-~i~v~~~~TV~dLK~~I~~~~-----gip--~~~q~L~~~g~~~~~~~~L~d~~~L~~~g------I 67 (102)
.|.+|..+|..+ -..+++++||++||++|++.. ++| ++.|+|+|+|+ +|+|+.+|++|+ +
T Consensus 6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGK------iLeD~~TL~d~~~p~g~~~ 79 (113)
T cd01814 6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGK------ILENSKTVGECRSPVGDIA 79 (113)
T ss_pred EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCe------ecCCCCcHHHhCCcccccC
Confidence 467777788654 567779999999999999554 455 99999999999 999999999999 7
Q ss_pred CCCCEEEEEeecCCCCC-ceeEEEecCC
Q 041108 68 KDGSHIYLFFKPLDDGS-TQHSVFTIPE 94 (102)
Q Consensus 68 ~~~~~i~l~~~~~~~~~-~~~~~~~~~~ 94 (102)
....|+|+.++.+.... ....+...|+
T Consensus 80 ~~~~TmHvvlr~~~~~~~~~k~~~~~~~ 107 (113)
T cd01814 80 GGVITMHVVVQPPLADKKTEKKVDKAPK 107 (113)
T ss_pred CCceEEEEEecCCCCCccccccccCCcc
Confidence 77799999999765443 2344444444
No 38
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.33 E-value=1.4e-11 Score=77.00 Aligned_cols=76 Identities=21% Similarity=0.266 Sum_probs=60.1
Q ss_pred EEEEEeCCC-cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEE-eCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 2 KVAVEILTG-TLFYIQVENDATVADLKREIGAQQKLPCDRLILL-LSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 2 ~v~V~~~~g-~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~-~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
.|.|..... ......+++++||.+||++++..+|+||+.|+|. +.+..+.+....+|+++|++||+++|.+||+.=
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 456666432 3345669999999999999999999999999994 777633332345888999999999999999873
No 39
>PLN02560 enoyl-CoA reductase
Probab=99.26 E-value=3.5e-11 Score=91.04 Aligned_cols=76 Identities=33% Similarity=0.334 Sum_probs=62.6
Q ss_pred CEEEEEeCCCcEE---EEEecCCCcHHHHHHHHHhhcCC-CCccEEEEeCCCCC-CCCccCCCCCccccCCCCCCCEEEE
Q 041108 1 MKVAVEILTGTLF---YIQVENDATVADLKREIGAQQKL-PCDRLILLLSSDHS-CPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 1 M~v~V~~~~g~~~---~i~v~~~~TV~dLK~~I~~~~gi-p~~~q~L~~~g~~~-~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
|+|.|+.++|+.. .+++++++||+|||++|+++.++ ++++|||.+..+.. +-...++|+++|+++|+++|+++++
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 8999999999886 79999999999999999999886 89999999842101 1112678999999999999998665
Q ss_pred E
Q 041108 76 F 76 (102)
Q Consensus 76 ~ 76 (102)
-
T Consensus 81 k 81 (308)
T PLN02560 81 K 81 (308)
T ss_pred E
Confidence 3
No 40
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.25 E-value=4.7e-11 Score=74.71 Aligned_cols=76 Identities=22% Similarity=0.284 Sum_probs=59.2
Q ss_pred EEEEEeCCC--cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeC-CC-CCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 2 KVAVEILTG--TLFYIQVENDATVADLKREIGAQQKLPCDRLILLLS-SD-HSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 2 ~v~V~~~~g--~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~-g~-~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
+|+|..... ......++.++||++||.+|+..+|+|++.|+|.+. .. ++.+....+|+++|++||+++|++|++.=
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD 82 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence 466666654 478899999999999999999999999999999876 22 22222244788999999999999999873
No 41
>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=99.18 E-value=5.6e-11 Score=73.91 Aligned_cols=72 Identities=28% Similarity=0.373 Sum_probs=45.5
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC--CCCCccccCCCCCCCEEEEE
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD--HDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L--~d~~~L~~~gI~~~~~i~l~ 76 (102)
|-|+||+.+|. +.+++++++|+++|+++|++..++|.+.|.|.....+. +.+ +++++|+++|+++||.|++.
T Consensus 5 milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~---~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNK---EELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGG---GCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCC---cccccCCcCCHHHcCCCCccEEEEe
Confidence 67889998876 57799999999999999999999999999986654422 133 67899999999999999875
No 42
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.05 E-value=3.3e-09 Score=61.86 Aligned_cols=72 Identities=24% Similarity=0.389 Sum_probs=67.3
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
+++....|+.+.+++.+..++..+|.+|+...|++++.|++.++|+ .|+|+.++.+|+|..++++++..+..
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~------~l~d~~~l~~~~i~~~~~~~l~~~~~ 73 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGK------PLEDGRTLADYNIQEGSTLHLVLSLR 73 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCE------ECcCCCcHHHhCCCCCCEEEEEEecC
Confidence 5677788999999999999999999999999999999999999999 99999999999999999999988764
No 43
>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=99.03 E-value=1.5e-09 Score=66.52 Aligned_cols=68 Identities=28% Similarity=0.375 Sum_probs=52.2
Q ss_pred EEEEEeCC-CcEEEEEe-cCCCcHHHHHHHHHhhcC-CCCccEEEE--eCCCCCCCCccCCCCCccccCCCCCCCEEEE
Q 041108 2 KVAVEILT-GTLFYIQV-ENDATVADLKREIGAQQK-LPCDRLILL--LSSDHSCPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 2 ~v~V~~~~-g~~~~i~v-~~~~TV~dLK~~I~~~~g-ip~~~q~L~--~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
+|.++..+ .....+++ ++++||.|||.+|++..+ +++++|+|. +.|+ .|.|+.+|.++|+++|++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~------~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGK------SLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCc------ccCCcccHhhcCCCCCCEEEE
Confidence 34445544 33333444 478999999999999976 589999997 4555 889999999999999999876
No 44
>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=98.85 E-value=2.9e-08 Score=54.93 Aligned_cols=67 Identities=30% Similarity=0.443 Sum_probs=59.9
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|+..+|....+.+.+.+|+.++|..|.++.|+++++++|+++|. .+.+...+.++++.+++++++..
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~------~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGK------ILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCe------ECCCCCcHHHcCCCCCCEEEEEe
Confidence 34446888899999999999999999999999999999999999 88888888899999999998864
No 45
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=5.8e-09 Score=88.11 Aligned_cols=74 Identities=22% Similarity=0.322 Sum_probs=69.9
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
.|.||+++.+++++.++..+||.+||..|.++..|+.+.|||+|.|+ +|.|++++.+|+| +|-+|||.-+.+.
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~gr------vl~~~k~vq~~~v-dgk~~hlverppp 76 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGR------VLQDDKKVQEYNV-DGKVIHLVERPPP 76 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecce------eeccchhhhhccC-CCeEEEeeccCCC
Confidence 37899999999999999999999999999999999999999999999 9999999999999 9999999988664
Q ss_pred C
Q 041108 82 D 82 (102)
Q Consensus 82 ~ 82 (102)
+
T Consensus 77 ~ 77 (1143)
T KOG4248|consen 77 Q 77 (1143)
T ss_pred C
Confidence 3
No 46
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.81 E-value=5.2e-08 Score=64.03 Aligned_cols=74 Identities=24% Similarity=0.339 Sum_probs=56.2
Q ss_pred EEEEEeCCCc-EEEEEecCCCcHHHHHHHHHhhcC-------CCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCC--
Q 041108 2 KVAVEILTGT-LFYIQVENDATVADLKREIGAQQK-------LPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGS-- 71 (102)
Q Consensus 2 ~v~V~~~~g~-~~~i~v~~~~TV~dLK~~I~~~~g-------ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~-- 71 (102)
.|.++..+|+ ...+.+++.+||++||+.|...-. ..++..||++.|+ +|+|+++|++|.+..|+
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~Gr------iL~d~~tL~~~~~~~~~~~ 77 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGR------ILEDNKTLSDCRLPSGETP 77 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTE------EE-SSSBTGGGT--TTSET
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCe------ecCCcCcHHHhCCCCCCCC
Confidence 4677778998 788999999999999999997531 2366799999999 99999999999998766
Q ss_pred ----EEEEEeecCC
Q 041108 72 ----HIYLFFKPLD 81 (102)
Q Consensus 72 ----~i~l~~~~~~ 81 (102)
++|+.++...
T Consensus 78 ~~~~vmHlvvrp~~ 91 (111)
T PF13881_consen 78 GGPTVMHLVVRPNA 91 (111)
T ss_dssp T--EEEEEEE-SSS
T ss_pred CCCEEEEEEecCCC
Confidence 6888887654
No 47
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2.2e-09 Score=64.13 Aligned_cols=70 Identities=24% Similarity=0.385 Sum_probs=64.0
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
++.++.+-|+...+.+.+++||+|+|+.|++++|-.++...|-..+. +++|.-+|++|.|.+|..+.++.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~------i~kd~I~L~dyeihdg~~lelyy 72 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYT------IFKDHITLSDYEIHDGMNLELYY 72 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhh------hhhcccceeeEEeccCccEEEee
Confidence 56677788999999999999999999999999999999988887777 99999999999999999988764
No 48
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=98.61 E-value=5.8e-08 Score=62.24 Aligned_cols=64 Identities=25% Similarity=0.368 Sum_probs=53.1
Q ss_pred CEEEEEeCCC-cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCC
Q 041108 1 MKVAVEILTG-TLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVK 68 (102)
Q Consensus 1 M~v~V~~~~g-~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~ 68 (102)
|.++++.+.. .+++++++++.||.|||.+++..+.-|++.|+|+.-..- .+|+|.++|++||..
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~e----qlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTE----QLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHH----HHhhccchhhhcccc
Confidence 5677776644 667899999999999999999999999999999873320 188999999999764
No 49
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=1.7e-07 Score=74.04 Aligned_cols=70 Identities=19% Similarity=0.279 Sum_probs=63.5
Q ss_pred EEEEeCCCcEEEEE-ecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 3 VAVEILTGTLFYIQ-VENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 3 v~V~~~~g~~~~i~-v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|.|+. .|+.+.++ ++.++|+..||.++.+.+|++|++||++..|. .+.|+..+...+|++|.+++++...
T Consensus 6 v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg------~a~dd~~~~al~iKpn~~lmMmGt~ 76 (473)
T KOG1872|consen 6 VIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGG------LAKDDVDWGALQIKPNETLMMMGTA 76 (473)
T ss_pred Eeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecc------cccccccccccccCCCCEEEeeccc
Confidence 55665 47888877 99999999999999999999999999999999 9999999999999999999999754
No 50
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=3.9e-06 Score=64.19 Aligned_cols=71 Identities=21% Similarity=0.451 Sum_probs=61.8
Q ss_pred CEEEEEeC-CCc--EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 1 MKVAVEIL-TGT--LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 1 M~v~V~~~-~g~--~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|.+.|+.. .|. .+.++|+.+.+|.+||+.++.++|+|+++.+++|.|+ .|.++-++..+.+...+.++++.
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGK------eLs~~ttv~~cDL~qqs~~hi~~ 74 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGK------ELSNDTTVQNCDLSQQSATHIML 74 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEecc------ccccCceeecccccccchhhhhc
Confidence 66777775 233 3678999999999999999999999999999999999 99999999988888888888884
No 51
>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=98.07 E-value=4.9e-05 Score=46.70 Aligned_cols=73 Identities=18% Similarity=0.193 Sum_probs=60.8
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC-CCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD-HSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~-~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
++|+|+-..+....+.|+|..+|-.+|++|....+++- .|+|.|--. .+++ +|.+..+|++|||=.+..|.+.
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rq--lL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQ--LLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccc--cccccccHhhhcceeccEEEEE
Confidence 47899998888899999999999999999999998876 899988332 2333 7899999999999777666654
No 52
>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=98.02 E-value=1.7e-05 Score=48.71 Aligned_cols=68 Identities=29% Similarity=0.404 Sum_probs=47.3
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCcc------EEEE-eCCCCCCCCccCCCCCccccCCCCCCCEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDR------LILL-LSSDHSCPMTQDHDEVPLADCGVKDGSHIY 74 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~------q~L~-~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~ 74 (102)
+|+|...+|+.+.+.+..+.++++|...|.+..+.+... -+|. -+|. .|+++.+|+++||.+|+.++
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~------~L~~~~tL~~~gV~dGd~L~ 77 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGR------PLDPDQTLADAGVRDGDVLV 77 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTE------EEETTSBCGGGT--TT-EEE
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCc------ccCCcCcHhHcCCCCCCEEE
Confidence 466777666889999999999999999999988864332 2333 3455 89999999999999999998
Q ss_pred E
Q 041108 75 L 75 (102)
Q Consensus 75 l 75 (102)
+
T Consensus 78 L 78 (79)
T PF08817_consen 78 L 78 (79)
T ss_dssp E
T ss_pred e
Confidence 6
No 53
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=0.00021 Score=46.02 Aligned_cols=75 Identities=16% Similarity=0.239 Sum_probs=66.4
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDD 82 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~ 82 (102)
+.|+.-+|....+.+...+....|+.+-++..|++.+..|.+|+|+ -+.+..+-.+++..+|+.|-++....++
T Consensus 23 LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~------rI~~~~TP~~L~mEd~D~Iev~~~q~gG 96 (99)
T KOG1769|consen 23 LKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQ------RIRETHTPADLEMEDGDEIEVVQEQTGG 96 (99)
T ss_pred EEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCc------CcCCCCChhhhCCcCCcEEEEEeecccC
Confidence 4455545677788999999999999999999999999999999999 9999999999999999999999877665
Q ss_pred C
Q 041108 83 G 83 (102)
Q Consensus 83 ~ 83 (102)
.
T Consensus 97 ~ 97 (99)
T KOG1769|consen 97 F 97 (99)
T ss_pred C
Confidence 4
No 54
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.94 E-value=0.00015 Score=44.31 Aligned_cols=71 Identities=14% Similarity=0.198 Sum_probs=57.3
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCcc-EEEEeCCCCCCCCccCC-C-CCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDR-LILLLSSDHSCPMTQDH-D-EVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~-q~L~~~g~~~~~~~~L~-d-~~~L~~~gI~~~~~i~l~ 76 (102)
.|.||..+|+...-...+++|+.+|...|......+... ..|+.... ...+. + +.+|+++|+.++++|++-
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~P----r~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFP----RRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSS----TEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCC----CcCCCccccccHHHhcCCCCeEEEEE
Confidence 588999999999999999999999999999988777765 67765443 11442 2 479999999999998874
No 55
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.76 E-value=0.00051 Score=42.04 Aligned_cols=71 Identities=13% Similarity=0.081 Sum_probs=56.2
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCC--C-CCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDH--D-EVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~--d-~~~L~~~gI~~~~~i~l~ 76 (102)
+|.||..+|+...-....++|+.+|.+.|....+.......|+..-. .+.+. | +.+|.++|+.+++++.+-
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~P----rk~l~~~d~~~tL~e~gL~p~~~l~v~ 79 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFP----RRTFTKDDYSKTLLELALLPSSTLVLE 79 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCC----CcCCccccccCCHHHCCCCCceEEEEe
Confidence 58899999999999999999999999999766666666677765443 12453 2 589999999988888763
No 56
>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=97.72 E-value=0.00074 Score=42.16 Aligned_cols=75 Identities=15% Similarity=0.240 Sum_probs=61.0
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
+|.||..+|+...-....+.++.+|-..+.+ .|.+++...|+.+-..... ...+.+.+|.++|+.+..++.|.-+
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~-~~~d~~~TL~e~GL~P~~~LfVq~r 81 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKL-SHLDYDITLQEAGLCPQETVFVQER 81 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCccc-CCcccCCCHHHcCCCCCcEEEEecC
Confidence 6899999999999999999999999999999 5789999999876642211 1235568999999999999988543
No 57
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=97.66 E-value=0.00055 Score=47.73 Aligned_cols=75 Identities=19% Similarity=0.290 Sum_probs=56.1
Q ss_pred CEEEEEeCCC----cEEEEEecCCCcHHHHHHHHHhhcCCCCccE-EEEeC-CCCCCCCccC--CCCCccccCCCCCC--
Q 041108 1 MKVAVEILTG----TLFYIQVENDATVADLKREIGAQQKLPCDRL-ILLLS-SDHSCPMTQD--HDEVPLADCGVKDG-- 70 (102)
Q Consensus 1 M~v~V~~~~g----~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q-~L~~~-g~~~~~~~~L--~d~~~L~~~gI~~~-- 70 (102)
|+|.|++.+| .++.+.+.++.||.+|+..|.+..++++..| .|.+. ++ .+ .++..++++.-.+.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~------~l~~~~~~~~s~l~~~~~~~ 74 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNG------QLSPSSDIPLSSLLSSSQDS 74 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCC------eeCCCccccHHhhccCcCCC
Confidence 7899999999 5788999999999999999999999998885 45443 33 33 55566666544333
Q ss_pred --CEEEEEeecCC
Q 041108 71 --SHIYLFFKPLD 81 (102)
Q Consensus 71 --~~i~l~~~~~~ 81 (102)
-++.+..++.|
T Consensus 75 ~~~~l~l~~rl~G 87 (162)
T PF13019_consen 75 DFITLRLSLRLRG 87 (162)
T ss_pred CceEEEEEEeccC
Confidence 35677777665
No 58
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.66 E-value=0.00011 Score=53.29 Aligned_cols=63 Identities=21% Similarity=0.316 Sum_probs=56.0
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
.++.+.+.+..-+|+.++|.+++++.|+++..|+|+++|+ ++-|...|.+|++..|+...+..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~------~l~dkt~LeEc~iekg~rYvlqv 217 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGG------VLVDKTDLEECKIEKGQRYVLQV 217 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCC------ceeccccceeeeecCCCEEEEEE
Confidence 3566888888899999999999999999999999999999 99999999999999995555443
No 59
>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=97.59 E-value=0.0012 Score=40.56 Aligned_cols=70 Identities=13% Similarity=0.167 Sum_probs=54.4
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCC---CCCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDH---DEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~---d~~~L~~~gI~~~~~i~l~ 76 (102)
+|.||..+|+...-....++|+.++.+.|....+-. ....|+..-. .+.+. .+.+|.++|+.+.+++.+.
