Query psy4259
Match_columns 203
No_of_seqs 253 out of 1470
Neff 7.5
Searched_HMMs 46136
Date Fri Aug 16 20:49:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4259.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4259hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0011|consensus 100.0 1.2E-41 2.6E-46 288.4 16.6 186 8-193 1-274 (340)
2 TIGR00601 rad23 UV excision re 100.0 1.1E-40 2.5E-45 293.6 19.6 184 8-191 1-304 (378)
3 KOG0010|consensus 99.9 2.8E-23 6.1E-28 184.7 12.1 75 6-83 14-89 (493)
4 cd01807 GDX_N ubiquitin-like d 99.8 1.7E-19 3.6E-24 124.9 8.3 71 8-80 1-72 (74)
5 PF09280 XPC-binding: XPC-bind 99.8 1.3E-19 2.7E-24 119.7 6.3 59 135-193 1-59 (59)
6 cd01805 RAD23_N Ubiquitin-like 99.8 4.2E-19 9.2E-24 123.3 8.8 74 8-83 1-77 (77)
7 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 3.7E-19 7.9E-24 123.0 7.6 70 8-79 2-72 (73)
8 cd01797 NIRF_N amino-terminal 99.8 8.2E-19 1.8E-23 122.8 8.0 72 8-81 1-75 (78)
9 cd01790 Herp_N Homocysteine-re 99.8 9.4E-19 2E-23 122.2 7.3 73 7-79 1-78 (79)
10 cd01804 midnolin_N Ubiquitin-l 99.8 2.3E-18 4.9E-23 120.5 8.2 72 7-81 1-73 (78)
11 cd01802 AN1_N ubiquitin-like d 99.8 3.1E-18 6.7E-23 125.9 8.8 76 4-81 24-100 (103)
12 cd01792 ISG15_repeat1 ISG15 ub 99.8 2.5E-18 5.3E-23 120.8 7.8 73 8-82 3-78 (80)
13 cd01793 Fubi Fubi ubiquitin-li 99.8 3E-18 6.6E-23 118.6 7.9 70 8-81 1-71 (74)
14 cd01794 DC_UbP_C dendritic cel 99.8 2.5E-18 5.4E-23 117.9 6.9 68 10-79 1-69 (70)
15 PTZ00044 ubiquitin; Provisiona 99.7 6.7E-18 1.4E-22 117.1 8.4 72 8-81 1-73 (76)
16 cd01798 parkin_N amino-termina 99.7 6.7E-18 1.5E-22 115.5 7.2 69 10-80 1-70 (70)
17 cd01810 ISG15_repeat2 ISG15 ub 99.7 9.8E-18 2.1E-22 116.0 7.5 70 10-81 1-71 (74)
18 cd01806 Nedd8 Nebb8-like ubiq 99.7 1.8E-17 3.9E-22 114.5 8.7 72 8-81 1-73 (76)
19 cd01809 Scythe_N Ubiquitin-lik 99.7 1.8E-17 3.8E-22 113.4 8.2 71 8-80 1-72 (72)
20 cd01803 Ubiquitin Ubiquitin. U 99.7 2.4E-17 5.1E-22 113.9 8.1 72 8-81 1-73 (76)
21 cd01808 hPLIC_N Ubiquitin-like 99.7 2.8E-17 6.1E-22 112.8 7.6 70 8-80 1-71 (71)
22 PF00240 ubiquitin: Ubiquitin 99.7 3E-17 6.6E-22 111.6 7.3 67 13-81 1-68 (69)
23 cd01813 UBP_N UBP ubiquitin pr 99.7 3.3E-17 7.2E-22 113.5 6.9 69 8-79 1-73 (74)
24 cd01796 DDI1_N DNA damage indu 99.7 1E-16 2.2E-21 110.2 6.7 66 10-77 1-69 (71)
25 cd01812 BAG1_N Ubiquitin-like 99.7 3E-16 6.5E-21 107.1 6.9 69 8-79 1-70 (71)
26 cd01800 SF3a120_C Ubiquitin-li 99.6 1.7E-15 3.7E-20 105.3 6.9 66 15-82 5-71 (76)
27 cd01814 NTGP5 Ubiquitin-like N 99.6 2.2E-15 4.9E-20 110.8 6.9 78 6-83 3-93 (113)
28 KOG0005|consensus 99.6 9.7E-16 2.1E-20 99.6 3.9 69 8-78 1-70 (70)
29 cd01815 BMSC_UbP_N Ubiquitin-l 99.6 4.3E-15 9.3E-20 102.6 5.0 58 22-79 15-74 (75)
30 smart00213 UBQ Ubiquitin homol 99.5 2.3E-14 4.9E-19 95.2 6.7 63 8-73 1-64 (64)
31 cd01763 Sumo Small ubiquitin-r 99.5 6.6E-14 1.4E-18 99.8 9.2 75 5-81 9-84 (87)
32 KOG0003|consensus 99.5 8.6E-15 1.9E-19 106.1 -0.1 73 8-82 1-74 (128)
33 cd01769 UBL Ubiquitin-like dom 99.4 4.8E-13 1E-17 90.0 7.0 67 11-79 1-68 (69)
34 KOG0004|consensus 99.4 9.8E-14 2.1E-18 107.0 3.7 73 8-82 1-74 (156)
35 cd01799 Hoil1_N Ubiquitin-like 99.4 5.5E-13 1.2E-17 92.6 7.0 67 10-79 5-74 (75)
36 PF11976 Rad60-SLD: Ubiquitin- 99.3 5.6E-12 1.2E-16 86.3 6.8 70 8-79 1-72 (72)
37 PF13881 Rad60-SLD_2: Ubiquiti 99.3 1.8E-11 3.9E-16 91.0 9.8 76 6-81 1-89 (111)
38 cd01795 USP48_C USP ubiquitin- 99.3 1.4E-11 3E-16 88.6 8.0 62 20-83 17-80 (107)
39 cd01789 Alp11_N Ubiquitin-like 99.2 2.2E-10 4.7E-15 81.2 9.1 72 8-81 2-82 (84)
40 KOG4248|consensus 99.0 3.8E-10 8.2E-15 108.3 6.3 70 8-80 3-73 (1143)
41 cd01801 Tsc13_N Ubiquitin-like 99.0 9.5E-10 2.1E-14 76.5 6.5 68 9-77 2-74 (77)
42 PLN02560 enoyl-CoA reductase 99.0 1.4E-09 3E-14 94.3 7.6 69 8-77 1-80 (308)
43 PF14560 Ubiquitin_2: Ubiquiti 98.9 4.3E-09 9.3E-14 74.8 7.9 73 8-82 2-85 (87)
44 KOG0001|consensus 98.9 1.4E-08 3.1E-13 67.8 8.6 70 10-81 2-72 (75)
45 cd01788 ElonginB Ubiquitin-lik 98.9 6.2E-09 1.3E-13 76.7 7.1 71 8-81 3-81 (119)
46 PF11543 UN_NPL4: Nuclear pore 98.7 3.4E-08 7.4E-13 69.3 5.5 71 5-77 2-77 (80)
47 cd00196 UBQ Ubiquitin-like pro 98.6 3.3E-07 7.3E-12 58.1 7.0 65 13-79 3-68 (69)
48 KOG1872|consensus 98.6 2.3E-07 5E-12 83.1 8.2 74 7-83 3-78 (473)