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fP----rk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFP----RKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCC----CeECCcccccCCHHHCCCCCceEEEEe
Confidence 588999999998889999999999999998765433 4566665443 22553 3589999999999998874
No 60
>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=97.58 E-value=0.0012 Score=40.67 Aligned_cols=69 Identities=9% Similarity=0.159 Sum_probs=52.1
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCC-CccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLP-CDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHI 73 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip-~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i 73 (102)
+|.||..+|+...-....++||.+|.+.|....+-+ .....|+.+-.+ +++-+++.+|.++|+.+...+
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~---k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPV---KELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCC---cccCCCCCcHHHCCCcCcEEE
Confidence 588999999999999999999999999999876432 345667654331 123456889999999975444
No 61
>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=97.56 E-value=0.0018 Score=39.26 Aligned_cols=67 Identities=12% Similarity=0.195 Sum_probs=50.7
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCC---CCCccccCCCCCCCEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDH---DEVPLADCGVKDGSHI 73 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~---d~~~L~~~gI~~~~~i 73 (102)
+|.||..+|+...-....++|+.+|.+.|.....- .....|+.+-. .+.+. .+.+|.++|+.+++.+
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~P----r~~~~~~~~~~TL~e~gL~~s~~~ 73 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFP----RRVLTDLDYELTLQEAGLVNEVVF 73 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCC----CccCCCCCccCcHHHcCCccceEE
Confidence 58899999999888999999999999999876543 45566765443 12443 6889999999954443
No 62
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=97.55 E-value=0.00034 Score=41.86 Aligned_cols=62 Identities=13% Similarity=0.105 Sum_probs=46.2
Q ss_pred CCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEE
Q 041108 8 LTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 8 ~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
.+++.+.+.+.++.++.++-++...++|+++++-.|.++++ .++-+.++.-.|+.+|+.+.+
T Consensus 4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k------~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 4 YNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNK------PLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTE------EESSS-BHHHH---SS-EEEE
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCE------EeccccceeecCCCCCCEEeC
Confidence 46788999999999999999999999999999999999999 999999999999999998864
No 63
>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=97.50 E-value=0.0017 Score=40.57 Aligned_cols=70 Identities=9% Similarity=0.093 Sum_probs=56.5
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC--------CCCCccccCCCCCCCEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD--------HDEVPLADCGVKDGSHI 73 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L--------~d~~~L~~~gI~~~~~i 73 (102)
+|.+|..+|+...-....++|+.+|...|.+. +..++...|+.+-... .+ +.+.+|++.|+.+..++
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr----~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRR----VLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCc----cccccccccCcCCCCHHHcCCCCccEE
Confidence 68899999998888888999999999999754 5567888898876311 44 34679999999998888
Q ss_pred EEE
Q 041108 74 YLF 76 (102)
Q Consensus 74 ~l~ 76 (102)
.|.
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 764
No 64
>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=97.37 E-value=0.0038 Score=38.59 Aligned_cols=70 Identities=17% Similarity=0.151 Sum_probs=57.5
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC---CCCCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD---HDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L---~d~~~L~~~gI~~~~~i~l~ 76 (102)
+|.+|..+|+...-....++++.+|-..|... |.++...+|+.+-. .+.+ +.+.+|.+.|+.+..++.|-
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fP----Rk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWP----RRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCC----CCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 68899999998888899999999999999875 78888888875553 2244 44679999999999998874
No 65
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=97.33 E-value=0.00057 Score=50.84 Aligned_cols=73 Identities=23% Similarity=0.300 Sum_probs=52.0
Q ss_pred CEEEEEeCCCcE--EEEEecCCCcHHHHHHHHHhh-cCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEE
Q 041108 1 MKVAVEILTGTL--FYIQVENDATVADLKREIGAQ-QKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 1 M~v~V~~~~g~~--~~i~v~~~~TV~dLK~~I~~~-~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
|.|++.++++.. ...+.+...|++|++++|... .++.+.++|+.+.-.+. .+.+-|+.+|+++|..+|+++.+
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~k--gkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPK--GKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCC--CccccchhHHHHhccCCCCEEEE
Confidence 789999987633 346788889999999776665 55777666654432211 12788888899999999976654
No 66
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.18 E-value=0.003 Score=38.85 Aligned_cols=69 Identities=14% Similarity=0.250 Sum_probs=55.2
Q ss_pred CEEEEEeC--CCcEEEEEecCCCcHHHHHHHHHhhcCCC---C--ccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEE
Q 041108 1 MKVAVEIL--TGTLFYIQVENDATVADLKREIGAQQKLP---C--DRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHI 73 (102)
Q Consensus 1 M~v~V~~~--~g~~~~i~v~~~~TV~dLK~~I~~~~gip---~--~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i 73 (102)
|+|+|-.. +|.++.+.++.-.++..|-..+.+...+. . ...|++-.++ +|.++..|.+|+|.+|+.+
T Consensus 5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~------llsgd~kL~d~~IadGD~L 78 (81)
T COG5417 5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQ------LLSGDDKLIDYQIADGDIL 78 (81)
T ss_pred EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccce------EecCCceEEeccccCCCEE
Confidence 34555444 58999999999999999988887776642 2 3457888888 9999999999999999998
Q ss_pred EE
Q 041108 74 YL 75 (102)
Q Consensus 74 ~l 75 (102)
.+
T Consensus 79 ei 80 (81)
T COG5417 79 EI 80 (81)
T ss_pred Ee
Confidence 75
No 67
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.0024 Score=46.36 Aligned_cols=70 Identities=17% Similarity=0.186 Sum_probs=55.9
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCC
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDD 82 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~ 82 (102)
.....+.+.|+.+||.+++-.+|.+++.++| +|.+..++-...-++++.|..|+..+|-.||++=.....
T Consensus 15 ~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~~~~ 85 (234)
T KOG3206|consen 15 TEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSNAQS 85 (234)
T ss_pred hhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecCccc
Confidence 3466888999999999999999999999998 566643333334578899999999999999998554433
No 68
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=97.07 E-value=0.0026 Score=40.81 Aligned_cols=58 Identities=21% Similarity=0.189 Sum_probs=44.9
Q ss_pred EEEEEeCCC-cEEEEEec--CCCcHHHHHHHHHhhcC--CCCccEEEEeCCCCCCCCccCCCCCccccC
Q 041108 2 KVAVEILTG-TLFYIQVE--NDATVADLKREIGAQQK--LPCDRLILLLSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 2 ~v~V~~~~g-~~~~i~v~--~~~TV~dLK~~I~~~~g--ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~ 65 (102)
.|.||..++ ....++++ ...||..||..|-+..+ ..-.++||+|+|+ .|.|+..|+..
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 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGR------LLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCc------ccCccchhhhh
Confidence 467787764 33567777 68999999999999873 3345678999999 99999888654
No 69
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.011 Score=37.67 Aligned_cols=70 Identities=16% Similarity=0.194 Sum_probs=61.0
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
+.|...+|....+.+..+.+...|..+.+...|-..++.|++|.|. -++.+++-++++..+++.|.....
T Consensus 27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~------rI~~dqTP~dldmEdnd~iEav~e 96 (103)
T COG5227 27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGK------RIDLDQTPGDLDMEDNDEIEAVTE 96 (103)
T ss_pred eEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcce------ecCCCCChhhcCCccchHHHHHHH
Confidence 4455567888899999999999999999999999999999999999 889999999999999887755443
No 70
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=96.32 E-value=0.037 Score=34.97 Aligned_cols=69 Identities=14% Similarity=0.172 Sum_probs=46.3
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC-CCCCccccCCCCCCCEEEEEeecCCC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD-HDEVPLADCGVKDGSHIYLFFKPLDD 82 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L-~d~~~L~~~gI~~~~~i~l~~~~~~~ 82 (102)
.+...++..+||+.+...+.+.+.+ ..+-||.-.+..+.. ..| +.+.++.+.|+.+|.+|.+-.+..++
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~-e~L~~~~~Tv~da~L~~gQ~vliE~rn~DG 84 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSY-ELLNNPEITVEDAGLYDGQVVLIEERNEDG 84 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCE-EEE--TTSBTTTTT--TTEEEEEEE--TTS
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcch-hhhCCCCccHHHccCcCCCEEEEEeeccCC
Confidence 4677889999999999999999999 555666433332222 245 66689999999999999998887665
No 71
>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=96.31 E-value=0.039 Score=33.07 Aligned_cols=66 Identities=20% Similarity=0.118 Sum_probs=49.5
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCC-CccEEEEe--CCCCCCCCccCCCCCccccCCCCCCCE
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLP-CDRLILLL--SSDHSCPMTQDHDEVPLADCGVKDGSH 72 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip-~~~q~L~~--~g~~~~~~~~L~d~~~L~~~gI~~~~~ 72 (102)
|+.++|+...+++++++|+.+|-+.|....++. .+-.-|.+ ... .-..-|+.+++|.+.....+..
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~--~~~~wL~~~k~l~~q~~~~~~~ 69 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKD--GEHHWLDLDKKLKKQLKKNNPP 69 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTT--SSEEEE-SSSBGGGSTBTSSSS
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCC--CcceeccCcccHHHHcCCCCCC
Confidence 678899999999999999999999999999986 45567777 222 1112578889998887663333
No 72
>PRK06437 hypothetical protein; Provisional
Probab=96.11 E-value=0.072 Score=31.64 Aligned_cols=64 Identities=14% Similarity=0.220 Sum_probs=48.8
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|.-+++...++...++++...|+.+|-+. .|+++....+..+|. .+. .++-+++||.|.++.-.
T Consensus 1 ~~~~~~v~g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~------iv~-----~~~~L~dgD~Veiv~~V 64 (67)
T PRK06437 1 MIAMIRVKGHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGS------PVL-----EDHNVKKEDDVLILEVF 64 (67)
T ss_pred CcceEEecCCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCE------ECC-----CceEcCCCCEEEEEecc
Confidence 44556666567788888888999998754 578888888889998 776 45567899999988543
No 73
>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=95.94 E-value=0.049 Score=33.84 Aligned_cols=52 Identities=25% Similarity=0.233 Sum_probs=41.5
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQD 56 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L 56 (102)
|.|+.. + ++.|.+.++.+..+|.++|.++.++|++...|.|...+++-...+
T Consensus 5 vKV~f~-~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~v~l 56 (80)
T cd06406 5 VKVHFK-Y-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGEDVIL 56 (80)
T ss_pred EEEEEE-E-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCccCc
Confidence 344443 2 788999999999999999999999999999999988754443344
No 74
>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=95.71 E-value=0.11 Score=32.60 Aligned_cols=44 Identities=9% Similarity=0.036 Sum_probs=37.4
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCc---cEEEEe
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCD---RLILLL 45 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~---~q~L~~ 45 (102)
.+.++...|+.+.+.+.+++.+.+|+..|+++.|.+.. ...|.|
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 35677889999999999999999999999999998863 455655
No 75
>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=95.42 E-value=0.23 Score=29.79 Aligned_cols=46 Identities=17% Similarity=0.278 Sum_probs=38.1
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
++.++. +|..+.+.++++.|..+|+.+|...++++.....|-|...
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~De 48 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDE 48 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECC
Confidence 345555 5678899999999999999999999999877788877665
No 76
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=95.27 E-value=0.074 Score=32.48 Aligned_cols=59 Identities=24% Similarity=0.313 Sum_probs=47.7
Q ss_pred ecCCCcHHHHHHHHHhhcC-CCCccEEEEeCCCCCCCCccCCCCCcccc-CCCCCCCEEEEEeecCC
Q 041108 17 VENDATVADLKREIGAQQK-LPCDRLILLLSSDHSCPMTQDHDEVPLAD-CGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 17 v~~~~TV~dLK~~I~~~~g-ip~~~q~L~~~g~~~~~~~~L~d~~~L~~-~gI~~~~~i~l~~~~~~ 81 (102)
|.++++|.|+++.+..... ..-.+..|.++|. .|++...|++ -|+++|.++.+...+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~------~L~~~~el~~i~~~~~~~~L~lve~pYt 61 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQ------RLDDFVELSEIEGIKDGCVLELVEEPYT 61 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCC------ccCCchhhhhhhCCCCCcEEEEEecCCC
Confidence 5678999999999988754 4466678889999 8999999988 46888999999866543
No 77
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=94.86 E-value=0.069 Score=41.80 Aligned_cols=70 Identities=17% Similarity=0.343 Sum_probs=54.7
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCC-CccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLP-CDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIY 74 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip-~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~ 74 (102)
.|.||..+|+-....++...||.|++..|.....=. ...+.|+.+.. ++.+.+++.||++.|+.+...+.
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FP---pk~l~D~sqTle~AgL~Nsvlvq 377 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFP---PKPLSDDSQTLEEAGLLNSVLVQ 377 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCC---CcccCCcchhHHhccchhhhhhh
Confidence 478999999988899999999999999999876544 33577776665 33355788999999998765443
No 78
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=94.77 E-value=0.22 Score=39.73 Aligned_cols=77 Identities=14% Similarity=0.194 Sum_probs=55.6
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcC--CCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQK--LPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~g--ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|.+++|...|+ +.+++.++++.+-|-.+|-.-.. ..|+...+.-+-..++..--+..++++.++|+++|+++++-..
T Consensus 1 Mi~rfRsk~G~-~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ys 79 (571)
T COG5100 1 MIFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYS 79 (571)
T ss_pred CeEEEecCCCc-eeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEec
Confidence 78899999887 68999999999998888877554 3455555543222122111246778999999999999999873
No 79
>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=94.73 E-value=0.29 Score=29.12 Aligned_cols=59 Identities=17% Similarity=0.161 Sum_probs=42.5
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCC----CCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKL----PCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gi----p~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
...++++...|+.+|.+.+...++- ......+..+|+ ... .+.-+++||.|.++-...|
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~------~v~-----~~~~l~~gD~v~i~ppv~G 79 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGE------YVR-----LDTPLKDGDEVAIIPPVSG 79 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCe------EcC-----CCcccCCCCEEEEeCCCCC
Confidence 3567787789999999999987642 233446677887 655 3456899999999865443
No 80
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.69 E-value=0.2 Score=30.34 Aligned_cols=68 Identities=19% Similarity=0.269 Sum_probs=45.3
Q ss_pred CEEEEEeCC------C-cEEEEEecCCCcHHHHHHHHHhhcC-CCC--ccEEEEeCCCCCCCCccCCCCCccccCCCCCC
Q 041108 1 MKVAVEILT------G-TLFYIQVENDATVADLKREIGAQQK-LPC--DRLILLLSSDHSCPMTQDHDEVPLADCGVKDG 70 (102)
Q Consensus 1 M~v~V~~~~------g-~~~~i~v~~~~TV~dLK~~I~~~~g-ip~--~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~ 70 (102)
|+|.|+... | ....+++....|+.+|.+.+..... +.. ..-.+..++. ... .+.-+++|
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~------~v~-----~~~~l~dg 70 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEE------YTT-----ESAALKDG 70 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCE------EcC-----CCcCcCCC
Confidence 677777643 4 4467888888999999999987652 111 1123566776 543 34557899
Q ss_pred CEEEEEeec
Q 041108 71 SHIYLFFKP 79 (102)
Q Consensus 71 ~~i~l~~~~ 79 (102)
|.|.++-.-
T Consensus 71 DeVai~Ppv 79 (82)
T PLN02799 71 DELAIIPPI 79 (82)
T ss_pred CEEEEeCCC
Confidence 999988543
No 81
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.50 E-value=0.1 Score=40.58 Aligned_cols=62 Identities=18% Similarity=0.199 Sum_probs=46.8
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEEEe---CCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLILLL---SSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~---~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
..|.+. -||.|+|..+..+.|+.+.++||++ .|+--.+. ..+...+|..|+|++|+.+.+.-
T Consensus 352 ~~I~~~--~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~s-s~~~N~~L~~fkIedGDs~lvqe 416 (418)
T KOG2982|consen 352 GLICMT--RTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFS-SSDYNMPLHYFKIEDGDSFLVQE 416 (418)
T ss_pred eEEEee--hHHHHHHHHhccccccccceeEEEEEcccCccCCcc-ccCCCCcceEEeccCCCEeeeec
Confidence 345554 4999999999999999999999987 33311111 33667899999999999988753
No 82
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=94.37 E-value=0.02 Score=44.27 Aligned_cols=58 Identities=19% Similarity=0.068 Sum_probs=43.9
Q ss_pred EEEEEeCCCcEEE--EEecCCCcHHHHHHHHHhhcCCC--CccEEEEeCCCCCCCCccCCCCCccccC
Q 041108 2 KVAVEILTGTLFY--IQVENDATVADLKREIGAQQKLP--CDRLILLLSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 2 ~v~V~~~~g~~~~--i~v~~~~TV~dLK~~I~~~~gip--~~~q~L~~~g~~~~~~~~L~d~~~L~~~ 65 (102)
.+.+++.+.+..+ |..+..+||++||..++..+--. ...|||+|.|+ +|.|...|.+.
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgk------llld~qcl~d~ 72 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGK------LLLDHQCLTDW 72 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhcc------ccccchhHHHH
Confidence 3567777765544 55666799999999998865432 34689999999 99888887764
No 83
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=94.34 E-value=0.54 Score=27.90 Aligned_cols=53 Identities=21% Similarity=0.191 Sum_probs=39.9
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
...+++++..|+.+|-+.+ ++++..-.+..+|. .... +.-+++||.|.++-..
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~------iv~~-----~~~l~~gD~Veii~~V 67 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGK------VALE-----DDPVKDGDYVEVIPVV 67 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCE------ECCC-----CcCcCCCCEEEEEccc
Confidence 4677888889999988665 67777667788888 6643 5557899999887543
No 84
>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=94.18 E-value=0.31 Score=29.56 Aligned_cols=46 Identities=15% Similarity=0.094 Sum_probs=41.9
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
+.|-..+|+...+.+.+.+|+.|+-..+-++.|+.++.-.+.+.|.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~ 47 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGL 47 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecC
Confidence 4677889999999999999999999999999999999998887765
No 85
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=94.01 E-value=0.11 Score=40.43 Aligned_cols=76 Identities=22% Similarity=0.246 Sum_probs=61.4
Q ss_pred CEEEEEeC--CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCC--CCCccccCCCCCCCEEEEE
Q 041108 1 MKVAVEIL--TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDH--DEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 1 M~v~V~~~--~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~--d~~~L~~~gI~~~~~i~l~ 76 (102)
|.++|... .-+.+.++++.+..+..|+..+...+|++.+..-++|+++ .+. .+..+.++|+..++++.+-
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 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPR------PLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCC------ccccchhhhhhhcccccceeEecc
Confidence 55555544 4467889999999999999999999999999999999998 553 3578999999999998876
Q ss_pred eecCCC
Q 041108 77 FKPLDD 82 (102)
Q Consensus 77 ~~~~~~ 82 (102)
-+..+.
T Consensus 75 ~ks~d~ 80 (380)
T KOG0012|consen 75 CKSSDP 80 (380)
T ss_pred CCCCCC
Confidence 554443
No 86
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=93.87 E-value=0.59 Score=27.17 Aligned_cols=64 Identities=22% Similarity=0.236 Sum_probs=43.1
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|++ +|+.+.+ + ..|+.+|.+.+ ++++....+-.++. .+. .....+..+++||.|.++-...
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~------iv~-~~~~~~~~L~dgD~Ieiv~~V~ 63 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGE------LVH-KEARAQFVLHEGDRIEILSPMQ 63 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCE------EcC-HHHcCccccCCCCEEEEEEecc
Confidence 45554 4566555 3 46899988764 66666666778887 665 3335566789999999986554
Q ss_pred C
Q 041108 81 D 81 (102)
Q Consensus 81 ~ 81 (102)
|
T Consensus 64 G 64 (65)
T PRK06488 64 G 64 (65)
T ss_pred C
Confidence 3
No 87
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=93.87 E-value=0.68 Score=26.95 Aligned_cols=56 Identities=27% Similarity=0.476 Sum_probs=39.0
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
|+|+|.- ..+++..+.|+.+||.++.. +.=.++++|= +.+++. -+++||.|.++-+
T Consensus 1 M~I~vN~-----k~~~~~~~~tl~~lr~~~k~------~~DI~I~NGF------~~~~d~-----~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVNE-----KEIETEENTTLFELRKESKP------DADIVILNGF------PTKEDI-----ELKEGDEVFLIKK 56 (57)
T ss_pred CEEEECC-----EEEEcCCCcCHHHHHHhhCC------CCCEEEEcCc------ccCCcc-----ccCCCCEEEEEeC
Confidence 6666644 35677778899999987554 3336788887 666644 4578899988754
No 88
>smart00455 RBD Raf-like Ras-binding domain.
Probab=93.68 E-value=0.88 Score=27.23 Aligned_cols=46 Identities=15% Similarity=0.134 Sum_probs=41.3
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
..|-..+|+...+.+.|..|+.|+-..+-++.|+.++.-.+...|.
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~ 47 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGE 47 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCC
Confidence 3566788999999999999999999999999999999999888665
No 89
>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=93.63 E-value=0.45 Score=30.00 Aligned_cols=71 Identities=13% Similarity=0.139 Sum_probs=45.6
Q ss_pred EEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC-CCCCceeEEE
Q 041108 14 YIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL-DDGSTQHSVF 90 (102)
Q Consensus 14 ~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~-~~~~~~~~~~ 90 (102)
...++=...++.||..++.+.++.-+.-.++.-+. .|+++++|-+.||+-...+.+.+.-. .+...+++|.
T Consensus 6 ~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~------~L~~~k~L~dQcVqgeGlVQlnvQi~s~~~~~riNIv 77 (88)
T PF11620_consen 6 MQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDI------QLEPHKSLVDQCVQGEGLVQLNVQIKSNQGEPRINIV 77 (88)
T ss_dssp EEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTE------E--TTSBTTTSS----SEEEEEEEEE--TT--EEEEE
T ss_pred EEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccc------eecCCccHHHhhccccCEEEEEEEEEecCCCcceEEE
Confidence 34555667899999999999999988888888888 89999999999999888888887632 2234444543
No 90
>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=93.58 E-value=0.65 Score=27.82 Aligned_cols=45 Identities=22% Similarity=0.283 Sum_probs=36.2
Q ss_pred EEEEeCCCcEEE-EEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 3 VAVEILTGTLFY-IQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 3 v~V~~~~g~~~~-i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
|.++.. |..+. +.+..+.|..+|+.+|.+.++.+.....|.|...
T Consensus 4 vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~ 49 (84)
T PF00564_consen 4 VKVRYG-GDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDE 49 (84)
T ss_dssp EEEEET-TEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEET
T ss_pred EEEEEC-CeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCC
Confidence 444554 44555 8999999999999999999999988888888665
No 91
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=93.45 E-value=0.45 Score=40.09 Aligned_cols=40 Identities=25% Similarity=0.272 Sum_probs=36.8
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
++..+.+-++++.|+..++..|+..+|+|...|-|+|.|.
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~ 362 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGG 362 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecC
Confidence 4567889999999999999999999999999999999876
No 92
>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=92.36 E-value=2.5 Score=28.94 Aligned_cols=67 Identities=18% Similarity=0.141 Sum_probs=45.5
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCc-cEEEEeCCCCCCCCccCCCCCccccCCCC
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCD-RLILLLSSDHSCPMTQDHDEVPLADCGVK 68 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~-~q~L~~~g~~~~~~~~L~d~~~L~~~gI~ 68 (102)
.+.|...+|+...+.+++..|+.++-..++.+.|++.. ..-|.+-.........++...++.+....
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 57888999999999999999999999999999999532 22454432200000134555666665543
No 93
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=92.25 E-value=1.6 Score=26.27 Aligned_cols=57 Identities=14% Similarity=0.287 Sum_probs=40.7
Q ss_pred EEEEecCC-CcHHHHHHHHHhhcC-C-C-CccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 13 FYIQVEND-ATVADLKREIGAQQK-L-P-CDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 13 ~~i~v~~~-~TV~dLK~~I~~~~g-i-p-~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
..++++.+ .|+.+|...+.+.++ + . .....+..+++ ...+ +..+++|+.|.++-.-.
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~------~v~~-----~~~l~dgDevai~Ppvs 78 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEE------YVTD-----DALLNEGDEVAFIPPVS 78 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCE------EcCC-----CcCcCCCCEEEEeCCCC
Confidence 46788876 899999999999864 1 1 12345667777 5553 46679999999885443
No 94
>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=91.93 E-value=1.3 Score=27.36 Aligned_cols=47 Identities=19% Similarity=0.183 Sum_probs=36.4
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCC-ccEEEEeCCC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPC-DRLILLLSSD 48 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~-~~q~L~~~g~ 48 (102)
|+|.+.. +|..+.+.+.++.+..+|++.|.++.++.. ....|-|-..
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 4455555 467889999999999999999999999865 5566666544
No 95
>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=91.87 E-value=1.2 Score=35.61 Aligned_cols=70 Identities=20% Similarity=0.216 Sum_probs=52.3
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCC----CCccE--EEE-eCCCCCCCCccCCCCCccccCCCCCCCEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKL----PCDRL--ILL-LSSDHSCPMTQDHDEVPLADCGVKDGSHIY 74 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gi----p~~~q--~L~-~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~ 74 (102)
+|+|...+ +..++-+..+..+.||--.|-+..+- +.... .|. .+|. .++.+.+|.+.||.||+.++
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~------pL~~~~sL~~~gV~DG~~L~ 76 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGS------PLDPDASLAEAGVRDGELLV 76 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCC------CCCCCCCHHHcCCCCCCeEE
Confidence 45666543 44788899999999999888887663 11122 232 3555 89999999999999999999
Q ss_pred EEee
Q 041108 75 LFFK 78 (102)
Q Consensus 75 l~~~ 78 (102)
+.-.
T Consensus 77 L~p~ 80 (452)
T TIGR02958 77 LVPA 80 (452)
T ss_pred EeeC
Confidence 9864
No 96
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=91.87 E-value=1.6 Score=25.49 Aligned_cols=62 Identities=18% Similarity=0.153 Sum_probs=42.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|+|+| +|+.+.+ .+..|+.+|-.. .++++...-+-+++. ++..+.- ..+ +++||.|.++...
T Consensus 1 m~i~v---NG~~~~~--~~~~tl~~ll~~----l~~~~~~vav~~N~~------iv~r~~~-~~~-L~~gD~ieIv~~V 62 (65)
T PRK05863 1 MIVVV---NEEQVEV--DEQTTVAALLDS----LGFPEKGIAVAVDWS------VLPRSDW-ATK-LRDGARLEVVTAV 62 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cCCCCCcEEEEECCc------CcChhHh-hhh-cCCCCEEEEEeec
Confidence 45554 3555444 466788887654 578888888899998 7754432 345 8999999998644
No 97
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=91.61 E-value=1.6 Score=25.15 Aligned_cols=63 Identities=14% Similarity=0.245 Sum_probs=42.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|+|++. |+. .++....|+.++-.. .++++..--+-.+|. .+..+. ..+.-+++||.|.++...
T Consensus 1 m~i~vN---G~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~------iv~r~~-~~~~~l~~gD~vei~~~v 63 (66)
T PRK05659 1 MNIQLN---GEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGE------IVPRSQ-HASTALREGDVVEIVHAL 63 (66)
T ss_pred CEEEEC---CeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCe------EeCHHH-cCcccCCCCCEEEEEEEe
Confidence 555543 454 455667888887754 578888888888987 665332 335557999999988644
No 98
>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=90.99 E-value=2.2 Score=25.50 Aligned_cols=46 Identities=17% Similarity=0.150 Sum_probs=37.8
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
+.|...+|+...+.+.+..|+.|.-..+-++.|+.++.-.+...|.
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~ 48 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGE 48 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEE
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCC
Confidence 5678889999999999999999999999999999999887765554
No 99
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=90.71 E-value=0.94 Score=26.56 Aligned_cols=62 Identities=21% Similarity=0.192 Sum_probs=46.3
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCC--CCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKL--PCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gi--p~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
...+.+....||.+|.+.+.....- ....-.+..+|. ...+ ...+.-+++||.|.++-...|
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~------~v~~--~~~~~~l~~gD~V~i~ppvsG 76 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGE------IVPD--DGLDTPLKDGDEVAILPPVSG 76 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTE------EEGG--GTTTSBEETTEEEEEEESTST
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCE------EcCC--ccCCcCcCCCCEEEEECCCCC
Confidence 5678888999999999999887631 225567788888 7776 345666789999999865443
No 100
>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=90.57 E-value=2.4 Score=25.78 Aligned_cols=61 Identities=23% Similarity=0.231 Sum_probs=40.4
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCC------C-----CccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKL------P-----CDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gi------p-----~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
....++++ ..|+.+|.+.+.+++.- + -....+..++. ..+.+.. ..+++|+.|.++-..
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~------~v~~~~~---~~l~dgdev~i~Ppv 85 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGR------NVDWGLG---TELKDGDVVAIFPPV 85 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCE------ecCccCC---CCCCCCCEEEEeCCC
Confidence 34567776 89999999999988641 0 01245667776 5443321 567899999998654
Q ss_pred CC
Q 041108 80 LD 81 (102)
Q Consensus 80 ~~ 81 (102)
.|
T Consensus 86 sG 87 (88)
T TIGR01687 86 SG 87 (88)
T ss_pred cC
Confidence 43
No 101
>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=90.20 E-value=2.5 Score=24.95 Aligned_cols=46 Identities=20% Similarity=0.240 Sum_probs=35.9
Q ss_pred EEEEEeCCCcEEEEEec-CCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 2 KVAVEILTGTLFYIQVE-NDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~-~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
+|.++.. |..+.+.+. ...|..+|+.+|....+.+.....+.|...
T Consensus 2 ~vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~ 48 (81)
T cd05992 2 RVKVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDE 48 (81)
T ss_pred cEEEEec-CCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCC
Confidence 3455554 567888888 899999999999999998876667766654
No 102
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=89.93 E-value=2.6 Score=24.57 Aligned_cols=64 Identities=20% Similarity=0.188 Sum_probs=41.2
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+++|. |+.+ ++....|+.+|.+.+ +++.....+-.++. .+.. ...++.-+++||.|.++-...
T Consensus 1 m~i~vN---g~~~--~~~~~~tl~~ll~~l----~~~~~~vaVavN~~------iv~r-~~w~~~~L~~gD~Ieii~~v~ 64 (66)
T PRK08053 1 MQILFN---DQPM--QCAAGQTVHELLEQL----NQLQPGAALAINQQ------IIPR-EQWAQHIVQDGDQILLFQVIA 64 (66)
T ss_pred CEEEEC---CeEE--EcCCCCCHHHHHHHc----CCCCCcEEEEECCE------EeCh-HHcCccccCCCCEEEEEEEcc
Confidence 555554 4544 445678999988653 45555566777887 6632 224455689999999886543
No 103
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=89.69 E-value=1.7 Score=29.05 Aligned_cols=63 Identities=27% Similarity=0.326 Sum_probs=42.0
Q ss_pred EecC-CCcHHHHHHHHHhh----cCCCCc------cEEEEeCCCCCCCCc-----------cC---CCCCccccCCCCCC
Q 041108 16 QVEN-DATVADLKREIGAQ----QKLPCD------RLILLLSSDHSCPMT-----------QD---HDEVPLADCGVKDG 70 (102)
Q Consensus 16 ~v~~-~~TV~dLK~~I~~~----~gip~~------~q~L~~~g~~~~~~~-----------~L---~d~~~L~~~gI~~~ 70 (102)
.|+. +.|+.||++.+.+. .|++|- ..+|++..-++-.++ +| +++.+|.++||.+.
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 4676 88999998877765 445553 366665332111111 34 66788999999999
Q ss_pred CEEEEEee
Q 041108 71 SHIYLFFK 78 (102)
Q Consensus 71 ~~i~l~~~ 78 (102)
+.|.++..
T Consensus 101 TEiSfF~~ 108 (122)
T PF10209_consen 101 TEISFFNM 108 (122)
T ss_pred ceeeeeCH
Confidence 99988743
No 104
>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=88.83 E-value=2.4 Score=24.52 Aligned_cols=56 Identities=23% Similarity=0.240 Sum_probs=39.3
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
++++...|+.+|.+.+ ++++....+..+|. ....+ ...+.-+++||.|.++-...|
T Consensus 9 ~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~------~v~~~-~~~~~~L~~gD~V~ii~~v~G 64 (65)
T cd00565 9 REVEEGATLAELLEEL----GLDPRGVAVALNGE------IVPRS-EWASTPLQDGDRIEIVTAVGG 64 (65)
T ss_pred EEcCCCCCHHHHHHHc----CCCCCcEEEEECCE------EcCHH-HcCceecCCCCEEEEEEeccC
Confidence 4455678999988765 47777778888998 66443 233455899999999865443
No 105
>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=88.79 E-value=4.1 Score=25.39 Aligned_cols=46 Identities=13% Similarity=0.081 Sum_probs=37.0
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
+..++. +|.++.+.++.+-|.+.|+++|...+.+|+...-+.|-..
T Consensus 2 ~fKv~~-~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtYiDe 47 (82)
T cd06397 2 QFKSSF-LGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTYIDN 47 (82)
T ss_pred eEEEEe-CCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEEEcC
Confidence 344544 4677888888889999999999999999998877777554
No 106
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=88.77 E-value=3 Score=23.85 Aligned_cols=63 Identities=17% Similarity=0.184 Sum_probs=39.3
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+ |+ .+++.+..|+.+|.+.+. ++ ....+..+|. ....+. ..+.-+++||.|.++....
T Consensus 1 m~i~vN---g~--~~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~------~v~~~~-~~~~~L~~gD~vei~~~v~ 63 (65)
T PRK06944 1 MDIQLN---QQ--TLSLPDGATVADALAAYG----AR-PPFAVAVNGD------FVARTQ-HAARALAAGDRLDLVQPVA 63 (65)
T ss_pred CEEEEC---CE--EEECCCCCcHHHHHHhhC----CC-CCeEEEECCE------EcCchh-cccccCCCCCEEEEEeecc
Confidence 455553 44 445566789999887653 33 2345677887 554322 3344478999999986543
No 107
>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=88.23 E-value=2.8 Score=26.73 Aligned_cols=44 Identities=11% Similarity=0.154 Sum_probs=35.1
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCc-cEEEEeCCC
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLPCD-RLILLLSSD 48 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~-~q~L~~~g~ 48 (102)
++..+|.+..+.|+.+.|..+|+.++.+..++... ..+..+.+.
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~~~lky~Lp~e 61 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVVVTLKYQLPDE 61 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCceEEEEEcCCC
Confidence 46677899999999999999999999999998875 233334444
No 108
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=87.31 E-value=3.9 Score=25.35 Aligned_cols=54 Identities=19% Similarity=0.223 Sum_probs=38.6
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
.+++...|+.+|-+. .++++..--+-.+|. ++ +.....+.-+++||.|.++.-.
T Consensus 28 ~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~------iV-pr~~w~~t~L~egD~IEIv~~V 81 (84)
T PRK06083 28 IQVDISSSLAQIIAQ----LSLPELGCVFAINNQ------VV-PRSEWQSTVLSSGDAISLFQAI 81 (84)
T ss_pred EEcCCCCcHHHHHHH----cCCCCceEEEEECCE------Ee-CHHHcCcccCCCCCEEEEEEEe
Confidence 444566788887764 467777777788887 76 3344667778999999988644
No 109
>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=86.49 E-value=3.9 Score=24.87 Aligned_cols=62 Identities=18% Similarity=0.201 Sum_probs=40.5
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcC-CCCccEEEEe------CCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 11 TLFYIQVENDATVADLKREIGAQQK-LPCDRLILLL------SSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~g-ip~~~q~L~~------~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
+.|..-..++.|+++|+..|.+++. +.|....+.. .|. -|+.+-..++. ..+|+++.++++.
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~c------DLD~d~~V~DV-f~~~~~vrvi~~n 71 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGC------DLDPDFLVKDV-FNSNNVVRVILKN 71 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCC------CCCcccEeeee-eccCCEEEEEecC
Confidence 3455567889999999999999876 4555433321 233 45555555554 3467888887754
No 110
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=86.24 E-value=3.1 Score=31.56 Aligned_cols=74 Identities=12% Similarity=0.151 Sum_probs=54.1
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.+.||..+|++...++.+..|+.++...+.-..+...+--.++.+-. --.-+.-+..++|..+++-+.+++.+.
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fP-R~tf~edD~~KpLq~L~L~Psa~lil~ 285 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFP-RVTFTEDDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCC-ceecccccccccHHHhccccchheecc
Confidence 47899999999999999999999999999999887665444443322 000001144588999999888877654
No 111
>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=86.18 E-value=4.7 Score=23.21 Aligned_cols=60 Identities=20% Similarity=0.202 Sum_probs=40.2
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
+|+.+ ++....|+.+|.+.+ ++++....+..++. .+..+. ..++-+++||.|.++....|
T Consensus 4 Ng~~~--~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~------iv~~~~-~~~~~L~~gD~veii~~V~G 63 (64)
T TIGR01683 4 NGEPV--EVEDGLTLAALLESL----GLDPRRVAVAVNGE------IVPRSE-WDDTILKEGDRIEIVTFVGG 63 (64)
T ss_pred CCeEE--EcCCCCcHHHHHHHc----CCCCCeEEEEECCE------EcCHHH-cCceecCCCCEEEEEEeccC
Confidence 45544 445677899988754 56777777788887 663322 33456899999999865433
No 112
>PRK01777 hypothetical protein; Validated
Probab=86.03 E-value=5.3 Score=25.34 Aligned_cols=67 Identities=19% Similarity=0.152 Sum_probs=43.7
Q ss_pred CEEEEEeCC-C--cEEEEEecCCCcHHHHHHHHHhhcCCCCc-------cEEEEeCCCCCCCCccCCCCCccccCCCCCC
Q 041108 1 MKVAVEILT-G--TLFYIQVENDATVADLKREIGAQQKLPCD-------RLILLLSSDHSCPMTQDHDEVPLADCGVKDG 70 (102)
Q Consensus 1 M~v~V~~~~-g--~~~~i~v~~~~TV~dLK~~I~~~~gip~~-------~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~ 70 (102)
|+|.|.... . ....+++....||.|+-.+. |++.. .-.+..+|+ .... +.-+++|
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk------~v~~-----d~~L~dG 68 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSR------PAKL-----TDVLRDG 68 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCe------ECCC-----CCcCCCC
Confidence 566666543 2 23568899999999977654 44433 235666776 4433 3456899
Q ss_pred CEEEEEeecCCC
Q 041108 71 SHIYLFFKPLDD 82 (102)
Q Consensus 71 ~~i~l~~~~~~~ 82 (102)
|.|.++-.+.-+
T Consensus 69 DRVeIyrPL~~D 80 (95)
T PRK01777 69 DRVEIYRPLLAD 80 (95)
T ss_pred CEEEEecCCCCC
Confidence 999999765443
No 113
>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=85.76 E-value=0.24 Score=37.88 Aligned_cols=41 Identities=27% Similarity=0.419 Sum_probs=0.0
Q ss_pred CCcHHHHHHHHHh----------hcCCCCccEE-----EEeCCCCCCCCccCCCCCccccCC
Q 041108 20 DATVADLKREIGA----------QQKLPCDRLI-----LLLSSDHSCPMTQDHDEVPLADCG 66 (102)
Q Consensus 20 ~~TV~dLK~~I~~----------~~gip~~~q~-----L~~~g~~~~~~~~L~d~~~L~~~g 66 (102)
+.+|.|+|.+++. ++++|.+..+ |+|+-+ .+.|+++|.+..