49 KOG0006|consensus 98.2 2.8E-06 6.2E-11 73.0 5.5 62 19-82 15-77 (446)
50 cd01811 OASL_repeat1 2'-5' oli 98.1 2.4E-05 5.1E-10 53.6 7.3 71 8-81 1-77 (80)
51 KOG3493|consensus 98.1 1.4E-06 3E-11 57.9 1.1 69 8-78 2-71 (73)
52 KOG4495|consensus 98.0 1.1E-05 2.3E-10 57.8 4.4 62 7-70 2-65 (110)
53 PF00789 UBX: UBX domain; Int 97.9 0.00015 3.2E-09 50.5 8.6 71 5-77 4-80 (82)
54 KOG1769|consensus 97.8 0.00014 3.1E-09 52.5 8.2 73 6-80 19-92 (99)
55 PF10302 DUF2407: DUF2407 ubiq 97.8 4.9E-05 1.1E-09 55.2 5.8 58 10-67 3-64 (97)
56 KOG0012|consensus 97.8 4.9E-05 1.1E-09 66.4 6.6 60 16-77 11-73 (380)
57 KOG4583|consensus 97.8 2.2E-06 4.8E-11 74.0 -2.1 82 5-86 7-93 (391)
58 smart00727 STI1 Heat shock cha 97.7 4.4E-05 9.5E-10 46.4 3.5 38 135-176 4-41 (41)
59 PF08817 YukD: WXG100 protein 97.7 0.00011 2.4E-09 51.2 5.5 70 8-77 3-78 (79)
60 smart00166 UBX Domain present 97.6 0.00044 9.6E-09 48.1 7.8 70 6-77 3-78 (80)
61 cd01770 p47_UBX p47-like ubiqu 97.5 0.00064 1.4E-08 47.5 7.2 66 7-73 4-73 (79)
62 cd01767 UBX UBX (ubiquitin reg 97.4 0.0012 2.5E-08 45.6 7.9 67 7-77 2-74 (77)
63 cd01772 SAKS1_UBX SAKS1-like U 97.4 0.0014 3E-08 45.7 7.7 68 7-77 4-77 (79)
64 COG5417 Uncharacterized small 97.3 0.0014 3E-08 44.9 7.1 70 8-77 7-80 (81)
65 cd01774 Faf1_like2_UBX Faf1 ik 97.3 0.0016 3.5E-08 46.1 7.9 70 5-77 2-82 (85)
66 KOG1639|consensus 97.2 0.00057 1.2E-08 57.2 5.3 69 8-77 1-76 (297)
67 KOG0013|consensus 97.1 0.0013 2.9E-08 53.6 5.6 65 16-82 155-222 (231)
68 cd01773 Faf1_like1_UBX Faf1 ik 97.0 0.0052 1.1E-07 43.2 7.6 69 7-78 5-79 (82)
69 cd01771 Faf1_UBX Faf1 UBX doma 96.7 0.013 2.8E-07 41.0 7.8 69 6-77 3-77 (80)
70 KOG3206|consensus 96.7 0.0069 1.5E-07 49.4 7.3 71 8-80 2-81 (234)
71 PF11470 TUG-UBL1: GLUT4 regul 96.7 0.007 1.5E-07 40.7 5.8 62 14-77 3-65 (65)
72 COG5227 SMT3 Ubiquitin-like pr 96.5 0.011 2.5E-07 42.0 6.3 69 8-78 25-94 (103)
73 PF15044 CLU_N: Mitochondrial 96.2 0.0089 1.9E-07 41.4 4.5 55 23-78 1-56 (76)
74 PF13019 Telomere_Sde2: Telome 95.8 0.059 1.3E-06 42.6 8.0 62 8-71 1-71 (162)
75 KOG0010|consensus 95.5 0.013 2.9E-07 53.4 3.5 47 135-190 159-205 (493)
76 PF14836 Ubiquitin_3: Ubiquiti 93.6 0.41 8.9E-06 34.1 6.7 62 17-81 13-81 (88)
77 PRK06437 hypothetical protein; 93.1 0.79 1.7E-05 30.7 7.3 52 16-78 9-61 (67)
78 PF09379 FERM_N: FERM N-termin 92.7 0.75 1.6E-05 31.2 6.9 65 12-78 1-75 (80)
79 PRK08364 sulfur carrier protei 92.6 1.1 2.3E-05 30.2 7.4 59 8-78 5-64 (70)
80 PF12754 Blt1: Cell-cycle cont 92.2 0.042 9.1E-07 47.6 0.0 60 7-68 78-158 (309)
81 KOG2086|consensus 91.7 0.39 8.5E-06 42.8 5.5 67 6-73 304-374 (380)
82 PLN02799 Molybdopterin synthas 91.5 0.78 1.7E-05 31.6 5.9 65 8-78 2-76 (82)
83 cd00754 MoaD Ubiquitin domain 91.4 1.1 2.4E-05 30.4 6.5 52 22-78 21-74 (80)
84 cd06406 PB1_P67 A PB1 domain i 91.1 0.9 1.9E-05 31.8 5.7 42 8-55 5-47 (80)
85 cd06409 PB1_MUG70 The MUG70 pr 90.7 0.82 1.8E-05 32.4 5.4 43 9-53 2-48 (86)
86 PF10209 DUF2340: Uncharacteri 89.7 1.2 2.5E-05 33.6 5.7 58 22-79 21-107 (122)
87 KOG2507|consensus 89.2 0.87 1.9E-05 41.3 5.5 77 5-83 312-394 (506)
88 PF11620 GABP-alpha: GA-bindin 88.8 1.2 2.5E-05 31.5 4.8 56 22-79 8-63 (88)
89 PF14453 ThiS-like: ThiS-like 88.2 4 8.6E-05 26.6 6.8 45 22-79 11-55 (57)
90 PF02597 ThiS: ThiS family; I 88.2 1.1 2.3E-05 30.1 4.3 58 19-78 13-71 (77)
91 KOG2561|consensus 87.9 0.15 3.2E-06 46.4 -0.2 57 22-80 55-111 (568)
92 smart00295 B41 Band 4.1 homolo 87.8 5.6 0.00012 31.4 9.1 71 6-78 2-81 (207)
93 COG5100 NPL4 Nuclear pore prot 87.5 2.8 6.1E-05 37.9 7.5 74 8-81 1-80 (571)
94 smart00666 PB1 PB1 domain. Pho 86.7 2.9 6.3E-05 28.4 5.9 45 8-55 2-47 (81)
95 PRK07440 hypothetical protein; 86.4 6.1 0.00013 26.6 7.2 62 6-78 3-64 (70)
96 KOG2982|consensus 85.5 1.8 4E-05 38.0 5.2 55 22-78 353-415 (418)
97 TIGR01682 moaD molybdopterin c 84.8 5.2 0.00011 27.3 6.4 57 17-78 14-74 (80)
98 PF11069 DUF2870: Protein of u 84.6 1.4 3.1E-05 31.8 3.5 33 50-82 3-36 (98)
99 TIGR01687 moaD_arch MoaD famil 84.2 5.5 0.00012 27.5 6.5 55 20-78 18-82 (88)
100 cd00565 ThiS ThiaminS ubiquiti 83.8 4.6 0.0001 26.5 5.6 50 22-78 10-59 (65)
101 PRK06488 sulfur carrier protei 83.7 7.1 0.00015 25.5 6.5 54 16-78 6-59 (65)
102 PF10407 Cytokin_check_N: Cdc1 82.8 4.1 8.8E-05 28.0 5.1 62 18-81 3-71 (73)
103 PRK05659 sulfur carrier protei 82.7 8.9 0.00019 25.0 6.7 55 16-78 6-60 (66)
104 PRK05863 sulfur carrier protei 82.6 7.5 0.00016 25.6 6.2 49 22-78 11-59 (65)
105 PF00564 PB1: PB1 domain; Int 82.5 5.8 0.00013 26.9 5.9 46 8-55 2-48 (84)
106 smart00727 STI1 Heat shock cha 82.5 1.5 3.4E-05 26.0 2.6 25 154-180 10-35 (41)
107 TIGR02958 sec_mycoba_snm4 secr 82.2 9.9 0.00022 34.9 8.9 71 8-79 3-79 (452)
108 PF10790 DUF2604: Protein of U 82.1 7.2 0.00016 26.1 5.8 66 16-81 4-72 (76)
109 PF08337 Plexin_cytopl: Plexin 81.4 3.2 7E-05 38.9 5.5 75 7-81 189-290 (539)
110 cd06407 PB1_NLP A PB1 domain i 80.3 7.2 0.00016 27.2 5.7 62 16-79 8-80 (82)
111 cd06408 PB1_NoxR The PB1 domai 80.2 8.9 0.00019 27.1 6.2 45 8-56 3-48 (86)
112 KOG1364|consensus 80.0 2.3 5.1E-05 37.5 3.8 65 9-74 279-349 (356)
113 TIGR01683 thiS thiamine biosyn 78.2 8.9 0.00019 25.0 5.5 50 22-78 9-58 (64)
114 KOG2689|consensus 77.1 6.4 0.00014 33.7 5.5 69 6-77 209-284 (290)
115 PRK06083 sulfur carrier protei 76.6 16 0.00034 25.6 6.6 56 16-79 24-79 (84)
116 PRK08053 sulfur carrier protei 76.4 19 0.00041 23.7 7.1 50 22-78 11-60 (66)
117 PF02017 CIDE-N: CIDE-N domain 76.3 10 0.00022 26.4 5.4 66 10-81 5-72 (78)
118 smart00455 RBD Raf-like Ras-bi 75.6 9.1 0.0002 25.8 5.0 48 10-59 2-52 (70)
119 cd05992 PB1 The PB1 domain is 74.7 12 0.00025 25.2 5.5 44 9-55 2-47 (81)
120 PF14451 Ub-Mut7C: Mut7-C ubiq 74.7 15 0.00031 25.6 6.0 51 17-78 22-74 (81)
121 PTZ00380 microtubule-associate 74.6 7.1 0.00015 29.4 4.6 74 6-81 26-106 (121)
122 cd01611 GABARAP Ubiquitin doma 74.1 11 0.00023 28.0 5.5 58 22-81 46-107 (112)
123 TIGR00601 rad23 UV excision re 73.6 3.3 7.3E-05 37.2 3.1 36 138-178 264-302 (378)
124 KOG4147|consensus 73.4 7.7 0.00017 28.7 4.4 58 22-79 28-112 (127)
125 PRK06944 sulfur carrier protei 72.8 23 0.00049 22.9 7.4 49 22-78 11-59 (65)
126 KOG4250|consensus 71.8 8.4 0.00018 37.2 5.4 43 14-58 321-364 (732)
127 PRK07696 sulfur carrier protei 70.9 27 0.00059 23.1 6.7 56 16-79 6-62 (67)
128 PF00627 UBA: UBA/TS-N domain; 70.6 1.6 3.4E-05 25.5 0.3 15 110-124 3-17 (37)
129 PF14327 CSTF2_hinge: Hinge do 70.4 3.8 8.2E-05 28.7 2.2 31 144-178 35-65 (84)
130 cd01760 RBD Ubiquitin-like dom 70.1 13 0.00029 25.3 4.8 44 10-55 2-46 (72)
131 PF08783 DWNN: DWNN domain; I 70.0 17 0.00037 24.9 5.3 32 10-41 1-35 (74)
132 cd00194 UBA Ubiquitin Associat 68.2 2.4 5.1E-05 24.6 0.7 14 111-124 3-16 (38)
133 cd06411 PB1_p51 The PB1 domain 67.9 17 0.00036 25.3 4.9 34 19-54 8-42 (78)
134 PF14732 UAE_UbL: Ubiquitin/SU 67.6 7.1 0.00015 27.5 3.2 52 25-78 7-67 (87)
135 PF09280 XPC-binding: XPC-bind 67.5 2.2 4.7E-05 28.0 0.4 6 152-157 33-38 (59)
136 KOG3391|consensus 67.3 5.9 0.00013 30.5 2.8 30 56-85 112-141 (151)
137 smart00165 UBA Ubiquitin assoc 66.0 2.8 6E-05 24.1 0.7 14 111-124 3-16 (37)
138 PRK11840 bifunctional sulfur c 65.6 27 0.0006 30.7 7.0 51 22-79 11-61 (326)
139 PF02196 RBD: Raf-like Ras-bin 65.0 35 0.00075 22.9 6.0 54 10-65 3-59 (71)
140 PF02991 Atg8: Autophagy prote 63.9 19 0.00041 26.3 4.9 58 22-81 38-99 (104)
141 PF03671 Ufm1: Ubiquitin fold 63.5 34 0.00075 23.4 5.6 55 22-78 21-76 (76)
142 PF11333 DUF3135: Protein of u 63.2 11 0.00024 26.4 3.4 25 140-164 2-26 (83)
143 COG2104 ThiS Sulfur transfer p 62.7 44 0.00095 22.4 6.8 50 22-78 13-62 (68)
144 PF02505 MCR_D: Methyl-coenzym 61.5 17 0.00036 28.5 4.4 53 7-67 67-120 (153)
145 PF08825 E2_bind: E2 binding d 60.8 12 0.00025 26.3 3.2 55 22-77 2-68 (84)
146 PF14533 USP7_C2: Ubiquitin-sp 59.7 58 0.0013 26.6 7.7 58 8-67 21-90 (213)
147 smart00266 CAD Domains present 58.5 26 0.00056 24.1 4.4 38 26-65 18-57 (74)
148 TIGR03260 met_CoM_red_D methyl 58.3 20 0.00044 27.9 4.3 53 7-67 66-118 (150)
149 cd06539 CIDE_N_A CIDE_N domain 56.2 66 0.0014 22.3 6.3 63 10-77 5-69 (78)
150 cd01615 CIDE_N CIDE_N domain, 55.9 27 0.00058 24.3 4.2 37 27-65 21-59 (78)
151 smart00144 PI3K_rbd PI3-kinase 55.6 77 0.0017 23.0 7.7 76 6-81 16-105 (108)
152 KOG0007|consensus 55.0 5.5 0.00012 35.1 0.9 48 15-64 290-339 (341)
153 cd06396 PB1_NBR1 The PB1 domai 55.0 47 0.001 23.2 5.4 28 16-45 8-38 (81)
154 PF14483 Cut8_M: Cut8 dimerisa 54.6 8.8 0.00019 22.8 1.4 25 154-178 11-35 (38)
155 KOG3439|consensus 53.2 48 0.001 24.6 5.3 51 7-59 30-85 (116)