T Consensus 103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kk------Pv~~~ktl~e~l 158 (309)
T PF12754_consen 103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKK------PVGDSKTLAEVL 158 (309)
T ss_dssp --------------------------------------------------------------
T ss_pred cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCc------cCCCcCcHHHHH
Confidence 4789999999999 8999999999 999998 667777777653
No 114
>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=85.27 E-value=3.2 Score=25.63 Aligned_cols=37 Identities=14% Similarity=0.113 Sum_probs=33.8
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
++.+.+.+..+.++|..+|+++.+.+++.-+|.|...
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~ 44 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRAP 44 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecCC
Confidence 4668899999999999999999999999999999776
No 115
>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=85.17 E-value=4.1 Score=25.56 Aligned_cols=39 Identities=18% Similarity=0.117 Sum_probs=33.5
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccE
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRL 41 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q 41 (102)
|.|-..+|+...+.|+..+|+.|+-+.+..+.+...+.-
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~ 43 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSS 43 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCC
Confidence 456677899999999999999999999999998765544
No 116
>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=84.61 E-value=3.5 Score=25.41 Aligned_cols=40 Identities=13% Similarity=0.038 Sum_probs=36.0
Q ss_pred EEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE
Q 041108 4 AVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLIL 43 (102)
Q Consensus 4 ~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L 43 (102)
.|...+|+...+.+.+++|+.|+-+...+..+++|++-.|
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~L 42 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYL 42 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHhee
Confidence 4677889999999999999999999999999999998655
No 117
>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=84.13 E-value=8.2 Score=24.26 Aligned_cols=40 Identities=20% Similarity=0.232 Sum_probs=31.3
Q ss_pred CCcEEEEEecC-----CCcHHHHHHHHHhhcCCCC-ccEEEEeCCC
Q 041108 9 TGTLFYIQVEN-----DATVADLKREIGAQQKLPC-DRLILLLSSD 48 (102)
Q Consensus 9 ~g~~~~i~v~~-----~~TV~dLK~~I~~~~gip~-~~q~L~~~g~ 48 (102)
+|..+.+.+.. +.+..+|+.+|.+.+++++ ....|.|...
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~De 53 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDE 53 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECC
Confidence 45667777774 7999999999999999988 4556666554
No 118
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=84.03 E-value=6.9 Score=30.31 Aligned_cols=68 Identities=15% Similarity=0.167 Sum_probs=48.3
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
|+|+|+ |+. +++....|+.||-+. .++++....+..+|. ++.. ....++-+++||.|.++.-..
T Consensus 1 M~I~VN---Gk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNge------IVpr-~~w~~t~LkeGD~IEII~~Vg 64 (326)
T PRK11840 1 MRIRLN---GEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLE------IVPR-SEYGQVALEEGDELEIVHFVG 64 (326)
T ss_pred CEEEEC---CEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCE------ECCH-HHcCccccCCCCEEEEEEEec
Confidence 555554 454 455667788887754 578888888889998 7743 335567789999999997766
Q ss_pred CCCC
Q 041108 81 DDGS 84 (102)
Q Consensus 81 ~~~~ 84 (102)
|++.
T Consensus 65 GGs~ 68 (326)
T PRK11840 65 GGSD 68 (326)
T ss_pred CCCC
Confidence 6544
No 119
>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=84.00 E-value=5.2 Score=24.82 Aligned_cols=29 Identities=17% Similarity=0.155 Sum_probs=26.0
Q ss_pred CCcEEEEEecC--CCcHHHHHHHHHhhcCCC
Q 041108 9 TGTLFYIQVEN--DATVADLKREIGAQQKLP 37 (102)
Q Consensus 9 ~g~~~~i~v~~--~~TV~dLK~~I~~~~gip 37 (102)
+|.+..+.+++ ..+..+|++.|+..++++
T Consensus 8 ~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 8 NGESQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 46788888888 779999999999999999
No 120
>PRK07440 hypothetical protein; Provisional
Probab=82.61 E-value=7.9 Score=22.95 Aligned_cols=59 Identities=12% Similarity=0.081 Sum_probs=40.5
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
+|+. .++....|+.+|-+ ..++++...-+-.++. ++.. ....+.-+++||.|.++--..
T Consensus 10 NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~------iv~r-~~w~~~~L~~gD~IEIv~~v~ 68 (70)
T PRK07440 10 NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGE------ILHR-QFWEQTQVQPGDRLEIVTIVG 68 (70)
T ss_pred CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCE------EeCH-HHcCceecCCCCEEEEEEEec
Confidence 4554 55566789998775 4567777777788887 6642 234566689999999886443
No 121
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=82.13 E-value=8.3 Score=23.21 Aligned_cols=65 Identities=17% Similarity=0.231 Sum_probs=46.1
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcC---CCCccEEEE-eCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQK---LPCDRLILL-LSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~g---ip~~~q~L~-~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
+|+...++....+.+--..++--+.+| -|++.=.+- -+|. +++-++.+++||+.+|.++.+.++.
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~------vlD~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQ------VLDVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCc------EeeccchhhhccccccceEEEEeec
Confidence 577778888887776666655444444 355543332 3455 8899999999999999999988763
No 122
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=81.94 E-value=3.9 Score=27.26 Aligned_cols=63 Identities=17% Similarity=0.368 Sum_probs=45.8
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCcccc----CCCCCCCEEEEEeecC
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLAD----CGVKDGSHIYLFFKPL 80 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~----~gI~~~~~i~l~~~~~ 80 (102)
+...+-|..+.||+++...|..+.+++++..-|+.++. +...+.++++ +.- ++..+++.....
T Consensus 41 K~KfllVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~------lp~~s~~mg~lYe~~KD-eDGFLYi~Ys~e 107 (121)
T PTZ00380 41 KVHFLALPRDATVAELEAAVRQALGTSAKKVTLAIEGS------TPAVTATVGDIADACKR-DDGFLYVSVRTE 107 (121)
T ss_pred ceEEEEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCc------cCCccchHHHHHHHhcC-CCCeEEEEEccc
Confidence 33445799999999999999999999999854555665 5566666654 332 477888887653
No 123
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=81.49 E-value=7.8 Score=23.84 Aligned_cols=53 Identities=25% Similarity=0.337 Sum_probs=38.5
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
+..+...++..+||.|+-+ ..|+|..+-.+ +.+|+ ..+- ++-+++|+.|.++-
T Consensus 22 ~~~~~~~~~~~~tvkd~IE----sLGVP~tEV~~i~vNG~------~v~~-----~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIE----SLGVPHTEVGLILVNGR------PVDF-----DYRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHH----HcCCChHHeEEEEECCE------ECCC-----cccCCCCCEEEEEe
Confidence 3456788889999988764 47999998865 45777 3322 46678999998874
No 124
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=80.74 E-value=9.9 Score=22.86 Aligned_cols=56 Identities=16% Similarity=0.238 Sum_probs=34.6
Q ss_pred EEecC-CCcHHHHHHHHHhhcC-----CCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 15 IQVEN-DATVADLKREIGAQQK-----LPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 15 i~v~~-~~TV~dLK~~I~~~~g-----ip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
++++. ..||.+|++.+.+++. ......++..++. ...+ +.-+++||.|.++-...|
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~------~~~~-----~~~l~dgDeVai~PPVsG 80 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQT------LVSF-----DHPLTDGDEVAFFPPVTG 80 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCE------EcCC-----CCCCCCCCEEEEeCCCCC
Confidence 44443 4799999999988762 1122234444554 3322 334789999998865443
No 125
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=79.85 E-value=9.8 Score=22.26 Aligned_cols=63 Identities=22% Similarity=0.286 Sum_probs=41.3
Q ss_pred CEEEEEeCCCcEEEEEecCC-CcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeec
Q 041108 1 MKVAVEILTGTLFYIQVEND-ATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~-~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
|+|+| +|+.+ ++... .||.+|-+ ..++++..--+-.++. ++..+ ...+.-+++||.|.++.-.
T Consensus 1 m~I~v---NG~~~--~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~------iv~r~-~w~~~~L~~gD~iEIv~~V 64 (67)
T PRK07696 1 MNLKI---NGNQI--EVPESVKTVAELLT----HLELDNKIVVVERNKD------ILQKD-DHTDTSVFDGDQIEIVTFV 64 (67)
T ss_pred CEEEE---CCEEE--EcCCCcccHHHHHH----HcCCCCCeEEEEECCE------EeCHH-HcCceecCCCCEEEEEEEe
Confidence 45554 45554 44444 57887765 3577777777788887 66443 3455668999999988544
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=79.44 E-value=2 Score=26.68 Aligned_cols=61 Identities=21% Similarity=0.213 Sum_probs=40.2
Q ss_pred EEecCCCcHHHHHHHHHhhcCCC-------CccEEEEeCCCCCCC--CccCCCCCccccCCCCCCCEEEEEe
Q 041108 15 IQVENDATVADLKREIGAQQKLP-------CDRLILLLSSDHSCP--MTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip-------~~~q~L~~~g~~~~~--~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
|++++++|+.+|.+.+.+...+- -....|+..+.|+ + ..--+-+++|.++ +.+|+.|.|.=
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~-Lee~Tr~NL~k~l~eL-~~~g~ei~VtD 70 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPS-LEEATRPNLSKKLKEL-LSDGEEITVTD 70 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHH-HHHHTGGGGSSBTTTT-HHSSEEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHH-HHHHhhhhhhhhHHHH-hcCCCEEEEEC
Confidence 68999999999999999984332 2233454444300 0 0011456889999 89999998863
No 127
>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=79.25 E-value=12 Score=22.83 Aligned_cols=44 Identities=14% Similarity=0.210 Sum_probs=38.5
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
|-..||+.-.+.+.+..||.|.-..+-++.|+.++.--++.-|+
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~ 47 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGG 47 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecC
Confidence 45678999999999999999999999999999988887776665
No 128
>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=78.97 E-value=11 Score=22.44 Aligned_cols=42 Identities=17% Similarity=0.067 Sum_probs=33.2
Q ss_pred EEEEeCCCc----EEEEEecCCCcHHHHHHHHHhhcCC--CCccEEEE
Q 041108 3 VAVEILTGT----LFYIQVENDATVADLKREIGAQQKL--PCDRLILL 44 (102)
Q Consensus 3 v~V~~~~g~----~~~i~v~~~~TV~dLK~~I~~~~gi--p~~~q~L~ 44 (102)
|.|-..++. ...+.++..+|+.++-..+.+++++ .+..-.|+
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~ 52 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLV 52 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEE
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEE
Confidence 445555565 7899999999999999999999998 35556663
No 129
>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=78.73 E-value=12 Score=22.49 Aligned_cols=35 Identities=23% Similarity=0.300 Sum_probs=29.2
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCC--CccEEEE
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLP--CDRLILL 44 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip--~~~q~L~ 44 (102)
+....+.|+.++|..++-..+.+++++. +..-.|+
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 6778999999999999999999999987 4444443
No 130
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=78.39 E-value=14 Score=23.17 Aligned_cols=44 Identities=20% Similarity=0.334 Sum_probs=33.7
Q ss_pred EEEEeC-CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCC
Q 041108 3 VAVEIL-TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSS 47 (102)
Q Consensus 3 v~V~~~-~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g 47 (102)
+.|+.. .|..+.+.++++.+..+|..+|.+++++. ....+-|..
T Consensus 3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykD 47 (86)
T cd06408 3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKD 47 (86)
T ss_pred EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEc
Confidence 444444 57889999999999999999999999985 344554444
No 131
>KOG0007 consensus Splicing factor 3a, subunit 1 [RNA processing and modification]
Probab=77.08 E-value=1.3 Score=34.03 Aligned_cols=50 Identities=24% Similarity=0.302 Sum_probs=41.9
Q ss_pred eCCCcEEEEEec-CCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCcc
Q 041108 7 ILTGTLFYIQVE-NDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPL 62 (102)
Q Consensus 7 ~~~g~~~~i~v~-~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L 62 (102)
..+|....+.+. ....+..+|.++....+++++.|++.+.|. .+.|+.++
T Consensus 289 ~~dg~~~~~~~~~~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~------~l~d~~~~ 339 (341)
T KOG0007|consen 289 PADGQVIKITVQSLSENVASLKEKIADESQIPANKQKLRGEGA------FLKDNRSL 339 (341)
T ss_pred CCCCceeeeccccccccccccccccccccccchhheeeccCCc------ccCccccc
Confidence 346777777766 567899999999999999999999999999 88887443
No 132
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=76.85 E-value=4.8 Score=25.00 Aligned_cols=55 Identities=22% Similarity=0.245 Sum_probs=29.0
Q ss_pred CCcHHHHHHHHH-hhcCCCC-c---cEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 20 DATVADLKREIG-AQQKLPC-D---RLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 20 ~~TV~dLK~~I~-~~~gip~-~---~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.+|+.+|-+.|- .+.|+-. + .-+++|....+ ...-...++|+++||.+|+.+.+.
T Consensus 8 ~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~--~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 8 KMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEE--EYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp T-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSS--SSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcc--hhhhcccCChhHcCCCCCCEEEEE
Confidence 589999988754 4666432 2 23445544300 002245589999999999988776
No 133
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=76.85 E-value=6.9 Score=24.98 Aligned_cols=39 Identities=13% Similarity=0.175 Sum_probs=32.4
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCC
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSD 48 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~ 48 (102)
...+.+.|++++|=.++|+++++.+|+.+..-.. ...|+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNTl~~k~k 60 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNTLNTKGK 60 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEeCCc
Confidence 3668999999999999999999999999887754 34443
No 134
>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=76.74 E-value=1.5 Score=32.18 Aligned_cols=65 Identities=20% Similarity=0.290 Sum_probs=42.6
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEEEEeCC-CCCCCCccCCCCCccccCCCCCCCEEEEEeecC
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLILLLSS-DHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPL 80 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g-~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~ 80 (102)
+-|+.+++|++|-..|.+..|+|++..-.+|.- +|.. ...++.+.++....+.+||.|.+.....
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~-ie~i~~~~t~~~~el~~GdIi~fQ~~~~ 154 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNM-IEPIDPNQTFEKAELQDGDIICFQRAPS 154 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTE-EEE--SSSBHHHTT--TTEEEEEEE--G
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccce-eeEcCCCCchhhcccCCCCEEEEEeccc
Confidence 567888999999999999999999877666643 2111 2356899999999999999999987654
No 135
>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=76.40 E-value=11 Score=23.62 Aligned_cols=63 Identities=21% Similarity=0.212 Sum_probs=35.9
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEEEEe-CCCCCCCCccC-CCC--Ccc--ccCCCCCCCEEEEEeec
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLILLL-SSDHSCPMTQD-HDE--VPL--ADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~-~g~~~~~~~~L-~d~--~~L--~~~gI~~~~~i~l~~~~ 79 (102)
++++..+||.+|-+.+.+.+ +..+..++. +|+..+-..++ ++. ..+ .++.+++||.|.++...
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v 91 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTL 91 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCC
Confidence 34445789999999998876 333334433 22211110122 222 223 35778999999998644
No 136
>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=76.25 E-value=8.9 Score=23.45 Aligned_cols=33 Identities=18% Similarity=0.265 Sum_probs=29.8
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKLPCDRLIL 43 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L 43 (102)
..+.+.|+..+|=.++|++|+..+++.+..-+-
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 578999999999999999999999999887654
No 137
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=75.91 E-value=11 Score=33.18 Aligned_cols=65 Identities=25% Similarity=0.300 Sum_probs=46.9
Q ss_pred CCcEEEEEecC-CCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCC-C-CCCCEEEEEee
Q 041108 9 TGTLFYIQVEN-DATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCG-V-KDGSHIYLFFK 78 (102)
Q Consensus 9 ~g~~~~i~v~~-~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~g-I-~~~~~i~l~~~ 78 (102)
.|+..+++... ..|+++||.+|.++.|+....|.++-+|. +....++.|..|. . .+-.-|+++.+
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egG-----ecmaadkrl~e~StaGTdTnPiffFnk 70 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGG-----ECMAADKRLAEISTAGTDTNPIFFFNK 70 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCC-----cCcccccchhhhccccCCCCceEEeeh
Confidence 47777777665 57899999999999999999998876664 2567777777765 2 23445555533
No 138
>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=75.77 E-value=9.5 Score=24.02 Aligned_cols=40 Identities=10% Similarity=0.170 Sum_probs=36.1
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRL 41 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q 41 (102)
++.|-..+|....+.+..+++..++=+++.++.|+|.+-+
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 5677788999999999999999999999999999998764
No 139
>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=74.70 E-value=7.5 Score=24.27 Aligned_cols=38 Identities=13% Similarity=0.187 Sum_probs=32.3
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCC
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSD 48 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~ 48 (102)
..+.+.|++++|=.|+|+.|+..+|+++.+-+- .+.|+
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk 59 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGK 59 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCC
Confidence 568899999999999999999999999987754 45554
No 140
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=74.44 E-value=10 Score=23.60 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=30.3
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEE
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKLPCDRLILL 44 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~ 44 (102)
..+.+.|++.++=.++|++|+..+|+.+.+-+-+
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 5789999999999999999999999998876643
No 141
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=74.41 E-value=10 Score=26.45 Aligned_cols=59 Identities=25% Similarity=0.272 Sum_probs=39.9
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
++++.+.++.+.+.++.. .+.||| .|++..|.. |+.|+.. ++.++-+|+.+|++-.+.+
T Consensus 48 LfLkdkK~q~~lv~~~e~-~~vDLk-~ih~~IG~~----RlsFg~~----------E~l~E~LGv~pG~VT~Fgl 106 (164)
T COG3760 48 LFLKDKKDQFFLVTVDED-AVVDLK-SIHETIGAA----RLSFGSP----------ERLMEYLGVIPGSVTVFGL 106 (164)
T ss_pred eEeecCCCCEEEEEeccc-ceecHH-HHHHHhcee----eeecCCH----------HHHHHHhCCCcCceeEeee
Confidence 678888888888888754 566788 577777654 6766554 3344557777776655543
No 142
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=74.15 E-value=11 Score=23.64 Aligned_cols=39 Identities=13% Similarity=0.179 Sum_probs=33.0
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCC
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSD 48 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~ 48 (102)
...+.+.|++.+|=.|+|++|+..+|+++..-+- ...|+
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk 59 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGK 59 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCc
Confidence 4578999999999999999999999999988753 45554
No 143
>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=73.95 E-value=13 Score=27.22 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=28.0
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeC
Q 041108 11 TLFYIQVENDATVADLKREIGAQQKLPCDRLILLLS 46 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~ 46 (102)
..|.+.++..+|-.+|-++|++..+++|+..+++-.
T Consensus 190 ~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~ 225 (249)
T PF12436_consen 190 PEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTV 225 (249)
T ss_dssp --EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE--
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEEe
Confidence 468999999999999999999999999999998654
No 144
>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=72.60 E-value=11 Score=22.88 Aligned_cols=34 Identities=32% Similarity=0.345 Sum_probs=23.7
Q ss_pred EEEEeCCC-cEEEEEecC-CCcHHHHHHHHHhhcCC
Q 041108 3 VAVEILTG-TLFYIQVEN-DATVADLKREIGAQQKL 36 (102)
Q Consensus 3 v~V~~~~g-~~~~i~v~~-~~TV~dLK~~I~~~~gi 36 (102)
|+-|..+. ....+.++. ..+|.|||..|.++.++
T Consensus 1 V~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~l 36 (74)
T PF08783_consen 1 VHYKFKSQKDYDTITFDGTSISVFDLKREIIEKKKL 36 (74)
T ss_dssp EEEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT-
T ss_pred CeEEecccCCccEEEECCCeeEHHHHHHHHHHHhCC
Confidence 34556655 345688777 58999999999887666
No 145
>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=72.26 E-value=24 Score=22.97 Aligned_cols=58 Identities=14% Similarity=0.262 Sum_probs=41.4
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEE-EEeCCCCCCCCccCCCCCcccc----CCCCCCCEEEEEeec
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLI-LLLSSDHSCPMTQDHDEVPLAD----CGVKDGSHIYLFFKP 79 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~-L~~~g~~~~~~~~L~d~~~L~~----~gI~~~~~i~l~~~~ 79 (102)
+-|+.+.||+++...|....++.++.-- |+.++. ....+.++++ ++. ++..+++....