156 cd01612 APG12_C Ubiquitin-like 51.2 83 0.0018 22.1 7.1 58 22-81 21-82 (87)
157 cd06410 PB1_UP2 Uncharacterize 49.6 54 0.0012 23.6 5.2 39 12-53 17-56 (97)
158 cd06398 PB1_Joka2 The PB1 doma 49.5 47 0.001 23.6 4.8 54 25-80 23-87 (91)
159 PF07862 Nif11: Nitrogen fixat 49.4 43 0.00093 20.5 4.1 27 160-187 8-36 (49)
160 cd01787 GRB7_RA RA (RAS-associ 48.7 57 0.0012 23.0 5.0 67 8-76 3-81 (85)
161 PF07319 DnaI_N: Primosomal pr 48.3 19 0.00042 25.5 2.7 51 135-189 8-63 (94)
162 cd06537 CIDE_N_B CIDE_N domain 48.3 93 0.002 21.8 6.1 63 10-77 5-68 (81)
163 PF00794 PI3K_rbd: PI3-kinase 47.8 99 0.0021 22.1 6.5 75 6-80 15-102 (106)
164 PF12436 USP7_ICP0_bdg: ICP0-b 47.4 31 0.00066 29.0 4.2 71 7-79 68-151 (249)
165 cd06536 CIDE_N_ICAD CIDE_N dom 47.3 43 0.00093 23.4 4.2 53 10-65 5-61 (80)
166 PRK11130 moaD molybdopterin sy 45.5 94 0.002 21.0 6.0 48 26-78 25-75 (81)
167 cd06538 CIDE_N_FSP27 CIDE_N do 43.7 54 0.0012 22.8 4.2 50 26-80 20-70 (79)
168 KOG4248|consensus 43.6 17 0.00037 36.7 2.3 71 13-85 330-401 (1143)
169 KOG2660|consensus 43.5 20 0.00042 31.6 2.4 50 18-67 165-214 (331)
170 cd01766 Ufm1 Urm1-like ubiquit 42.9 1.1E+02 0.0024 21.1 6.4 57 22-80 21-78 (82)
171 KOG0011|consensus 42.7 21 0.00045 31.5 2.5 40 135-178 225-270 (340)
172 KOG4361|consensus 42.3 13 0.00029 32.9 1.3 56 22-79 76-137 (344)
173 PF11212 DUF2999: Protein of u 42.2 26 0.00056 24.0 2.3 25 143-167 45-69 (82)
174 cd02667 Peptidase_C19K A subfa 41.8 32 0.00069 29.0 3.5 49 135-189 15-63 (279)
175 PF06234 TmoB: Toluene-4-monoo 41.7 1.2E+02 0.0027 21.3 7.4 59 22-80 20-84 (85)
176 PF09288 UBA_3: Fungal ubiquit 41.0 7.1 0.00015 25.3 -0.5 15 110-124 10-24 (55)
177 PF12436 USP7_ICP0_bdg: ICP0-b 41.0 67 0.0015 26.9 5.3 44 7-52 176-223 (249)
178 PF00788 RA: Ras association ( 40.4 1.1E+02 0.0025 20.5 7.1 52 10-63 5-69 (93)
179 cd01777 SNX27_RA Ubiquitin dom 40.4 59 0.0013 23.1 4.1 41 8-50 2-43 (87)
180 PF12053 DUF3534: Domain of un 39.5 27 0.00058 27.2 2.4 73 8-81 1-81 (145)
181 cd07922 CarBa CarBa is the A s 39.1 62 0.0013 22.6 4.0 11 147-157 19-29 (81)
182 PF00276 Ribosomal_L23: Riboso 38.1 68 0.0015 22.6 4.2 40 18-59 21-62 (91)
183 cd01768 RA RA (Ras-associating 37.4 1.3E+02 0.0028 20.3 7.8 44 17-62 12-64 (87)
184 PF11816 DUF3337: Domain of un 37.1 87 0.0019 27.4 5.6 57 26-82 257-329 (331)
185 PF03607 DCX: Doublecortin; I 34.7 83 0.0018 20.2 3.9 45 26-78 8-54 (60)
186 PF06487 SAP18: Sin3 associate 34.3 55 0.0012 24.6 3.3 55 24-78 44-119 (120)
187 PF11834 DUF3354: Domain of un 34.0 65 0.0014 21.7 3.4 43 27-77 26-68 (69)
188 KOG4146|consensus 33.1 1.9E+02 0.0041 20.9 8.2 73 5-80 2-97 (101)
189 COG4055 McrD Methyl coenzyme M 32.6 1.1E+02 0.0024 24.0 4.7 53 7-67 75-128 (165)
190 PF09494 Slx4: Slx4 endonuclea 32.4 30 0.00066 22.7 1.5 19 144-162 2-20 (64)
191 PRK05738 rplW 50S ribosomal pr 31.9 1.1E+02 0.0023 21.7 4.4 40 17-58 20-61 (92)
192 PF05591 DUF770: Protein of un 31.5 48 0.001 26.1 2.7 24 140-163 130-153 (157)
193 PF09469 Cobl: Cordon-bleu ubi 30.9 33 0.00071 23.8 1.5 43 35-82 2-47 (79)
194 PF14847 Ras_bdg_2: Ras-bindin 30.4 1.1E+02 0.0024 22.3 4.3 35 10-46 3-38 (105)
195 cd01764 Urm1 Urm1-like ubuitin 29.3 1.8E+02 0.004 20.5 5.3 53 22-78 24-88 (94)
196 PF14003 YlbE: YlbE-like prote 28.9 46 0.001 22.3 1.9 10 171-180 3-12 (65)
197 COG1391 GlnE Glutamine synthet 28.8 70 0.0015 32.2 3.9 42 145-187 553-594 (963)
198 PF02824 TGS: TGS domain; Int 28.6 1.6E+02 0.0035 18.8 5.3 59 10-78 1-59 (60)
199 PF14551 MCM_N: MCM N-terminal 28.5 17 0.00038 26.1 -0.2 44 145-188 20-63 (121)
200 cd01817 RGS12_RBD Ubiquitin do 28.2 2E+02 0.0043 19.7 5.0 46 12-59 4-52 (73)
201 PF09030 Creb_binding: Creb bi 27.1 43 0.00094 24.5 1.6 21 144-164 72-92 (104)
202 COG0089 RplW Ribosomal protein 25.4 1.4E+02 0.0031 21.4 4.1 60 16-77 20-90 (94)
203 cd06397 PB1_UP1 Uncharacterize 24.9 2.5E+02 0.0054 19.7 5.2 42 10-54 3-45 (82)
204 KOG4598|consensus 24.6 1.4E+02 0.003 29.5 4.9 57 22-82 882-944 (1203)
205 PF14533 USP7_C2: Ubiquitin-sp 24.5 55 0.0012 26.8 2.0 49 17-67 132-193 (213)
206 cd01818 TIAM1_RBD Ubiquitin do 24.2 2.4E+02 0.0053 19.5 4.8 40 11-52 3-43 (77)
207 PF12552 DUF3741: Protein of u 24.1 1.1E+02 0.0024 19.0 2.8 19 173-191 27-45 (46)
208 PF04126 Cyclophil_like: Cyclo 23.8 53 0.0011 24.4 1.7 28 8-36 1-29 (120)
209 KOG4572|consensus 23.6 1.2E+02 0.0026 30.4 4.3 63 17-81 4-71 (1424)
210 TIGR03358 VI_chp_5 type VI sec 23.2 73 0.0016 25.1 2.4 26 140-165 131-156 (159)
211 PRK05841 flgE flagellar hook p 23.2 86 0.0019 30.1 3.3 36 6-41 247-292 (603)
212 PF02192 PI3K_p85B: PI3-kinase 23.1 83 0.0018 21.7 2.4 20 22-41 5-24 (78)
213 PF09014 Sushi_2: Beta-2-glyco 22.7 73 0.0016 22.5 2.0 39 44-83 6-44 (85)
214 PF09269 DUF1967: Domain of un 21.6 49 0.0011 22.1 1.0 16 62-77 47-62 (69)
215 cd01782 AF6_RA_repeat1 Ubiquit 21.5 2.6E+02 0.0056 20.7 4.8 34 8-41 24-60 (112)
216 PF03931 Skp1_POZ: Skp1 family 21.4 68 0.0015 20.6 1.7 31 8-38 1-32 (62)
217 KOG3321|consensus 21.4 1.7E+02 0.0037 23.3 4.1 45 147-191 116-173 (175)
218 KOG4842|consensus 21.3 20 0.00042 30.6 -1.2 39 15-55 10-49 (278)
219 PF05524 PEP-utilisers_N: PEP- 21.3 76 0.0017 23.2 2.1 45 147-192 72-116 (123)
220 TIGR03595 Obg_CgtA_exten Obg f 21.1 36 0.00077 22.8 0.2 16 62-77 47-62 (69)
221 COG3516 Predicted component of 21.0 91 0.002 24.8 2.5 27 139-165 135-161 (169)
No 1
>KOG0011|consensus
Probab=100.00 E-value=1.2e-41 Score=288.40 Aligned_cols=186 Identities=46% Similarity=0.745 Sum_probs=153.2
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCCCCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPKPTP 86 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~~~~ 86 (203)
|+|+||+++|.+|+ ++.+++||.++|++|+...|.++|++.|||||+||+|+|+.|+.+|+|+++++|+||++|++.++
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k~~~ 80 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDKSAS 80 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecCcccc
Confidence 78999999999999 99999999999999999999889999999999999999999999999999999999999987222
Q ss_pred C---CCCCCCC--------CCC-CCCCCC--CCCC------------------CchhhHHHHHhCCcCCC----------
Q psy4259 87 A---PYSGPSD--------PTQ-PAGQES--EATR------------------PATATSDSMLKVFFERV---------- 124 (203)
Q Consensus 87 ~---p~~~~~~--------p~~-~p~~~~--~~~~------------------~~~~~v~~~~~mG~~~~---------- 124 (203)
+ |.+++.. |+. .....+ +++. ..+.+|.+||+|||+|+
T Consensus 81 t~~ap~s~~~~~~p~~~~ap~~s~a~~~s~~~~~~~~~~~~~~~aas~Lv~G~~~e~~V~~Im~MGy~re~V~~AlRAaf 160 (340)
T KOG0011|consen 81 TQVAPQSSAATHLPKAAEAPPSSAAEDASPATPAQTSQEDTYEIAASTLVVGSEYEQTVQQIMEMGYDREEVERALRAAF 160 (340)
T ss_pred cCCCCCCccccCCCccCCCCCccccccCCCCccccccccchhhhhhhhhhccchhHHHHHHHHHhCccHHHHHHHHHHhh
Confidence 2 1111100 100 000000 0000 11679999999999998
Q ss_pred -CCC--------------------------CC------------------CCCChHHHhhCCHHHHHHHHHHHhCCCcHH
Q psy4259 125 -NPY--------------------------GG------------------ESEDPLAFLRTQPQFQQMRTVVQQNPELLP 159 (203)
Q Consensus 125 -np~--------------------------~~------------------~~~~pl~~l~~~P~~~~~r~~i~~nP~~l~ 159 (203)
||+ +. .+.+|+++||++|+|++||++|++||++|+
T Consensus 161 NNPeRAVEYLl~GIP~~~~~~~~~~~~~~~~~~p~~~~p~~~~~~~~~~~~~~~~l~fLr~~~qf~~lR~~iqqNP~ll~ 240 (340)
T KOG0011|consen 161 NNPERAVEYLLNGIPEDAEVPEPEKSTAAAAELPANAQPLDLFPQGAVEASGGDPLEFLRNQPQFQQLRQMIQQNPELLH 240 (340)
T ss_pred CChhhhHHHHhcCCcccccCCcccCCcccCCCCCCCCChhhcCCccchhhhcCCchhhhhccHHHHHHHHHHhhCHHHHH
Confidence 440 01 134679999999999999999999999999
Q ss_pred HHHHHHhhcCHHHHHHHhhCHHHHHHHHcCCccc
Q psy4259 160 TVLQQIGQSNPALLELISHNQEAFVRMLNEPVAG 193 (203)
Q Consensus 160 ~il~~l~~~nP~l~~~i~~n~~~f~~ml~~p~~~ 193 (203)
.+||+|++.||+|+++|++||++|++||++|.++
T Consensus 241 ~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~~~ 274 (340)
T KOG0011|consen 241 PLLQQLGKQNPQLLQLIQENQEAFLQLLNEPVEG 274 (340)
T ss_pred HHHHHHhhhCHHHHHHHHHHHHHHHHHhhccccc
Confidence 9999999999999999999999999999999886
No 2
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.1e-40 Score=293.62 Aligned_cols=184 Identities=47% Similarity=0.764 Sum_probs=147.3
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCC-CCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCCCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSE-YLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPKPT 85 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~-ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~~~ 85 (203)
|+|+||+++|++|. +|++++||.+||++|+...|++ +++++|||||+||+|+|+++|++|+|+++++|+||++|++..