T Consensus 45 flVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~------~p~~~~~~~~lY~~~kd-~DGfLyl~Ys~ 107 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNS------LPPTSATMSQLYEEHKD-EDGFLYMTYSS 107 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCccceEEEEECCc------cCCchhHHHHHHHHhCC-CCCEEEEEEec
Confidence 4589999999999999999998887644 444554 4455666644 433 36788887764
No 146
>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=71.76 E-value=17 Score=22.21 Aligned_cols=59 Identities=15% Similarity=0.179 Sum_probs=43.2
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
..+.|..++....+-+..++++++|+..--++.+.. .-....++..+.-++.|+.+.++
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG-----~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDG-----VGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS------EE-TTSBHHHHHHHT-SEEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCC-----cccccchhhhhhHhhcCcEeeeC
Confidence 568898888888888888999999987766655443 15688888888888889888764
No 147
>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=71.57 E-value=20 Score=21.66 Aligned_cols=34 Identities=21% Similarity=0.311 Sum_probs=28.9
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCC--ccEEE
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPC--DRLIL 43 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~--~~q~L 43 (102)
+....+.|+.++|..|+-..+.+++++.. ..-.|
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L 50 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVL 50 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEE
Confidence 67789999999999999999999999975 34444
No 148
>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=71.19 E-value=12 Score=30.82 Aligned_cols=67 Identities=24% Similarity=0.203 Sum_probs=40.6
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhc--CCC------CccEEE--EeCCCCCCCCccCCCC-------------CccccCCC
Q 041108 11 TLFYIQVENDATVADLKREIGAQQ--KLP------CDRLIL--LLSSDHSCPMTQDHDE-------------VPLADCGV 67 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~--gip------~~~q~L--~~~g~~~~~~~~L~d~-------------~~L~~~gI 67 (102)
..+.+.|=..+||.++|++|-... +.| +++.-| ..++. .+. +|.|. .||..|+|
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~-~~~--iL~D~D~ts~~~~~wkrLNTL~HY~V 278 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRG-GRL--ILQDEDSTSKVEGGWKRLNTLAHYKV 278 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTS-EEE--EESSSSTTSEEETTEEE--BHHHHT-
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCC-Ccc--cccCCCCCcccCCCceEeccHhhcCC
Confidence 447788888999999999987752 222 333333 22322 111 33332 37899999
Q ss_pred CCCCEEEEEeecC
Q 041108 68 KDGSHIYLFFKPL 80 (102)
Q Consensus 68 ~~~~~i~l~~~~~ 80 (102)
.+|+++.+..+..
T Consensus 279 ~dga~vaLv~k~~ 291 (539)
T PF08337_consen 279 PDGATVALVPKQH 291 (539)
T ss_dssp -TTEEEEEEES--
T ss_pred CCCceEEEeeccc
Confidence 9999999998753
No 149
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=69.89 E-value=9.5 Score=30.84 Aligned_cols=80 Identities=9% Similarity=0.094 Sum_probs=62.0
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE--EeCCCCCCCCccC---CCCCccccCCCCCCCEEEEE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLIL--LLSSDHSCPMTQD---HDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L--~~~g~~~~~~~~L---~d~~~L~~~gI~~~~~i~l~ 76 (102)
++.||..+|..+.-+...++-+..++..+....++.....-| .|-.+ .. +.+++|.++.+-+...+.|.
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRR------eft~eDy~KtllEl~L~psaalvvl 389 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRR------EFTDEDYDKTLLELRLFPSAALVVL 389 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccc------cccchhhhhhHHHhccCCcceEEEE
Confidence 578899999999988888888999999999887777666655 34444 43 45589999999999999998
Q ss_pred eecCCCCCcee
Q 041108 77 FKPLDDGSTQH 87 (102)
Q Consensus 77 ~~~~~~~~~~~ 87 (102)
-+..++.+..+
T Consensus 390 pk~r~t~s~~g 400 (506)
T KOG2507|consen 390 PKKRATVSQRG 400 (506)
T ss_pred ecCCcceEEec
Confidence 87766554443
No 150
>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=69.74 E-value=27 Score=22.45 Aligned_cols=33 Identities=21% Similarity=0.291 Sum_probs=28.5
Q ss_pred eCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCc
Q 041108 7 ILTGTLFYIQVENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 7 ~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~ 39 (102)
-.+|+..++.+..+.||+|+-.+++.++.++..
T Consensus 9 r~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~ 41 (97)
T cd01775 9 RSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSG 41 (97)
T ss_pred ecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCC
Confidence 346777889999999999999999999988763
No 151
>CHL00030 rpl23 ribosomal protein L23
Probab=69.03 E-value=14 Score=23.34 Aligned_cols=39 Identities=13% Similarity=0.083 Sum_probs=32.4
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCC
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSD 48 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~ 48 (102)
...+.+.|+.++|=.++|++|+..+++.+..-.- ...|+
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 4678999999999999999999999998887754 34444
No 152
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=68.55 E-value=5.8 Score=28.45 Aligned_cols=30 Identities=20% Similarity=0.277 Sum_probs=22.0
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCc
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~ 39 (102)
|-.|.+.|.+..|.+++|++|.+++|++-.
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 556889999999999999999999998743
No 153
>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=67.27 E-value=14 Score=23.77 Aligned_cols=57 Identities=16% Similarity=0.320 Sum_probs=40.0
Q ss_pred EecCCCcHHHHHHHHHhhcCCCCcc-EEEEeCCCCCCCCccCCCCCcccc----CCCCCCCEEEEEeec
Q 041108 16 QVENDATVADLKREIGAQQKLPCDR-LILLLSSDHSCPMTQDHDEVPLAD----CGVKDGSHIYLFFKP 79 (102)
Q Consensus 16 ~v~~~~TV~dLK~~I~~~~gip~~~-q~L~~~g~~~~~~~~L~d~~~L~~----~gI~~~~~i~l~~~~ 79 (102)
=|..+.||+++...|.....++++. .-|+.++. ....+.++++ |. .++..+++....
T Consensus 38 Lvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~------lp~~s~tm~elY~~~k-deDGFLY~~Ys~ 99 (104)
T PF02991_consen 38 LVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNT------LPSTSSTMGELYEKYK-DEDGFLYMTYSS 99 (104)
T ss_dssp EEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTB------ESSTTSBHHHHHHHHB--TTSSEEEEEES
T ss_pred EEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCc------ccchhhHHHHHHHHhC-CCCCeEEEEecc
Confidence 3788999999999999999998775 34555665 6677787765 33 246677777654
No 154
>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=66.69 E-value=9.1 Score=22.95 Aligned_cols=43 Identities=19% Similarity=0.315 Sum_probs=28.8
Q ss_pred CcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEE
Q 041108 21 ATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
.|+.+|.+..++++|++ ....+.-.|. ..+|=.. |++|+.+++
T Consensus 26 ~SleeLl~ia~~kfg~~-~~~v~~~dga------eIdDI~~-----IRDgD~L~~ 68 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS-ATKVLNEDGA------EIDDIDV-----IRDGDHLYL 68 (69)
T ss_pred ccHHHHHHHHHHHhCCC-ceEEEcCCCC------EEeEEEE-----EEcCCEEEE
Confidence 59999999999999996 3333444444 4444222 477888776
No 155
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=64.33 E-value=37 Score=29.19 Aligned_cols=75 Identities=19% Similarity=0.263 Sum_probs=51.6
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
+|+|=+..|+ .+.+...+|+.|+=-+|+...|....-- ..+|+ ... -++.+++|++|.+.-....
T Consensus 405 ~V~VfTPkG~--~~~Lp~gaT~lDfAy~iHt~iG~~~~gA--kvng~------~v~-----l~~~L~~GD~VeIits~~~ 469 (743)
T PRK10872 405 RVYVFTPKGD--VVDLPAGSTPLDFAYHIHSDVGHRCIGA--KIGGR------IVP-----FTYQLQMGDQIEIITQKQP 469 (743)
T ss_pred eEEEECCCCC--eEEcCCCCcHHHHHHHHhHHHHhhceEE--EECCE------ECC-----CCcCCCCCCEEEEEeCCCC
Confidence 4677777787 5677788899999999998887554322 24555 322 2566799999999965432
Q ss_pred CCCceeEEEecCCcCCCC
Q 041108 82 DGSTQHSVFTIPEWLNPN 99 (102)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ 99 (102)
. .-++||+||
T Consensus 470 ~--------Ps~dWL~~~ 479 (743)
T PRK10872 470 N--------PSRDWLNPN 479 (743)
T ss_pred C--------CChhHhccc
Confidence 2 346788765
No 156
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=62.85 E-value=9.5 Score=29.83 Aligned_cols=68 Identities=10% Similarity=0.037 Sum_probs=50.4
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhc-CCCCccEEEEeCCCCCCCCccC--CCCCccccCCCCCCCE
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQ-KLPCDRLILLLSSDHSCPMTQD--HDEVPLADCGVKDGSH 72 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~-gip~~~q~L~~~g~~~~~~~~L--~d~~~L~~~gI~~~~~ 72 (102)
.|.||..+|+-....+-.+++|.-|=..++... |.+-.+.+|+.+-. ..+.| +.+.++.++||++..+
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 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIP---ASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeeccc---chhhhhccccchHHHhccCcccc
Confidence 378999999776666677888888887777764 46777889988772 11244 5668999999998864
No 157
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=60.76 E-value=7.3 Score=31.77 Aligned_cols=59 Identities=12% Similarity=0.103 Sum_probs=50.2
Q ss_pred EEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 14 YIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 14 ~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
.++.+-..|-.+|+..|+++.|++-+-.+.+.+|+ ++.-.++|.+-|++.+..+.+.+.
T Consensus 53 l~k~sL~i~Gselqa~iakklgi~enhvKci~~~K------ils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLGIKENHVKCIINGK------ILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhhcccccccHHHHHHHHHHcCCchhhhheeeccc------eeecccchhhhhhhhhhHHHHHhc
Confidence 45566678899999999999999999888999999 999999999999988766665554
No 158
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=60.36 E-value=34 Score=20.32 Aligned_cols=63 Identities=19% Similarity=0.265 Sum_probs=42.6
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
.+++... |+ .++++...|++||-+. .++++..--+..+|. ++..+. ..+.-+++||.|.+.--
T Consensus 2 ~m~i~~n-g~--~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~------iVpr~~-~~~~~l~~gD~ievv~~ 64 (68)
T COG2104 2 PMTIQLN-GK--EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGE------IVPRSQ-WADTILKEGDRIEVVRV 64 (68)
T ss_pred cEEEEEC-CE--EEEcCCCCcHHHHHHH----hCCCCceEEEEECCE------Eccchh-hhhccccCCCEEEEEEe
Confidence 3444442 44 4556666899998754 678888888889998 665433 34566788899888754
No 159
>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=59.35 E-value=48 Score=21.80 Aligned_cols=37 Identities=16% Similarity=0.135 Sum_probs=30.8
Q ss_pred CEEEEEeCCCcE--EEEEecCCCcHHHHHHHHHhhcCCC
Q 041108 1 MKVAVEILTGTL--FYIQVENDATVADLKREIGAQQKLP 37 (102)
Q Consensus 1 M~v~V~~~~g~~--~~i~v~~~~TV~dLK~~I~~~~gip 37 (102)
|+++....+++. ..+.|++.+|+.++.+.+-+++.++
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 677888776644 4689999999999999999999855
No 160
>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=57.46 E-value=45 Score=20.89 Aligned_cols=60 Identities=20% Similarity=0.234 Sum_probs=37.7
Q ss_pred EEEEEeC-CCcEEEEEecCCCcHHHHHHHHHhh--cCCC---Cc-cEEEEeCCCCCCCCccCCCCCccccC
Q 041108 2 KVAVEIL-TGTLFYIQVENDATVADLKREIGAQ--QKLP---CD-RLILLLSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 2 ~v~V~~~-~g~~~~i~v~~~~TV~dLK~~I~~~--~gip---~~-~q~L~~~g~~~~~~~~L~d~~~L~~~ 65 (102)
.|.|... .+..+.+.++.+.|+.+|...+-.+ .+.. +. +-.|-..|. .+.|..+.+|.+|
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~----~EyL~g~~~L~~y 84 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGR----EEYLLGDHPLSQY 84 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTS----SEEE-SSS-GGGB
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCc----eEEeeCCeeeecc
Confidence 4566666 4567899999999999999887776 2222 22 455655665 2356666677665
No 161
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=57.05 E-value=34 Score=22.10 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=28.3
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPC 38 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~ 38 (102)
++|-..+|++..+.|..--+-.++|.++-.++|++.
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 567777899999999999999999999999999887
No 162
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=55.07 E-value=33 Score=23.88 Aligned_cols=39 Identities=10% Similarity=0.216 Sum_probs=33.0
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE-EeCCC
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL-LLSSD 48 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L-~~~g~ 48 (102)
...+.+.|++++|=.++|.+|+..+|+.+..-+. ...|+
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 3568999999999999999999999999988764 34554
No 163
>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=54.24 E-value=37 Score=21.33 Aligned_cols=36 Identities=19% Similarity=0.132 Sum_probs=30.1
Q ss_pred CC-cEEEEEecCCCcHHHHHHHHHhhcCCC-CccEEEE
Q 041108 9 TG-TLFYIQVENDATVADLKREIGAQQKLP-CDRLILL 44 (102)
Q Consensus 9 ~g-~~~~i~v~~~~TV~dLK~~I~~~~gip-~~~q~L~ 44 (102)
+| +..++.|.|..|..+|=..++.++++. |+.-.|+
T Consensus 11 sgct~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LF 48 (87)
T cd01776 11 SGCTGKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLF 48 (87)
T ss_pred CCceeeeeecCCCCcHHHHHHHHHHHhccCChhheeEE
Confidence 46 446899999999999999999999985 7777664
No 164
>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=53.62 E-value=21 Score=22.51 Aligned_cols=41 Identities=17% Similarity=0.361 Sum_probs=26.0
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHh---------hcCCCCccEEE
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGA---------QQKLPCDRLIL 43 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~---------~~gip~~~q~L 43 (102)
+.+...+|.+|.++|..+.-+..-|+.|+. .+++.++..++
T Consensus 38 ~iitf~ngatfqvevpgsqhi~sqkk~iermkdtlr~ay~t~~kv~klcv 87 (102)
T PF01376_consen 38 VIITFKNGATFQVEVPGSQHIDSQKKAIERMKDTLRIAYLTEIKVSKLCV 87 (102)
T ss_dssp EEEEETTS-EEEE--SSTTSTTTHHHHHHHHHHHHHHHHHHT-EEEEEEE
T ss_pred EEEEecCCcEEEEecCCccchhhhHHHHHHHHhHHHHHHHhhcchhheee
Confidence 467788999999999998777766666654 35556655554
No 165
>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=52.67 E-value=53 Score=20.22 Aligned_cols=61 Identities=11% Similarity=0.146 Sum_probs=47.3
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
..+.|..++....+-+..++++++|+.---++.+.. --++..++-+++-+++|+.+.++-|
T Consensus 18 kvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndG-----vGINP~qtAGnvflkhgselrliPR 78 (82)
T cd01766 18 KVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDG-----IGINPAQTAGNVFLKHGSELRLIPR 78 (82)
T ss_pred eEEeccccCchHHHHHHHHHhcCCCccceeEEecCc-----cccChhhcccceeeecCCEeeeccc
Confidence 457888888788888888999999977665555444 1568888888988999999988754
No 166
>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=52.38 E-value=56 Score=20.46 Aligned_cols=63 Identities=13% Similarity=0.207 Sum_probs=42.1
Q ss_pred EEEEEecCCCcHHHHHHHHHhh-cC--CCC--c-cEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 12 LFYIQVENDATVADLKREIGAQ-QK--LPC--D-RLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~-~g--ip~--~-~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
...+.|+.++|+.++=++++.- .| +++ . ..++-..|. ...+..+.++++.||++-+.|.+.+.
T Consensus 16 ~~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~----~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 16 LQLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGD----TQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTT----SSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EEEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCC----CccCCCccEehhcCCCcceEEEEEEc
Confidence 3568999999999999888764 33 332 3 356667772 11789999999999999999888764
No 167
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=51.22 E-value=48 Score=21.89 Aligned_cols=36 Identities=14% Similarity=0.124 Sum_probs=31.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
....+++++|++-+...|....+++.++|-.+|-+.
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~ 82 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNN 82 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcC
Confidence 567899999999999999999999999998776554
No 168
>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=51.03 E-value=17 Score=20.74 Aligned_cols=32 Identities=19% Similarity=0.187 Sum_probs=22.2
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHh
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGA 32 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~ 32 (102)
|.|.+.+.+|+.|.++...-.--.-|+..++.
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 78999999999999986554444445555554
No 169
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=48.28 E-value=36 Score=24.29 Aligned_cols=51 Identities=18% Similarity=0.243 Sum_probs=29.5
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCc---cEEEE--eCCCCCCCCccCCCCCccccC
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCD---RLILL--LSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~---~q~L~--~~g~~~~~~~~L~d~~~L~~~ 65 (102)
.+.+-|+.+.||.||...+..+.+++.+ ..+++ ++++ .-+.+..+.++.+.
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~k---i~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHK---IYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTE---EEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCE---EEeecCCCCchhhc
Confidence 4678899999999999999999998765 34442 3443 22356777777776
No 170
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=47.85 E-value=50 Score=22.69 Aligned_cols=34 Identities=9% Similarity=0.152 Sum_probs=29.9
Q ss_pred CcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE
Q 041108 10 GTLFYIQVENDATVADLKREIGAQQKLPCDRLIL 43 (102)
Q Consensus 10 g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L 43 (102)
...+.+.|+..++=.++|++|+..+++.+..-.-
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNT 115 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNT 115 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEe
Confidence 3578999999999999999999999998877653
No 171
>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=47.34 E-value=34 Score=20.93 Aligned_cols=22 Identities=27% Similarity=0.480 Sum_probs=17.2
Q ss_pred EEEEecCCCcHHHHHHHHHhhc
Q 041108 13 FYIQVENDATVADLKREIGAQQ 34 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~ 34 (102)
..++++.++|+.++|+.+-++-
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 4678999999999999776653
No 172
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=45.10 E-value=64 Score=19.64 Aligned_cols=48 Identities=17% Similarity=0.274 Sum_probs=33.5
Q ss_pred CcHHHHHHHHHhhcCCCCccEEEEe--CCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 21 ATVADLKREIGAQQKLPCDRLILLL--SSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~~~q~L~~--~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.|..+|+.+.....+++...-+|++ .|. .++|+.-+..+ .+++.+.+.