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~k~~ 80 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKPKTG 80 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccCCCC
Confidence 79999999999999 9999999999999999998733 899999999999999999999999999999999999887652
Q ss_pred CC--------C----CCCCCC---C--------CCCC---------CCCCC--------CC-----CCc-------hhhH
Q psy4259 86 PA--------P----YSGPSD---P--------TQPA---------GQESE--------AT-----RPA-------TATS 113 (203)
Q Consensus 86 ~~--------p----~~~~~~---p--------~~~p---------~~~~~--------~~-----~~~-------~~~v 113 (203)
++ | +++++. | ++++ ++.++ +. .++ +..|
T Consensus 81 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~~g~~~e~~I 160 (378)
T TIGR00601 81 TGKSAPPAATPTSAPTPTPSPPASPASGMSAAPASAVEEKSPSEESATATAPESPSTSVPSSGSDAASTLVVGSERETTI 160 (378)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCccccccCCCcccccccchHHHHHH
Confidence 11 0 000000 0 0000 00000 00 011 5799
Q ss_pred HHHHhCCcCCC-----------CC-----------C-----------C----------C-C-------------------
Q psy4259 114 DSMLKVFFERV-----------NP-----------Y-----------G----------G-E------------------- 130 (203)
Q Consensus 114 ~~~~~mG~~~~-----------np-----------~-----------~----------~-~------------------- 130 (203)
++||+|||+|+ || . . . .
T Consensus 161 ~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~lf~~a~~~~~~~~~~~ 240 (378)
T TIGR00601 161 EEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEPVQQTAASTAAATTETPQHGSVFEQAAQGGTEQPATE 240 (378)
T ss_pred HHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCCccccccccCCCcccccccccCCCCCCcchhhhhhcccccccccc
Confidence 99999999998 44 0 0 0 0
Q ss_pred ---CCChHHHhhCCHHHHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHcCCc
Q psy4259 131 ---SEDPLAFLRTQPQFQQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLNEPV 191 (203)
Q Consensus 131 ---~~~pl~~l~~~P~~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~~p~ 191 (203)
+.++|++||++|+|++||++|++||++|++|||+|+++||+|+++|++||++|++||++|.
T Consensus 241 ~~~g~~~l~~Lr~~pqf~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~ 304 (378)
T TIGR00601 241 AAQGGNPLEFLRNQPQFQQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEPV 304 (378)
T ss_pred cccCCchHHHhhcCHHHHHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcc
Confidence 1236899999999999999999999999999999999999999999999999999999985
No 3
>KOG0010|consensus
Probab=99.90 E-value=2.8e-23 Score=184.71 Aligned_cols=75 Identities=27% Similarity=0.379 Sum_probs=69.9
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCC
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPK 83 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~ 83 (203)
..++|+||+.++ ++. .|..+.||.+||++|...++ +++++++|||+||+|+|++||..|||+||+|||+|++...
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~--a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~ 89 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFG--APPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQP 89 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcC--CChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCC
Confidence 469999999998 677 99999999999999999999 9999999999999999999999999999999999876543
No 4
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=99.80 E-value=1.7e-19 Score=124.85 Aligned_cols=71 Identities=24% Similarity=0.352 Sum_probs=69.0
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
|+|+||+.+|+++. +|++++||++||++|+++.| +++++|+|+|+||.|+|+.+|++|||+++++|+++++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~g--i~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLN--VPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC--CCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 78999999999999 99999999999999999999 9999999999999999999999999999999999875
No 5
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=99.80 E-value=1.3e-19 Score=119.74 Aligned_cols=59 Identities=66% Similarity=1.103 Sum_probs=54.3
Q ss_pred HHHhhCCHHHHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHcCCccc
Q psy4259 135 LAFLRTQPQFQQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLNEPVAG 193 (203)
Q Consensus 135 l~~l~~~P~~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~~p~~~ 193 (203)
|++|+++|+|++||++|++||++|+.+|++|+++||+|+++|++||++|++||++|.+|
T Consensus 1 L~~Lr~~Pqf~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~~ 59 (59)
T PF09280_consen 1 LEFLRNNPQFQQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEFLRLLNEPAEG 59 (59)
T ss_dssp CGGGTTSHHHHHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHHHHHHHSTS--
T ss_pred ChHHHcChHHHHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHHHHHHcCCCCC
Confidence 46899999999999999999999999999999999999999999999999999998764
No 6
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=99.79 E-value=4.2e-19 Score=123.34 Aligned_cols=74 Identities=53% Similarity=0.750 Sum_probs=71.2
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCC--CCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEY--LAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPK 83 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~i--p~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~ 83 (203)
|+|+||+..|+.+. +|++++||.+||++|+..+| + ++++|+|+|+|+.|+|+.+|++|||++|++|++++++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~--i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~~ 77 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG--CDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKPK 77 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC--CCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecCC
Confidence 78999999999999 99999999999999999999 8 999999999999999999999999999999999998864
No 7
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.79 E-value=3.7e-19 Score=123.01 Aligned_cols=70 Identities=19% Similarity=0.264 Sum_probs=67.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
|+|+||+..|+.+. +|++++||++||++|++..| +++++|||+|+|++|+|+++|++|||++|++||+..