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT------~VddEeyF~tL--p~nt~l~~L 68 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPVTLVLEEDGT------IVDDEEYFQTL--PDNTELMAL 68 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCc------EEccHHHHhcC--CCCcEEEEE
Confidence 4799999999999999865555543 666 88887666554 345544443
No 173
>PF02505 MCR_D: Methyl-coenzyme M reductase operon protein D; InterPro: IPR003901 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein D.; GO: 0015948 methanogenesis
Probab=44.67 E-value=54 Score=22.77 Aligned_cols=43 Identities=7% Similarity=0.178 Sum_probs=30.1
Q ss_pred EEEEecC-CCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccC
Q 041108 13 FYIQVEN-DATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 13 ~~i~v~~-~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~ 65 (102)
+.+++.. .+.+..+++...+.+.++-+ +..|. .+....|++||
T Consensus 77 i~lele~~~~~ie~I~~iCee~lpf~y~----i~~G~------f~r~~~TvtDY 120 (153)
T PF02505_consen 77 IILELEDEEDVIEKIREICEEVLPFGYD----IKEGK------FIRTKPTVTDY 120 (153)
T ss_pred EEEEecCcHHHHHHHHHHHHHhCCCceE----eeeeE------EeccCCchhhh
Confidence 6788888 78888888888776644433 23466 77777888775
No 174
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=44.27 E-value=50 Score=20.05 Aligned_cols=55 Identities=18% Similarity=0.177 Sum_probs=31.5
Q ss_pred ecCCCcHHHHHHHHHhhcCC---CCccEE-EEe-CCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 17 VENDATVADLKREIGAQQKL---PCDRLI-LLL-SSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 17 v~~~~TV~dLK~~I~~~~gi---p~~~q~-L~~-~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
.+..+|+++|.+.+.++... .-.... +.- +.. .+.+. +..+++||.|.++-+..|
T Consensus 24 ~~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~------~~~~~----~t~L~dGDeVa~~PPVsG 83 (84)
T COG1977 24 LTVGATVGELEELLPKEGERWLLALEDNIVVNAANNE------FLVGL----DTPLKDGDEVAFFPPVSG 83 (84)
T ss_pred ccHHHHHHHHHHHHHhhhhhHHhccCccceEEeeece------eeccc----cccCCCCCEEEEeCCCCC
Confidence 33468999999998777652 111122 211 112 22222 455789999999865543
No 175
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=43.94 E-value=78 Score=19.66 Aligned_cols=71 Identities=14% Similarity=0.171 Sum_probs=35.3
Q ss_pred CEEEEEeCC--C-cEEEEEecCCCcHHHHHHHH---HhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEE
Q 041108 1 MKVAVEILT--G-TLFYIQVENDATVADLKREI---GAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIY 74 (102)
Q Consensus 1 M~v~V~~~~--g-~~~~i~v~~~~TV~dLK~~I---~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~ 74 (102)
|+|.|-... . ....+++...+||.+--++- +..-+++.+..++=.-|+ .... +..+++||.|.
T Consensus 1 i~VeV~yA~p~~q~~~~l~vp~GtTv~~Ai~~Sgi~~~~p~idl~~~~vGIfGk------~~~~-----d~~L~~GDRVE 69 (84)
T PF03658_consen 1 IRVEVAYALPERQVILTLEVPEGTTVAQAIEASGILEQFPEIDLEKNKVGIFGK------LVKL-----DTVLRDGDRVE 69 (84)
T ss_dssp EEEEEEEEETTCEEEEEEEEETT-BHHHHHHHHTHHHH-TT--TTTSEEEEEE-------S--T-----T-B--TT-EEE
T ss_pred CEEEEEEECCCeEEEEEEECCCcCcHHHHHHHcCchhhCcccCcccceeeeeee------EcCC-----CCcCCCCCEEE
Confidence 566666543 2 23578999999999865532 222346667777744444 3333 34468999999
Q ss_pred EEeecCCC
Q 041108 75 LFFKPLDD 82 (102)
Q Consensus 75 l~~~~~~~ 82 (102)
++-.+..+
T Consensus 70 IYRPL~~D 77 (84)
T PF03658_consen 70 IYRPLTAD 77 (84)
T ss_dssp EE-S----
T ss_pred EeccCccC
Confidence 99665443
No 176
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=43.63 E-value=14 Score=24.32 Aligned_cols=58 Identities=14% Similarity=-0.004 Sum_probs=36.9
Q ss_pred HHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEEec
Q 041108 26 LKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVFTI 92 (102)
Q Consensus 26 LK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~ 92 (102)
||.+|+..+ +..-.|-|.|+ +-=|...+...||.++..+++.--.-|..++.+.|..-
T Consensus 5 LksKiHrat---VT~a~L~YeGS------itID~~Ll~aagi~~~E~V~I~Nv~NG~Rf~TYvI~g~ 62 (111)
T cd06919 5 LKSKIHRAT---VTEADLNYEGS------ITIDEDLLEAAGILPYEKVLVVNVNNGARFETYVIPGE 62 (111)
T ss_pred hhhcccceE---Eecccccccee------EEECHHHHHhcCCCCCCEEEEEECCCCcEEEEEEEEcC
Confidence 455555543 33334667777 66677777888888888888876555655566655544
No 177
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=43.07 E-value=35 Score=23.45 Aligned_cols=59 Identities=17% Similarity=0.247 Sum_probs=40.4
Q ss_pred CCcHHHHHHHHHhhcCCCCc--------cEEEEeCCCCC-----------CCC-ccCCCCCccccCCCCCCCEEEEEeec
Q 041108 20 DATVADLKREIGAQQKLPCD--------RLILLLSSDHS-----------CPM-TQDHDEVPLADCGVKDGSHIYLFFKP 79 (102)
Q Consensus 20 ~~TV~dLK~~I~~~~gip~~--------~q~L~~~g~~~-----------~~~-~~L~d~~~L~~~gI~~~~~i~l~~~~ 79 (102)
++|+-||-..|.+- .|+ +..++|...++ |.+ +..+|+++|.+++++-||-|.+.+..
T Consensus 61 datL~ELtsLvkev---npeaR~kgt~f~fa~Vf~d~~~~~y~~RevG~t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~~ 137 (151)
T KOG3391|consen 61 DATLRELTSLVKEV---NPEARKKGTSFDFAVVFPDKKSPRYIVREVGTTCLGRKGIDDNKTLQQTKFEIGDYLDVAITP 137 (151)
T ss_pred hhhHHHHHHHHHHc---CHHHhccCceEEEEEEeccCCCCCceeeeecccccCcccCCccchhhhCCccccceEEEEecC
Confidence 58888888887762 222 23445543322 111 25689999999999999999999987
Q ss_pred CC
Q 041108 80 LD 81 (102)
Q Consensus 80 ~~ 81 (102)
+.
T Consensus 138 p~ 139 (151)
T KOG3391|consen 138 PN 139 (151)
T ss_pred cc
Confidence 65
No 178
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=43.02 E-value=30 Score=22.58 Aligned_cols=29 Identities=17% Similarity=0.331 Sum_probs=24.0
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHH
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREI 30 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I 30 (102)
|+|.+... ++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~i~-~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITIG-GQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEET-TEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEEC-CEEEEEEECCCHHHHHHHHhC
Confidence 78889885 788999999998888888764
No 179
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=42.37 E-value=16 Score=24.53 Aligned_cols=59 Identities=10% Similarity=0.046 Sum_probs=39.1
Q ss_pred HHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEEecC
Q 041108 26 LKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVFTIP 93 (102)
Q Consensus 26 LK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~~ 93 (102)
||.+|+..+ +..-.|-|.|+ +-=|...+...||.++..+++.--.-|..++.+.|..-+
T Consensus 6 LksKIHrat---VT~a~L~Y~GS------ItID~~Lm~aagi~p~E~V~V~Nv~NG~Rf~TYvI~G~~ 64 (126)
T TIGR00223 6 LQGKLHRAT---VTHANLNYEGS------ITIDEDLLDAAGILENEKVDIVNVNNGKRFSTYAIAGKR 64 (126)
T ss_pred hhhhhcceE---Eecccccccee------EEECHHHHHhcCCCCCCEEEEEECCCCcEEEEEEEEcCC
Confidence 566666654 33334667777 666777788888888888888766656666666655443
No 180
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=41.84 E-value=37 Score=28.52 Aligned_cols=38 Identities=16% Similarity=0.190 Sum_probs=27.4
Q ss_pred EEEEEeCCCcEEEE--EecC-------CCcHHHHHHHHHhhcCCCCc
Q 041108 2 KVAVEILTGTLFYI--QVEN-------DATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 2 ~v~V~~~~g~~~~i--~v~~-------~~TV~dLK~~I~~~~gip~~ 39 (102)
.|++...+|++..+ +.++ ..|+.+||..|++++|+.-+
T Consensus 250 ~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~~~ 296 (603)
T PRK05841 250 NITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLDLN 296 (603)
T ss_pred EEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhccccccc
Confidence 46777777876444 4441 26899999999999997543
No 181
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=41.53 E-value=16 Score=24.60 Aligned_cols=59 Identities=14% Similarity=0.038 Sum_probs=39.5
Q ss_pred HHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEEecC
Q 041108 26 LKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVFTIP 93 (102)
Q Consensus 26 LK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~~ 93 (102)
||.+|+..+ +..-.|-|.|+ +-=|...|...||.++..+++.--.-|..++.+.|..-+
T Consensus 6 LksKiHrat---VT~a~L~Y~GS------itID~~Ll~aagi~p~E~V~V~Nv~NG~Rf~TYvI~g~~ 64 (126)
T PRK05449 6 LKSKIHRAT---VTEADLNYEGS------ITIDEDLLDAAGILENEKVQIVNVNNGARFETYVIAGER 64 (126)
T ss_pred hhhcccceE---Eecccccccee------EEECHHHHHhcCCCCCCEEEEEECCCCcEEEEEEEEcCC
Confidence 555555544 33334667777 666777788888888888888866666666666665544
No 182
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=41.07 E-value=48 Score=21.35 Aligned_cols=33 Identities=12% Similarity=0.155 Sum_probs=22.4
Q ss_pred EEEeCCCCCCCCccCCCCCccccCCCCCC--CEEEEEeecCC
Q 041108 42 ILLLSSDHSCPMTQDHDEVPLADCGVKDG--SHIYLFFKPLD 81 (102)
Q Consensus 42 ~L~~~g~~~~~~~~L~d~~~L~~~gI~~~--~~i~l~~~~~~ 81 (102)
.|.|.|+ .|..++.|++| ++.+ +.|++-+...+
T Consensus 3 ~LW~aGK------~l~~~k~l~dy-~GkNEKtKiivKl~~~g 37 (98)
T PF11069_consen 3 QLWWAGK------ELQRGKKLSDY-IGKNEKTKIIVKLQKRG 37 (98)
T ss_pred eEEeccc------cccCCCcHHHh-cCCCcceeEEEEeccCC
Confidence 4778998 99999999997 5444 44444444433
No 183
>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=40.51 E-value=16 Score=21.50 Aligned_cols=19 Identities=11% Similarity=0.251 Sum_probs=14.1
Q ss_pred cHHHHHHHHHhhcCCCCcc
Q 041108 22 TVADLKREIGAQQKLPCDR 40 (102)
Q Consensus 22 TV~dLK~~I~~~~gip~~~ 40 (102)
|+.++.+.+++.+|+++++
T Consensus 1 t~~~Ii~~Va~~~~v~~~~ 19 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVED 19 (70)
T ss_dssp -HHHHHHHHHHHTT--HHH
T ss_pred CHHHHHHHHHHHHCCCHHH
Confidence 6889999999999998764
No 184
>PHA02090 hypothetical protein
Probab=40.46 E-value=5.5 Score=23.91 Aligned_cols=39 Identities=18% Similarity=0.197 Sum_probs=26.4
Q ss_pred EEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEE
Q 041108 5 VEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRLIL 43 (102)
Q Consensus 5 V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L 43 (102)
+++..|..+.+++-++-+...=-..+.-..|+|.++|+.
T Consensus 32 lksk~g~lrv~e~m~dg~~ktna~flgy~igip~~eq~~ 70 (79)
T PHA02090 32 LKSKEGDLRVIEVMEDGGWKTNAEFLGYAIGIPVNEQKF 70 (79)
T ss_pred hhccCCceEEEEeccCCCccccceeeeeeeCccchHHHH
Confidence 456677778888877766544444555667788888764
No 185
>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=40.35 E-value=76 Score=19.49 Aligned_cols=48 Identities=21% Similarity=0.335 Sum_probs=32.7
Q ss_pred CcHHHHHHHHHhhcCCCCccEEEEe--CCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 21 ATVADLKREIGAQQKLPCDRLILLL--SSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~~~q~L~~--~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.|..||+.+..++.+++...-+|++ .|. .++|+.-+..+ .+++.+.+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGT------eVddEeYF~tL--p~nT~l~~l 70 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGT------EVDDEEYFQTL--PDNTVLMLL 70 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCc------EEccHHHHhcC--CCCcEEEEE
Confidence 4799999999999999755555544 566 78777666554 344444443
No 186
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. 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, f
Probab=40.18 E-value=70 Score=19.73 Aligned_cols=35 Identities=20% Similarity=0.294 Sum_probs=29.5
Q ss_pred EEeC-CCcEEEEEecCCCcHHHHHHHHHhhcCCCCc
Q 041108 5 VEIL-TGTLFYIQVENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 5 V~~~-~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~ 39 (102)
|+.. .|+.+.+++...-...||+.++...+|-+.+
T Consensus 3 iKfE~~gEKRIi~f~RPvkf~dl~~kv~~afGq~md 38 (79)
T cd06405 3 IKFEHNGEKRIIQFPRPVKFKDLQQKVTTAFGQPMD 38 (79)
T ss_pred EEEEecCceEEEecCCCccHHHHHHHHHHHhCCeee
Confidence 4433 5899999999999999999999999997665
No 187
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=40.15 E-value=41 Score=20.69 Aligned_cols=23 Identities=26% Similarity=0.385 Sum_probs=18.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhcC
Q 041108 13 FYIQVENDATVADLKREIGAQQK 35 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~g 35 (102)
..+.++.++|+.++|..+-++-.
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~ 24 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQAR 24 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHH
Confidence 45788899999999988876533
No 188
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=40.09 E-value=50 Score=20.34 Aligned_cols=48 Identities=15% Similarity=0.138 Sum_probs=30.1
Q ss_pred cHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCC
Q 041108 22 TVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLD 81 (102)
Q Consensus 22 TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~ 81 (102)
|-.|.+ .+-+++++.+++.-. .+.++-....+|.+.|++|.+.-+...
T Consensus 19 s~eE~~-~lL~~y~i~~~qLP~-----------I~~~DPv~r~~g~k~GdVvkI~R~S~t 66 (79)
T PRK09570 19 SEEEAK-KLLKEYGIKPEQLPK-----------IKASDPVVKAIGAKPGDVIKIVRKSPT 66 (79)
T ss_pred CHHHHH-HHHHHcCCCHHHCCc-----------eeccChhhhhcCCCCCCEEEEEECCCC
Confidence 334443 445556666654322 445555567789999999999976543
No 189
>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=39.93 E-value=90 Score=19.21 Aligned_cols=48 Identities=10% Similarity=0.090 Sum_probs=33.5
Q ss_pred CcHHHHHHHHHhhcCCCCccEEE--EeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 21 ATVADLKREIGAQQKLPCDRLIL--LLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~~~q~L--~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.+..||+.+.....+++...-+| .-.|. .++++.-+..+ .+++.+.+.
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT------~Vd~EeyF~~L--pdnT~lm~L 70 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGT------VVDTEEFFQTL--GDNTHFMVL 70 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCC------EEccHHHHhhC--CCCCEEEEE
Confidence 47999999999999998554444 44666 88777666554 355555554
No 190
>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=39.83 E-value=93 Score=19.39 Aligned_cols=43 Identities=14% Similarity=0.265 Sum_probs=32.0
Q ss_pred EEeC-CCcEEEEEecCCCcHHHHHHHHHhhcCCCCc-cEEEEeCC
Q 041108 5 VEIL-TGTLFYIQVENDATVADLKREIGAQQKLPCD-RLILLLSS 47 (102)
Q Consensus 5 V~~~-~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~-~q~L~~~g 47 (102)
+|.. +|..+...++++.|..+|.+++........+ ...+.+-.
T Consensus 3 ~K~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~D 47 (83)
T cd06404 3 VKAAYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWID 47 (83)
T ss_pred EEEEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEEC
Confidence 4433 5788888999999999999999999887654 33444433
No 191
>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=39.27 E-value=71 Score=22.11 Aligned_cols=43 Identities=7% Similarity=0.148 Sum_probs=28.5
Q ss_pred EEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccC
Q 041108 13 FYIQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADC 65 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~ 65 (102)
+.+++...+.+.++++...+.+.++-+ +..|+ .+....|++||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~------f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLPFGYE----VRVGK------FLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCCCceE----eeeee------EeecCCchhhh
Confidence 567777788888888888877654433 23444 56666666664
No 192
>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=39.24 E-value=18 Score=21.37 Aligned_cols=17 Identities=24% Similarity=0.419 Sum_probs=10.8
Q ss_pred CccccCCCCCCCEEEEE
Q 041108 60 VPLADCGVKDGSHIYLF 76 (102)
Q Consensus 60 ~~L~~~gI~~~~~i~l~ 76 (102)
+.|.+.|+++|++|.+.
T Consensus 47 ~~L~~~G~~~GD~V~Ig 63 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRIG 63 (69)
T ss_dssp HHHHTTT--TT-EEEET
T ss_pred HHHHHcCCCCCCEEEEc
Confidence 45778999999999763
No 193
>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=38.11 E-value=91 Score=18.73 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=17.5
Q ss_pred EEEecCCCcHHHHHHHHHhhc
Q 041108 14 YIQVENDATVADLKREIGAQQ 34 (102)
Q Consensus 14 ~i~v~~~~TV~dLK~~I~~~~ 34 (102)
.+.+...+||.|+=.+|+...
T Consensus 18 ~liL~~GaTV~D~a~~iH~di 38 (75)
T cd01666 18 PVILRRGSTVEDVCNKIHKDL 38 (75)
T ss_pred CEEECCCCCHHHHHHHHHHHH
Confidence 477788999999999999754
No 194
>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=37.15 E-value=24 Score=20.89 Aligned_cols=18 Identities=33% Similarity=0.477 Sum_probs=15.1
Q ss_pred CCccccCCCCCCCEEEEE
Q 041108 59 EVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 59 ~~~L~~~gI~~~~~i~l~ 76 (102)
+..|.+.|+++|++|.+.
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 356889999999999875
No 195
>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=36.95 E-value=47 Score=21.88 Aligned_cols=27 Identities=22% Similarity=0.233 Sum_probs=20.8
Q ss_pred EEEecCCCcHHHHHHHHHhhcCCCCcc
Q 041108 14 YIQVENDATVADLKREIGAQQKLPCDR 40 (102)
Q Consensus 14 ~i~v~~~~TV~dLK~~I~~~~gip~~~ 40 (102)
.++++.+.|+.+|-..+++++|+.+..