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~--~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG--TRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC--CChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 78999999999999 99999999999999999999 999999999999999999999999999999999853
No 8
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=99.78 E-value=8.2e-19 Score=122.79 Aligned_cols=72 Identities=25% Similarity=0.352 Sum_probs=68.1
Q ss_pred eEEEEEeCCCCe-ee-e-cCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQT-VS-H-LDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~-~~-~-v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+|+||+..|++ +. + +++++||++||++|++..| +|+++|||+|+||.|+|+.+|++|||+++++|+++++.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g--i~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~ 75 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN--VEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQ 75 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC--CCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence 799999999997 66 5 8999999999999999999 99999999999999999999999999999999998864
No 9
>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=99.77 E-value=9.4e-19 Score=122.23 Aligned_cols=73 Identities=23% Similarity=0.276 Sum_probs=65.3
Q ss_pred ceEEEEEeCCCCeee---ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccc--cCCCCEEEEEe
Q psy4259 7 DISDITQNQWQQTVS---HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYN--IDESKFIVVML 79 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~---~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~g--I~~~~~i~v~~ 79 (203)
.+.|+||+.+|++++ ++++++||++||++|+...+..+++++|||||+||+|+|+.||++|+ +.++.+||+++
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 478999999999955 66899999999999999874325689999999999999999999996 99999999986
No 10
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.76 E-value=2.3e-18 Score=120.51 Aligned_cols=72 Identities=14% Similarity=0.142 Sum_probs=68.5
Q ss_pred ceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 7 DISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
.|+|+||+..|+.+. +|+++.||++||++|+++.+ +++++|||+|+||+|+|+ +|++|||++|++|+++..-
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~--~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK--VPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC--CChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence 489999999999999 99999999999999999999 999999999999999999 9999999999999998643
No 11
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.76 E-value=3.1e-18 Score=125.90 Aligned_cols=76 Identities=24% Similarity=0.293 Sum_probs=72.3
Q ss_pred CCcceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 4 LAHDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 4 ~~~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
.++.|+|+||+..|+++. +|++++||.+||++|+...| +|+++|||+|+|+.|+|+.+|++|+|+++++|+++++-
T Consensus 24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g--ip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l 100 (103)
T cd01802 24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEG--IPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAM 100 (103)
T ss_pred cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC--CChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEec
Confidence 356799999999999999 99999999999999999999 99999999999999999999999999999999998764
No 12
>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=99.76 E-value=2.5e-18 Score=120.82 Aligned_cols=73 Identities=16% Similarity=0.155 Sum_probs=70.3
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEE--EeCCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKL--IYAGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkL--i~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
|+|+||+..|+.+. +++++.||.+||++|+...+ +++++||| +|+|++|+|+++|++|||++|++|+++++|-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~--i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~ 78 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG--VPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC 78 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC--CCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence 89999999999999 99999999999999999999 99999999 9999999999999999999999999998763
No 13
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.76 E-value=3e-18 Score=118.55 Aligned_cols=70 Identities=26% Similarity=0.281 Sum_probs=66.0
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+|+||+ +++++ +|++++||++||.+|++..| +|+++|+|+|+||.|+|+++|++|+|+++++||++++-
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l 71 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEG--IDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRL 71 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhC--CCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence 7899997 47888 99999999999999999999 99999999999999999999999999999999998753
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=99.75 E-value=2.5e-18 Score=117.92 Aligned_cols=68 Identities=24% Similarity=0.367 Sum_probs=65.7
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
++||...|+++. +|++++||.+||.+|++..| +|+++|+|+|+|++|+|+.+|++|+|+++++|||++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g--i~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG--VDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhC--CCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 478999999999 99999999999999999999 999999999999999999999999999999999986
No 15
>PTZ00044 ubiquitin; Provisional
Probab=99.75 E-value=6.7e-18 Score=117.08 Aligned_cols=72 Identities=26% Similarity=0.398 Sum_probs=69.7
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+|+||+.+|+++. +|++++||++||++|+...| +|++.|||+|+|+.|+|+.+|++|+++++++||++++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g--i~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~ 73 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG--IDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQL 73 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC--CCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEc
Confidence 78999999999999 99999999999999999999 99999999999999999999999999999999998864
No 16
>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=99.74 E-value=6.7e-18 Score=115.50 Aligned_cols=69 Identities=20% Similarity=0.375 Sum_probs=66.1
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
|+||+..|+.+. +|++++||++||++|+++.| +|+++|+|+|+|+.|+|+.+|++|||+++++||++.+
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~g--i~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQG--VPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHC--CCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 579999999999 99999999999999999999 9999999999999999999999999999999998753
No 17
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.73 E-value=9.8e-18 Score=115.98 Aligned_cols=70 Identities=17% Similarity=0.307 Sum_probs=67.1
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+||++.|+++. +|++++||.+||++|+...| +|+++|+|+|+|+.|+|+++|++|||+++++|+++.+-
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l 71 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER--VQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRL 71 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC--CCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEc
Confidence 689999999999 99999999999999999999 99999999999999999999999999999999998753
No 18
>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=99.73 E-value=1.8e-17 Score=114.48 Aligned_cols=72 Identities=19% Similarity=0.473 Sum_probs=69.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+|+||+.+|+.+. +|++++||.+||++|+...| +|+++|+|+|+|+.|.|+++|++|++++|++||++++.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g--~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~ 73 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG--IPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLAL 73 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC--CChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEc
Confidence 78999999999999 99999999999999999999 99999999999999999999999999999999998864
No 19
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.73 E-value=1.8e-17 Score=113.40 Aligned_cols=71 Identities=35% Similarity=0.501 Sum_probs=68.2
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
|+|+||+.+|+.+. ++++++||.+||++|+..+| +++++|+|+|+|+.|+|+.+|++||+++|++||++.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g--i~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG--IPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC--cCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 78999999999999 99999999999999999999 9999999999999999999999999999999998753
No 20
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.72 E-value=2.4e-17 Score=113.91 Aligned_cols=72 Identities=28% Similarity=0.503 Sum_probs=69.4
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+|+||+.+|+.+. +|++++||++||++|+..+| +|+++|+|+|+|+.|+|+.+|++||+++|++|+++++-
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g--~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~ 73 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhC--CCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEc
Confidence 78999999999999 99999999999999999999 99999999999999999999999999999999998763
No 21
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.71 E-value=2.8e-17 Score=112.77 Aligned_cols=70 Identities=24% Similarity=0.335 Sum_probs=65.9
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
++|+||+..|+ +. ++++++||++||++|++..| +++++|+|+|+|+.|+|+++|++||+++|++||++++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~--i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK--ANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC--CCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 57999999997 58 99999999999999999999 9999999999999999999999999999999998763
No 22
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.71 E-value=3e-17 Score=111.55 Aligned_cols=67 Identities=36% Similarity=0.568 Sum_probs=63.8
Q ss_pred EeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 13 QNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 13 k~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|+.+|+.|. +|++++||.+||++|+..++ +|++.|+|+|+|+.|+|+.+|++|||++|++|+++++.
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~--~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETG--IPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHT--STGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccc--cccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence 678999999 99999999999999999999 99999999999999999999999999999999988754
No 23
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.70 E-value=3.3e-17 Score=113.52 Aligned_cols=69 Identities=29% Similarity=0.286 Sum_probs=65.7
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe---CCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY---AGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~---~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
|+|+|| +.|+.|. +|++++||++||++|++.++ +|+++|||+| +|+.|+|+.+|++|+|++|++|++|.
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tg--vp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTG--VLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHC--CCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 578899 7899999 99999999999999999999 9999999997 99999999999999999999999986
No 24
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.68 E-value=1e-16 Score=110.18 Aligned_cols=66 Identities=27% Similarity=0.432 Sum_probs=62.9
Q ss_pred EEEEeC-CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCC-CCccccccCCCCEEEE
Q psy4259 10 DITQNQ-WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDD-QALSEYNIDESKFIVV 77 (203)
Q Consensus 10 I~Vk~~-~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~-~tL~~~gI~~~~~i~v 77 (203)
|+||+. .|+++. +|++++||++||.+|+...| +|+++|+|+|+||.|+|+ .+|++|||++|++||+
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG--IPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC--CCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence 578999 899999 99999999999999999999 999999999999999998 6899999999999986
No 25
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.65 E-value=3e-16 Score=107.14 Aligned_cols=69 Identities=19% Similarity=0.272 Sum_probs=65.4
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
|+|+||+. |+.+. ++++++||.+||++|+..+| +++++|||+|+|+.|.|+++|++|||++|++|++++
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~g--i~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTG--VEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhC--CChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999986 88888 99999999999999999999 999999999999999999999999999999999874
No 26
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.61 E-value=1.7e-15 Score=105.34 Aligned_cols=66 Identities=32% Similarity=0.445 Sum_probs=62.5
Q ss_pred CCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 15 QWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 15 ~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
++|+++. +|++++||.+||++|+...| +|+++|+|+|+|+.|+|+.+|++|+|.+|++|+|+++..