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~m 62 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVTM 62 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEEE
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEEE
Confidence 477877999999999999999988764
No 196
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=36.11 E-value=27 Score=28.24 Aligned_cols=74 Identities=18% Similarity=0.239 Sum_probs=48.1
Q ss_pred EEecCCCcHHHHHHHHHhhcCC-CCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEEecC
Q 041108 15 IQVENDATVADLKREIGAQQKL-PCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVFTIP 93 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gi-p~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~~ 93 (102)
++.++-.....|++.|.+...+ |+.-.-+... ..+|. .+.-|.|..|++|.+.+. ....+-.++.-|
T Consensus 337 v~e~D~~~lpYL~Avi~E~~Rl~p~~Pl~~ph~--------~~~d~-~i~Gy~IPkgT~v~vn~~---ai~rDp~vw~dP 404 (489)
T KOG0156|consen 337 VSESDLPKLPYLKAVIKETLRLHPPLPLLLPRE--------TTEDT-KIGGYDIPKGTTVLVNLW---AIHRDPKVWEDP 404 (489)
T ss_pred CChhhhccCHHHHHHHHHHHhcCCCcccccccc--------ccCCe-eEcCEEcCCCCEEEEeeh---hhhcCCccCCCc
Confidence 4555556677888888887664 3322222111 12443 788899999999998874 345566777788
Q ss_pred CcCCCCC
Q 041108 94 EWLNPNT 100 (102)
Q Consensus 94 ~~~~~~~ 100 (102)
+.|+|..
T Consensus 405 ~eF~PER 411 (489)
T KOG0156|consen 405 EEFKPER 411 (489)
T ss_pred cccChhh
Confidence 8888754
No 197
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=35.19 E-value=1.1e+02 Score=18.66 Aligned_cols=34 Identities=12% Similarity=0.253 Sum_probs=27.1
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcC
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQK 35 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~g 35 (102)
|.|.+-..+ ..+.+.++.+.|-.++.++|.+...
T Consensus 1 MeIkIGi~~-~~REl~ies~~s~dev~~~v~~Al~ 34 (74)
T PF11305_consen 1 MEIKIGIQN-VARELVIESDQSADEVEAAVTDALA 34 (74)
T ss_pred CeEEEeeec-CCceEEEecCCCHHHHHHHHHHHHh
Confidence 777777764 4467888888999999999999853
No 198
>COG1978 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.74 E-value=96 Score=21.35 Aligned_cols=33 Identities=15% Similarity=0.204 Sum_probs=27.6
Q ss_pred EEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCC
Q 041108 4 AVEILTGTLFYIQVENDATVADLKREIGAQQKL 36 (102)
Q Consensus 4 ~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gi 36 (102)
..|+..|..+...+.....+.+|+++|..++..
T Consensus 53 ~~r~gsGa~~f~~v~~v~ki~slrqrI~~Eta~ 85 (152)
T COG1978 53 HHRSGSGAKVFYNVEKVPKINSLRQRIMEETAR 85 (152)
T ss_pred EEEcCCCcEEEEEeEEcCchhhHHHHHHHHHHH
Confidence 456777888999998888899999999988653
No 199
>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=34.56 E-value=1.1e+02 Score=18.87 Aligned_cols=48 Identities=10% Similarity=0.094 Sum_probs=32.4
Q ss_pred CcHHHHHHHHHhhcCCCCcc--EEE--EeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 21 ATVADLKREIGAQQKLPCDR--LIL--LLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~~~--q~L--~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.+..+|+.+.....+++.+. -+| .-.|. .++|+.-+..+ .+++.+.+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT------~VddEeyF~tL--p~nT~l~~L 72 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGT------IVEDEDYFLCL--PPNTKFVLL 72 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCc------EEccHHHHhhC--CCCcEEEEE
Confidence 47999999999999998432 344 34666 88777666555 345554443
No 200
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=34.30 E-value=1.1e+02 Score=18.69 Aligned_cols=62 Identities=16% Similarity=0.186 Sum_probs=38.9
Q ss_pred EEEEeCCC-cEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEe--CCCCCCCCccCCCCCccccCCCCCCCEEEE
Q 041108 3 VAVEILTG-TLFYIQVENDATVADLKREIGAQQKLPCDRLILLL--SSDHSCPMTQDHDEVPLADCGVKDGSHIYL 75 (102)
Q Consensus 3 v~V~~~~g-~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~--~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l 75 (102)
+.|+..+. ..+=+.+ .++.||+.+.....+++...-+|+. .|. .++|+.-+..+ .+++.+.+
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT------~VddEeyF~tL--p~nT~lm~ 69 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQLPEEPVRLVLEEDGT------EVDDEEYFQTL--PDNTVLML 69 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT-SSSTCEEEETTTTC------BESSCHHHCCS--SSSEEEEE
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhCCCCcCcEEEEeCCCc------EEccHHHHhhC--CCCCEEEE
Confidence 34555443 3333444 4799999999999999976666655 565 78877655444 34444443
No 201
>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=34.14 E-value=1.1e+02 Score=20.90 Aligned_cols=80 Identities=24% Similarity=0.309 Sum_probs=42.4
Q ss_pred EEEEEeCCCc---EEEEEecCCCcHHHHHHHHHhhcCCCCccEE-EEeCCC-CCCC-----------CccCCCCCccccC
Q 041108 2 KVAVEILTGT---LFYIQVENDATVADLKREIGAQQKLPCDRLI-LLLSSD-HSCP-----------MTQDHDEVPLADC 65 (102)
Q Consensus 2 ~v~V~~~~g~---~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~-L~~~g~-~~~~-----------~~~L~d~~~L~~~ 65 (102)
++.|...+-+ -+.|.|..+.|+.+|=..|....|..-.-.- ...++. .... ......+.+|.++
T Consensus 6 ~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw~~~HL~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 85 (179)
T PF07929_consen 6 QLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGWDDDHLYEFFIGGERYGIPDEDGMDFSEGDEIKDASEVKLGEL 85 (179)
T ss_dssp EEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT----S-EEEEEE-TTTSSESSS---------EEETTT-BHHHC
T ss_pred EEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCcCCCEeEEEEECCCccccccccccccccCCCcceeeeEEhhhh
Confidence 4556655322 3689999999999999999999998755332 222222 0100 0112344567777
Q ss_pred CCCCCCEEEEEeecCC
Q 041108 66 GVKDGSHIYLFFKPLD 81 (102)
Q Consensus 66 gI~~~~~i~l~~~~~~ 81 (102)
....|+.+.....--+
T Consensus 86 ~~~~~~~~~Y~YDfGD 101 (179)
T PF07929_consen 86 LLEEGDKFTYVYDFGD 101 (179)
T ss_dssp -BTTC-EEEEEE-TTT
T ss_pred ccCcCCEEEEEEcCCC
Confidence 6677777777765433
No 202
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=34.02 E-value=1.1e+02 Score=19.63 Aligned_cols=62 Identities=15% Similarity=0.209 Sum_probs=46.6
Q ss_pred cCCCcHHHHHHHHHhhcCCC---CccEEEEeCCCCCCCCccCCCCC-ccccCCCCCCCEEEEEeecCCCCCce
Q 041108 18 ENDATVADLKREIGAQQKLP---CDRLILLLSSDHSCPMTQDHDEV-PLADCGVKDGSHIYLFFKPLDDGSTQ 86 (102)
Q Consensus 18 ~~~~TV~dLK~~I~~~~gip---~~~q~L~~~g~~~~~~~~L~d~~-~L~~~gI~~~~~i~l~~~~~~~~~~~ 86 (102)
.+..|+.++-..+.++.++- +-.+-.++.+. .+..+. .|-.+.+..+ ++.+.++..+...+.
T Consensus 28 ~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~------ll~~~~~~L~H~~~~~~-~l~l~vrs~~~~l~d 93 (104)
T PF14807_consen 28 SSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQ------LLNSSPVCLLHCRVNAG-TLDLWVRSSDSPLTD 93 (104)
T ss_pred cCcCCHHHHHHHHHHhcCceEEEEeCccceeeee------ccCCCCeEEEEEEecCC-eEEEEEEcCCCCcHH
Confidence 45688999998988888753 33346778887 776666 7888888777 999999987766544
No 203
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=33.83 E-value=53 Score=20.30 Aligned_cols=35 Identities=20% Similarity=0.186 Sum_probs=21.6
Q ss_pred ccccCCCCCCCEEEEEeecCCCCCceeEEEecCCc
Q 041108 61 PLADCGVKDGSHIYLFFKPLDDGSTQHSVFTIPEW 95 (102)
Q Consensus 61 ~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~~~~ 95 (102)
.|.+.|+..||.+.+.-....+.+-+..|.+.|+.
T Consensus 22 ~l~~HGl~vGD~VnFsnsa~tGvSG~mTVatVid~ 56 (83)
T PF12195_consen 22 TLTDHGLFVGDFVNFSNSAVTGVSGNMTVATVIDA 56 (83)
T ss_dssp E-TT----TT-EEEEES-SSTT--EEEEEEEEEET
T ss_pred EEccCceeecceEEEeccccccccccEEEEEEecC
Confidence 57889999999999998887888888888888764
No 204
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=32.93 E-value=31 Score=19.45 Aligned_cols=19 Identities=5% Similarity=0.144 Sum_probs=16.5
Q ss_pred cHHHHHHHHHhhcCCCCcc
Q 041108 22 TVADLKREIGAQQKLPCDR 40 (102)
Q Consensus 22 TV~dLK~~I~~~~gip~~~ 40 (102)
|+.++.+.+++.+|+++++
T Consensus 1 ~~~~I~~~Va~~~~i~~~~ 19 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPED 19 (60)
T ss_pred CHHHHHHHHHHHhCCCHHH
Confidence 5788999999999998875
No 205
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=32.36 E-value=42 Score=26.13 Aligned_cols=46 Identities=22% Similarity=0.216 Sum_probs=37.8
Q ss_pred EEEEecCCCcHHHHHHHHHhhcC-CCCccE-EEEeCCCCCCCCccCCCCCcccc
Q 041108 13 FYIQVENDATVADLKREIGAQQK-LPCDRL-ILLLSSDHSCPMTQDHDEVPLAD 64 (102)
Q Consensus 13 ~~i~v~~~~TV~dLK~~I~~~~g-ip~~~q-~L~~~g~~~~~~~~L~d~~~L~~ 64 (102)
.++.++..+||.+||+.+..+.+ .+.-.+ -+++++. .|.+..+|.+
T Consensus 166 ~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~------~l~~~~TLk~ 213 (331)
T KOG2660|consen 166 RFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEE------LLGDYYTLKD 213 (331)
T ss_pred ceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCc------cccchhhhhh
Confidence 56788889999999999999999 554444 6788887 8899988875
No 206
>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=31.83 E-value=62 Score=20.58 Aligned_cols=26 Identities=15% Similarity=0.264 Sum_probs=19.3
Q ss_pred cHHHHHHHHHhhcCCCCccEEEEeCC
Q 041108 22 TVADLKREIGAQQKLPCDRLILLLSS 47 (102)
Q Consensus 22 TV~dLK~~I~~~~gip~~~q~L~~~g 47 (102)
-.+.|-+.++++.|||++|..+.|..
T Consensus 75 ~s~~i~~~l~~~LgIp~~Riyi~f~d 100 (114)
T PF01187_consen 75 YSAAITEFLEEELGIPPDRIYINFHD 100 (114)
T ss_dssp HHHHHHHHHHHHHT--GGGEEEEEEE
T ss_pred HHHHHHHHHHHHhCCCcCceEEEEEE
Confidence 35667788899999999999998754
No 207
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=31.79 E-value=1.3e+02 Score=26.40 Aligned_cols=63 Identities=14% Similarity=0.181 Sum_probs=44.0
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCC--CCCCCccCCCCCccccCCCCCCCEEEEEee
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCDRLILLLSSD--HSCPMTQDHDEVPLADCGVKDGSHIYLFFK 78 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~--~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~ 78 (102)
.+.+.|+.-++++-+|+.|+...+++.+-.+++-... .+-. -..+..+|+.+ -+|.+|.+-+-
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~R~~~~N~~~~--S~~~NetLs~~--~~~~~iTI~LG 942 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIVRHASDNGSEA--SFMDNETLSGA--FQSCFITIKLG 942 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEEEEecCCcchh--hhccchhhhhh--cccceEEEEec
Confidence 3678999999999999999999999999998864322 1111 22456667655 35666666543
No 208
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=31.77 E-value=89 Score=20.66 Aligned_cols=37 Identities=22% Similarity=0.295 Sum_probs=30.3
Q ss_pred EEecCCCcHHHHHHHHHhhcCCCCccEEEEeCCCCCC
Q 041108 15 IQVENDATVADLKREIGAQQKLPCDRLILLLSSDHSC 51 (102)
Q Consensus 15 i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g~~~~ 51 (102)
.=|..+.||+++-..|-.+..+.|+.--++|-+..++
T Consensus 49 yLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~p 85 (116)
T KOG1654|consen 49 YLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTSP 85 (116)
T ss_pred eeccccccHHHHHHHHHHHhccChhHeEEEEEcCcCC
Confidence 4477789999999999999999999887777666333
No 209
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=31.52 E-value=11 Score=24.39 Aligned_cols=14 Identities=50% Similarity=0.757 Sum_probs=10.9
Q ss_pred ceeEEEecCCcCCC
Q 041108 85 TQHSVFTIPEWLNP 98 (102)
Q Consensus 85 ~~~~~~~~~~~~~~ 98 (102)
=-|.|||+|+-|++
T Consensus 87 y~HvVFTlP~~L~~ 100 (111)
T PF14319_consen 87 YFHVVFTLPHELRP 100 (111)
T ss_pred eEEEEEcCcHHHHH
Confidence 34789999988864
No 210
>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=31.31 E-value=1.4e+02 Score=18.93 Aligned_cols=72 Identities=17% Similarity=0.164 Sum_probs=42.5
Q ss_pred EEEEeCC-CcEEEEEecCCCcHHHHHHHHHhh------cCCCCc-cEEEEeCCCCCCCCccCCCCCccccCC-----CCC
Q 041108 3 VAVEILT-GTLFYIQVENDATVADLKREIGAQ------QKLPCD-RLILLLSSDHSCPMTQDHDEVPLADCG-----VKD 69 (102)
Q Consensus 3 v~V~~~~-g~~~~i~v~~~~TV~dLK~~I~~~------~gip~~-~q~L~~~g~~~~~~~~L~d~~~L~~~g-----I~~ 69 (102)
|.|...+ ...+.+.+++++|+.+|.+.+-.+ ..-+++ +-.|-..|. .+.|..+.+|.++. ++.
T Consensus 20 v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~----~Eyl~~~~~L~~~~yIr~cl~~ 95 (108)
T smart00144 20 IVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGR----DEYLLGDHPLGSFEYIRNCLKN 95 (108)
T ss_pred EEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCc----EEEEeCCeeeechHHHHHHHhc
Confidence 3444433 356889999999999999877765 112233 445555555 22455555555542 345
Q ss_pred CCEEEEEee
Q 041108 70 GSHIYLFFK 78 (102)
Q Consensus 70 ~~~i~l~~~ 78 (102)
|..+++.+.
T Consensus 96 ~~~~~L~L~ 104 (108)
T smart00144 96 GREPHLVLM 104 (108)
T ss_pred CCCceEEEE
Confidence 666666543
No 211
>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=31.04 E-value=80 Score=20.48 Aligned_cols=24 Identities=29% Similarity=0.266 Sum_probs=21.1
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhc
Q 041108 11 TLFYIQVENDATVADLKREIGAQQ 34 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~ 34 (102)
+.|.+++.+.+||.|+-..|.+..
T Consensus 19 ~~y~v~~~~~~tVLd~L~~Ik~~~ 42 (110)
T PF13085_consen 19 QEYEVPVEPGMTVLDALNYIKEEQ 42 (110)
T ss_dssp EEEEEEGGSTSBHHHHHHHHHHHT
T ss_pred EEEEecCCCCCcHHHHHHHHHhcc
Confidence 347789999999999999999986
No 212
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=30.57 E-value=37 Score=21.00 Aligned_cols=38 Identities=18% Similarity=0.230 Sum_probs=21.2
Q ss_pred HHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCC
Q 041108 29 EIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKD 69 (102)
Q Consensus 29 ~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~ 69 (102)
.|.++..+.|+--.|+..+. ++ ..|+-+++|.++||++
T Consensus 2 ~IC~KCEfdp~htvLLrD~~-s~--e~LdLsKSLndlGirE 39 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQ-SG--EELDLSKSLNDLGIRE 39 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS------B--TTS-HHHHT-SE
T ss_pred ccccccccCcceEEEeecCC-CC--CcccccccHHHhhHHH
Confidence 46777778888777765433 11 2789999999999984
No 213
>KOG0159 consensus Cytochrome P450 CYP11/CYP12/CYP24/CYP27 subfamilies [Secondary metabolites biosynthesis, transport and catabolism]
Probab=30.14 E-value=56 Score=26.97 Aligned_cols=66 Identities=20% Similarity=0.195 Sum_probs=45.1
Q ss_pred cHHHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEEecCCcCCCC
Q 041108 22 TVADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVFTIPEWLNPN 99 (102)
Q Consensus 22 TV~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~ 99 (102)
.+--||.-|.+-..+.|. ..++++ .+..+..|+.|-|.-|+.+.++....+.. -.-|.-|+.|.|-
T Consensus 375 ~~pyLrAcIKEtlRlyPv---~~~~~R------~l~~D~vL~gY~vPagT~V~l~~~~~~r~---~~~F~~p~~F~Pe 440 (519)
T KOG0159|consen 375 NMPYLRACIKETLRLYPV---VPGNGR------VLPKDLVLSGYHVPAGTLVVLFLYVLGRN---PAYFPDPEEFLPE 440 (519)
T ss_pred hCHHHHHHHHhhhceecc---cccccc------ccchhceeccceecCCCeEEEeehhhccC---hhhCCCccccChh
Confidence 345567777777665552 356777 99999999999999998887776554422 3345556655553
No 214
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=29.92 E-value=1.4e+02 Score=18.41 Aligned_cols=48 Identities=17% Similarity=0.204 Sum_probs=31.6
Q ss_pred CcHHHHHHHHHhhcCCCC-ccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 21 ATVADLKREIGAQQKLPC-DRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 21 ~TV~dLK~~I~~~~gip~-~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
.+..+|+.+.....+++. ....|.-.|. .++|+.-+..+ .+++.+.+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~lvL~eDGT------~Vd~EeyF~tL--p~nt~l~vL 69 (79)
T cd06538 21 DSLEDLLNKVLDALLLDCISSLVLDEDGT------GVDTEEFFQAL--ADNTVFMVL 69 (79)
T ss_pred CCHHHHHHHHHHHcCCCCccEEEEecCCc------EEccHHHHhhC--CCCcEEEEE
Confidence 479999999999999963 2234444666 78777666554 344444443
No 215
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.64 E-value=54 Score=21.71 Aligned_cols=62 Identities=21% Similarity=0.278 Sum_probs=35.1
Q ss_pred EecC-CCcHHHHHHHHHhhcC----CCCcc------EEEEeCCCCCCCCc-----------cCC-CCCccccCCCCCCCE
Q 041108 16 QVEN-DATVADLKREIGAQQK----LPCDR------LILLLSSDHSCPMT-----------QDH-DEVPLADCGVKDGSH 72 (102)
Q Consensus 16 ~v~~-~~TV~dLK~~I~~~~g----ip~~~------q~L~~~g~~~~~~~-----------~L~-d~~~L~~~gI~~~~~ 72 (102)
+++- +.||.+++..+.+... +||-+ .+++.....|--.+ .|+ ++++|..|||.+...
T Consensus 28 d~dLad~Tvk~f~~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sKT~nLvinldhDd~w~L~d~~ktL~~~GIenETE 107 (127)
T KOG4147|consen 28 DVDLADQTVKEFIVFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSKTNNLVINLDHDDRWLLKDEDKTLKAAGIENETE 107 (127)
T ss_pred ccchhHhhHHHHHHHHHHhcccCCCCCccccccccceeeehhhhhcccceEEEeccCCcceeecCccchHHHhccCcchh
Confidence 3444 6788888776666543 44432 33433222111100 333 567899999998888
Q ss_pred EEEEe
Q 041108 73 IYLFF 77 (102)
Q Consensus 73 i~l~~ 77 (102)
|.++.
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 77653
No 216
>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=29.50 E-value=1.4e+02 Score=18.37 Aligned_cols=59 Identities=7% Similarity=0.142 Sum_probs=40.4
Q ss_pred EEEecCCCcHHHHHHHHHhhcCCCCccE-EEEeCCCCCCCCccC-CCCCccc---cCCCCCCCEEEEEeec
Q 041108 14 YIQVENDATVADLKREIGAQQKLPCDRL-ILLLSSDHSCPMTQD-HDEVPLA---DCGVKDGSHIYLFFKP 79 (102)
Q Consensus 14 ~i~v~~~~TV~dLK~~I~~~~gip~~~q-~L~~~g~~~~~~~~L-~d~~~L~---~~gI~~~~~i~l~~~~ 79 (102)
..-|+.+.|++++...|..+.++.+++- -++.+.. .. ..+.+++ ++- .++..+++....
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~------f~p~~d~~~g~LY~~~-~~dGfLyi~Ys~ 82 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNS------FAPSPDENVGNLYRCF-GTNGELIVSYCK 82 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCc------cCCCchhHHHHHHHhc-CCCCEEEEEEeC
Confidence 4569999999999999999999887764 4444443 22 2334443 333 567888887754
No 217
>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=28.53 E-value=1.2e+02 Score=17.10 Aligned_cols=31 Identities=19% Similarity=0.250 Sum_probs=23.9
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcC
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQK 35 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~g 35 (102)
|+|.+.+|+... +....|+.|+=..|+...+
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~ 31 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLA 31 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHH
Confidence 456678888766 6677899999999987653
No 218
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=28.08 E-value=1.1e+02 Score=18.51 Aligned_cols=47 Identities=9% Similarity=0.138 Sum_probs=32.5
Q ss_pred HHHHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEE
Q 041108 24 ADLKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLF 76 (102)
Q Consensus 24 ~dLK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~ 76 (102)
..++..++..+|.+.+.-++-.+.. .-.-...+....+.-|..|++-
T Consensus 4 ~~~r~~~e~~~G~dl~~Vrvh~~~~------a~~~~~~~~A~A~T~G~~I~f~ 50 (79)
T PF13699_consen 4 ESIRSRLERAFGADLSDVRVHTGPA------ASRAAAALGARAFTVGNDIYFA 50 (79)
T ss_pred HHHHHHHHHHhCCCccceEEEeCCc------hhhhhhccCCeEEEECCEEEEc
Confidence 3588999999999999889877754 2223333444445667888773
No 219
>PRK06959 putative threonine-phosphate decarboxylase; Provisional
Probab=26.83 E-value=81 Score=23.65 Aligned_cols=29 Identities=10% Similarity=0.059 Sum_probs=23.3
Q ss_pred CCCcHHHHHHHHHhhcCCCCccEEEEeCCC
Q 041108 19 NDATVADLKREIGAQQKLPCDRLILLLSSD 48 (102)
Q Consensus 19 ~~~TV~dLK~~I~~~~gip~~~q~L~~~g~ 48 (102)
|+.. .+|++.|++.+|++..+|.++.+|.
T Consensus 52 p~~~-~~L~~~ia~~~~~~~~~~I~i~~Gs 80 (339)
T PRK06959 52 PEDD-DGLAACAARYYGAPDAAHVLPVAGS 80 (339)
T ss_pred CCch-HHHHHHHHHHhCCCCcccEEECcCH
Confidence 3445 8999999999999865677777776
No 220
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.53 E-value=1.3e+02 Score=18.58 Aligned_cols=16 Identities=31% Similarity=0.418 Sum_probs=10.4
Q ss_pred cccCCCCCCCEEEEEe
Q 041108 62 LADCGVKDGSHIYLFF 77 (102)
Q Consensus 62 L~~~gI~~~~~i~l~~ 77 (102)
.+++||++|+.+.+.-
T Consensus 40 A~~lgI~dGd~V~v~s 55 (112)
T cd02787 40 IARLGLKAGDRVDLES 55 (112)
T ss_pred HHHhCCCCCCEEEEEe
Confidence 4566777777766653
No 221
>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=25.53 E-value=1.7e+02 Score=18.09 Aligned_cols=65 Identities=14% Similarity=-0.004 Sum_probs=38.7
Q ss_pred EEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCC-ccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEe
Q 041108 3 VAVEILTGTLFYIQVENDATVADLKREIGAQQKLPC-DRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFF 77 (102)
Q Consensus 3 v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~-~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~ 77 (102)
+.|+..+.. ...-|- ..+..||+.+..+..+++. ....|.-.|. .++++.-+..+ .+++.+.+..
T Consensus 5 fkv~~~~r~-~kkGV~-A~sL~EL~~K~~~~L~~~~~~~lvLeeDGT------~Vd~EeyF~tL--pdnT~lm~L~ 70 (81)
T cd06537 5 FRVCDHKRT-VRKGLT-AASLQELLAKALETLLLSGVLTLVLEEDGT------AVDSEDFFELL--EDDTCLMVLE 70 (81)
T ss_pred eEEecCCCC-eeEeEE-ccCHHHHHHHHHHHhCCCCceEEEEecCCC------EEccHHHHhhC--CCCCEEEEEC
Confidence 345554432 222332 2479999999999999873 3334444666 88777666554 3555555543
No 222
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=25.03 E-value=57 Score=18.36 Aligned_cols=23 Identities=9% Similarity=0.255 Sum_probs=15.8
Q ss_pred ecCCCcHHHHHHHHHhhcCCCCc
Q 041108 17 VENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 17 v~~~~TV~dLK~~I~~~~gip~~ 39 (102)
++...|+.++-+.+.++++++++
T Consensus 26 ~~g~~t~~ei~~~l~~~y~~~~~ 48 (68)
T PF05402_consen 26 LDGPRTVEEIVDALAEEYDVDPE 48 (68)
T ss_dssp --SSS-HHHHHHHHHHHTT--HH
T ss_pred ccCCCCHHHHHHHHHHHcCCCHH
Confidence 34568999999999999988875
No 223
>PRK08453 fliD flagellar capping protein; Validated
Probab=23.85 E-value=2.4e+02 Score=24.16 Aligned_cols=26 Identities=19% Similarity=0.372 Sum_probs=23.2
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhc
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQ 34 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~ 34 (102)
.|+.+.|+|....|+.+|..+|-...
T Consensus 136 ~G~~~sIdi~~gtTL~~L~~~INd~~ 161 (673)
T PRK08453 136 QGKDYAIDIKAGMTLGDVAQSITDAT 161 (673)
T ss_pred CCEEEEEEeCCCCcHHHHHHHhcCCC
Confidence 48999999999999999999999543
No 224
>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated
Probab=23.62 E-value=1.5e+02 Score=21.88 Aligned_cols=24 Identities=8% Similarity=0.242 Sum_probs=18.8
Q ss_pred cEEEEE-ecCCCcHHHHHHHHHhhc
Q 041108 11 TLFYIQ-VENDATVADLKREIGAQQ 34 (102)
Q Consensus 11 ~~~~i~-v~~~~TV~dLK~~I~~~~ 34 (102)
+.|.++ +++.+||.+.-..|.+..
T Consensus 20 q~y~v~~~~~~~tvLd~L~~Ik~~~ 44 (250)
T PRK07570 20 ETYEVDDISPDMSFLEMLDVLNEQL 44 (250)
T ss_pred EEEEecCCCCCCcHHHHHHHHHHHh
Confidence 346677 678999999999997754
No 225
>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=23.43 E-value=2.1e+02 Score=18.24 Aligned_cols=38 Identities=11% Similarity=0.163 Sum_probs=28.0
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhcC-CCCccEEEE----eCCC
Q 041108 11 TLFYIQVENDATVADLKREIGAQQK-LPCDRLILL----LSSD 48 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~g-ip~~~q~L~----~~g~ 48 (102)
....+++.++.+..++++++.+... ++.++..|+ ++|.
T Consensus 29 ~i~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vivltDl~GGS 71 (116)
T TIGR00824 29 NVGAVPFVPGENAETLQEKYNAALADLDTEEEVLFLVDIFGGS 71 (116)
T ss_pred CeEEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCC
Confidence 3567889999999999999888754 555566554 4666
No 226
>PF14420 Clr5: Clr5 domain
Probab=22.96 E-value=99 Score=17.16 Aligned_cols=22 Identities=5% Similarity=0.238 Sum_probs=18.9
Q ss_pred cCCCcHHHHHHHHHhhcCCCCc
Q 041108 18 ENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 18 ~~~~TV~dLK~~I~~~~gip~~ 39 (102)
+...|+.++.+.+++..|+.++
T Consensus 18 ~e~~tl~~v~~~M~~~~~F~at 39 (54)
T PF14420_consen 18 DENKTLEEVMEIMKEEHGFKAT 39 (54)
T ss_pred hCCCcHHHHHHHHHHHhCCCcC
Confidence 4578999999999999998775
No 227
>PRK14692 lagellar hook-associated protein FlgL; Provisional
Probab=22.94 E-value=81 Score=27.26 Aligned_cols=34 Identities=26% Similarity=0.300 Sum_probs=27.3
Q ss_pred EeCCCcEE--EEEecCCCcHHHHHHHHHhhcCCCCc
Q 041108 6 EILTGTLF--YIQVENDATVADLKREIGAQQKLPCD 39 (102)
Q Consensus 6 ~~~~g~~~--~i~v~~~~TV~dLK~~I~~~~gip~~ 39 (102)
+-.+|+.| .+.+.++++|.||.++|..++|=.+.
T Consensus 257 ~kp~g~sf~~k~~~~~~~~v~dll~~ig~~ygnt~~ 292 (749)
T PRK14692 257 TKPDGTSFKSAVLVKPEDTLEDVMENIGALYGNTPN 292 (749)
T ss_pred eCCCCcchhhccccCCcchHHHHHHHHHHHhCCCCC
Confidence 34568776 48889999999999999999985444
No 228
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=22.48 E-value=1.8e+02 Score=21.26 Aligned_cols=24 Identities=13% Similarity=0.087 Sum_probs=20.5
Q ss_pred cEEEEEecCCCcHHHHHHHHHhhc
Q 041108 11 TLFYIQVENDATVADLKREIGAQQ 34 (102)
Q Consensus 11 ~~~~i~v~~~~TV~dLK~~I~~~~ 34 (102)
++|.+++++.+||.|+-..|.+..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~ 47 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQ 47 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcC
Confidence 457888889999999999999863
No 229
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=22.34 E-value=39 Score=22.69 Aligned_cols=56 Identities=14% Similarity=0.061 Sum_probs=34.2
Q ss_pred HHHHHHhhcCCCCccEEEEeCCCCCCCCccCCCCCccccCCCCCCCEEEEEeecCCCCCceeEEE
Q 041108 26 LKREIGAQQKLPCDRLILLLSSDHSCPMTQDHDEVPLADCGVKDGSHIYLFFKPLDDGSTQHSVF 90 (102)
Q Consensus 26 LK~~I~~~~gip~~~q~L~~~g~~~~~~~~L~d~~~L~~~gI~~~~~i~l~~~~~~~~~~~~~~~ 90 (102)
||.+|+..+ +.+-.|-|-|+ .-=|...|...||.++..+.+.-..-|..+..+.|.
T Consensus 5 l~aKiHrat---VT~A~L~Y~GS------itID~dlldaagile~EkV~I~N~nNGaRf~TYvI~ 60 (126)
T COG0853 5 LKAKIHRAT---VTEADLNYVGS------ITIDEDLLDAAGILENEKVDIVNVNNGARFSTYVIA 60 (126)
T ss_pred hhhheeeeE---EeecccceEEe------EEECHHHHhhcCCCCCceEEEEECCCCcEEEEEEEE
Confidence 444444433 33444667777 666677777778877777777765555555555544
No 230
>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=21.69 E-value=1e+02 Score=20.31 Aligned_cols=64 Identities=23% Similarity=0.142 Sum_probs=35.4
Q ss_pred EEEEEecCCCcHHHHHHHHHhhcCCCCc-------cEEEEeCCCCCCC--C----------ccCCCCCccccCCCCCCCE
Q 041108 12 LFYIQVENDATVADLKREIGAQQKLPCD-------RLILLLSSDHSCP--M----------TQDHDEVPLADCGVKDGSH 72 (102)
Q Consensus 12 ~~~i~v~~~~TV~dLK~~I~~~~gip~~-------~q~L~~~g~~~~~--~----------~~L~d~~~L~~~gI~~~~~ 72 (102)
...|=...++|+.||=..|.+. .++. ..+++|....++- + +--+|+++|++++...|+-
T Consensus 38 elqIYtW~d~TLrEL~~Lik~~--~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDy 115 (120)
T PF06487_consen 38 ELQIYTWMDATLRELADLIKDV--NPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDY 115 (120)
T ss_dssp EEEEEE-TT-BHHHHHHHHHHH---HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-E
T ss_pred eeEEEEcccCCHHHHHHHHHHh--CcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCE
Confidence 4556677789999998888773 1111 1344443311000 0 1238889999999999999
Q ss_pred EEEEe
Q 041108 73 IYLFF 77 (102)
Q Consensus 73 i~l~~ 77 (102)
|.+.+
T Consensus 116 idvaI 120 (120)
T PF06487_consen 116 IDVAI 120 (120)
T ss_dssp EEEEE
T ss_pred EEEeC
Confidence 87753
No 231
>PRK13605 endoribonuclease SymE; Provisional
Probab=21.60 E-value=1e+02 Score=20.34 Aligned_cols=41 Identities=17% Similarity=0.260 Sum_probs=26.7
Q ss_pred CEEEEEeCCCcEEEEEecCCCcHHHHHHHHHhhcCCCCccE
Q 041108 1 MKVAVEILTGTLFYIQVENDATVADLKREIGAQQKLPCDRL 41 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q 41 (102)
+.|.|+...|......-++.....+|.+.+.....+....|
T Consensus 56 ~~V~V~V~~G~LVIt~~~~~~~~~el~~~l~~v~~~s~~kq 96 (113)
T PRK13605 56 TAVDVRVMEGCIVLTAQPPAAEESELMQSLRQVCKLSARKQ 96 (113)
T ss_pred CeEEEEEeCCEEEEEeCCCCcccHHHHHHHHHHHHhhhHHH
Confidence 46788888888655555555557777777776665554443
No 232
>PF12480 DUF3699: Protein of unknown function (DUF3699) ; InterPro: IPR022168 This domain family is found in eukaryotes, and is approximately 80 amino acids in length.
Probab=21.57 E-value=1.8e+02 Score=17.57 Aligned_cols=19 Identities=26% Similarity=0.613 Sum_probs=15.8
Q ss_pred CEEEEEeCCCcEEEEEecC
Q 041108 1 MKVAVEILTGTLFYIQVEN 19 (102)
Q Consensus 1 M~v~V~~~~g~~~~i~v~~ 19 (102)
+++.+|..+|+.+.+++.+
T Consensus 27 ~~l~lk~~t~r~~yl~L~~ 45 (77)
T PF12480_consen 27 QQLKLKLVTGRPFYLQLCA 45 (77)
T ss_pred cEEEEEEccCCEEEEEEeC
Confidence 4678999999999998665
No 233
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=21.14 E-value=2.2e+02 Score=17.59 Aligned_cols=36 Identities=17% Similarity=0.211 Sum_probs=25.6
Q ss_pred CCcEEEEEecCCCcHHHHHHHHHhhcCCCCccEEEEeCC
Q 041108 9 TGTLFYIQVENDATVADLKREIGAQQKLPCDRLILLLSS 47 (102)
Q Consensus 9 ~g~~~~i~v~~~~TV~dLK~~I~~~~gip~~~q~L~~~g 47 (102)
.|+.+.++. ..+.++...+....|+.+....+.+.|
T Consensus 79 Cg~i~~~~~---~~~~~~~~~~~~~~gf~v~~~~~~~~G 114 (116)
T cd07153 79 CGKVIDFED---CPLEELLEELAAKTGFKITSHRLELYG 114 (116)
T ss_pred CCCEEEecC---ccHHHHHHHHHHHcCCEEeeeEEEEEE
Confidence 455555543 236778888888899998888887665
No 234
>KOG3260 consensus Calcyclin-binding protein CacyBP [Signal transduction mechanisms]
Probab=20.89 E-value=1.5e+02 Score=21.51 Aligned_cols=36 Identities=11% Similarity=0.101 Sum_probs=28.3
Q ss_pred cccCCC-CCCCEEEEEeecCCCCCceeEEEecCCcCC
Q 041108 62 LADCGV-KDGSHIYLFFKPLDDGSTQHSVFTIPEWLN 97 (102)
Q Consensus 62 L~~~gI-~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~ 97 (102)
+..||- +++..+.+++.+.|-.-.+.+|.++|.+|.
T Consensus 74 vt~ygWDQs~kfVK~yItL~GV~eenVqv~ftp~Sld 110 (224)
T KOG3260|consen 74 VTLYGWDQSNKFVKMYITLEGVDEENVQVEFTPMSLD 110 (224)
T ss_pred hhhcCccccCCeeEEEEEeecccccceeEEeccccee
Confidence 445766 678889999888776677889999999874
No 235
>PF13592 HTH_33: Winged helix-turn helix
Probab=20.69 E-value=1.1e+02 Score=17.18 Aligned_cols=22 Identities=9% Similarity=0.058 Sum_probs=18.2
Q ss_pred CCCcHHHHHHHHHhhcCCCCcc
Q 041108 19 NDATVADLKREIGAQQKLPCDR 40 (102)
Q Consensus 19 ~~~TV~dLK~~I~~~~gip~~~ 40 (102)
...|+.+|...|++++|+..+.
T Consensus 3 ~~wt~~~i~~~I~~~fgv~ys~ 24 (60)
T PF13592_consen 3 GRWTLKEIAAYIEEEFGVKYSP 24 (60)
T ss_pred CcccHHHHHHHHHHHHCCEEcH
Confidence 3578999999999999986554
No 236
>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=20.69 E-value=2.1e+02 Score=17.50 Aligned_cols=26 Identities=23% Similarity=0.180 Sum_probs=19.8
Q ss_pred EEEEEeCCCcEEEEEecCCCcHHHHH
Q 041108 2 KVAVEILTGTLFYIQVENDATVADLK 27 (102)
Q Consensus 2 ~v~V~~~~g~~~~i~v~~~~TV~dLK 27 (102)
+|++...+|....+++.+..|+.|.-
T Consensus 4 ~v~~~~~~~~~~~~~~~~g~tLLda~ 29 (97)
T TIGR02008 4 KVTLVNPDGGEETIECPDDQYILDAA 29 (97)
T ss_pred EEEEEECCCCEEEEEECCCCcHHHHH
Confidence 45555567878889999999988853
Done!