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~ 71 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETG--MPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKER 71 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHC--CCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecC
Confidence 4688999 99999999999999999999 999999999999999999999999999999999998654
No 27
>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=99.60 E-value=2.2e-15 Score=110.84 Aligned_cols=78 Identities=22% Similarity=0.209 Sum_probs=68.4
Q ss_pred cceEEEEEeCCCCeee--ecCCCCcHHHHHHHHHhhhCCC-----CCCCceEEEeCCeecCCCCCccccc------cCCC
Q psy4259 6 HDISDITQNQWQQTVS--HLDVQEEVKQLKEKIQSEKGSE-----YLAEYQKLIYAGKILSDDQALSEYN------IDES 72 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~--~v~~~~TV~~LK~~I~~~~~~~-----ip~~~qkLi~~Gk~L~D~~tL~~~g------I~~~ 72 (203)
+.+.|.||..+|..+- .+.+++||.+||++|++.++.+ +++++|||||+||+|+|++||++|+ +...
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~ 82 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGV 82 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCc
Confidence 5689999999998887 8999999999999999887543 4599999999999999999999999 6667
Q ss_pred CEEEEEeecCC
Q psy4259 73 KFIVVMLSKPK 83 (203)
Q Consensus 73 ~~i~v~~~k~~ 83 (203)
.|+||+++.+.
T Consensus 83 ~TmHvvlr~~~ 93 (113)
T cd01814 83 ITMHVVVQPPL 93 (113)
T ss_pred eEEEEEecCCC
Confidence 89999886654
No 28
>KOG0005|consensus
Probab=99.59 E-value=9.7e-16 Score=99.64 Aligned_cols=69 Identities=22% Similarity=0.456 Sum_probs=66.7
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
|.|+||++.|+.+. +++++++|..+|++|+++.| +|+.+|||||.||.+.|++|-++|++.-|+++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeG--IPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG--IPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcC--CCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 67999999999999 99999999999999999999 99999999999999999999999999999999974
No 29
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.56 E-value=4.3e-15 Score=102.55 Aligned_cols=58 Identities=28% Similarity=0.335 Sum_probs=50.6
Q ss_pred ecC-CCCcHHHHHHHHHhhhCCCC-CCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 22 HLD-VQEEVKQLKEKIQSEKGSEY-LAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 22 ~v~-~~~TV~~LK~~I~~~~~~~i-p~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
+|+ .++||.+||++|+++.+..+ ++++|||||+||+|+|++||++|||++|++||++.
T Consensus 15 ~~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 15 DVSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred CcCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 444 57999999999999963225 59999999999999999999999999999999874
No 30
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.53 E-value=2.3e-14 Score=95.23 Aligned_cols=63 Identities=37% Similarity=0.570 Sum_probs=59.7
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESK 73 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~ 73 (203)
|+|+||+.+ +.+. +|+++.||++||++|+..+| +++++|+|+|+|+.|.|+++|++|||++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~--~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTG--IPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHC--CCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 689999998 7888 99999999999999999999 999999999999999999999999999875
No 31
>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=99.53 E-value=6.6e-14 Score=99.83 Aligned_cols=75 Identities=19% Similarity=0.299 Sum_probs=71.2
Q ss_pred CcceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 5 AHDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
+..|.|+|++.+|+.+. .|.+++|+..||+++++..| +++++++|+|+|+.|+++.|+++|++.++++|+++++-
T Consensus 9 ~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~g--i~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l 84 (87)
T cd01763 9 SEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQG--LSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQ 84 (87)
T ss_pred CCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhC--CCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence 44699999999999999 99999999999999999999 99999999999999999999999999999999998754
No 32
>KOG0003|consensus
Probab=99.46 E-value=8.6e-15 Score=106.06 Aligned_cols=73 Identities=26% Similarity=0.484 Sum_probs=68.6
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
|.++++++.|++++ ++++++||..||.+|..+.| +|++.|+|+|+||+|+|..||++|+|.--++||++.+-.
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~G--i~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~ 74 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccC--CCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHh
Confidence 56889999999999 99999999999999999999 999999999999999999999999999999999876543
No 33
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.43 E-value=4.8e-13 Score=89.96 Aligned_cols=67 Identities=36% Similarity=0.578 Sum_probs=62.9
Q ss_pred EEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 11 ITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 11 ~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
+||..+|+.+. +++++.||++||++|+..+| +++++|+|+|+|+.|+|+.+|.+|++.+++.|+++.
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~--~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEG--VPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHC--cChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 36777899999 99999999999999999999 999999999999999999999999999999999874
No 34
>KOG0004|consensus
Probab=99.42 E-value=9.8e-14 Score=107.04 Aligned_cols=73 Identities=27% Similarity=0.500 Sum_probs=69.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
|.|+|+++.++++. +|..++||..+|.+|+...| ||+++|||||.|+.|+|..+|+||+|+.-++|++++.-.
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg--Ip~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~ 74 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC--CCchhhhhhhhhcccccCCccccccccccceEEEEEEec
Confidence 68999999999999 99999999999999999999 999999999999999999999999999999999997543
No 35
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.42 E-value=5.5e-13 Score=92.56 Aligned_cols=67 Identities=19% Similarity=0.241 Sum_probs=59.0
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecC-CCCCccccccC-CCCEEEEEe
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILS-DDQALSEYNID-ESKFIVVML 79 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~-D~~tL~~~gI~-~~~~i~v~~ 79 (203)
|.=|...|+++. +|++++||++||.+|+.+.| +|+++|+| |+|+.|. |+.+|++||++ +|+++++.+
T Consensus 5 ~~~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~g--ip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 5 VEDAQSHTVTIWLTVRPDMTVAQLKDKVFLDYG--FPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred EeccccCCCeEEEEECCCCcHHHHHHHHHHHHC--cCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 333556788999 99999999999999999999 99999999 9999986 66899999998 789998753
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=99.32 E-value=5.6e-12 Score=86.27 Aligned_cols=70 Identities=24% Similarity=0.345 Sum_probs=64.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCC-CceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLA-EYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~-~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
|+|+|++.+|+.+. .|.++++|..|++++++..+ ++. +.++|+|+|+.|.+++|+++||+.+|++|+|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~--i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKG--IPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHT--TTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC--CCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999988 99999999999999999999 999 999999999999999999999999999999864
No 37
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.31 E-value=1.8e-11 Score=91.03 Aligned_cols=76 Identities=24% Similarity=0.311 Sum_probs=58.1
Q ss_pred cceEEEEEeCCCC-eee-ecCCCCcHHHHHHHHHhhhCCC-----CCCCceEEEeCCeecCCCCCccccccCCCC-----
Q psy4259 6 HDISDITQNQWQQ-TVS-HLDVQEEVKQLKEKIQSEKGSE-----YLAEYQKLIYAGKILSDDQALSEYNIDESK----- 73 (203)
Q Consensus 6 ~~m~I~Vk~~~g~-~~~-~v~~~~TV~~LK~~I~~~~~~~-----ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~----- 73 (203)
+.+.|+|+..+|+ ... .+++++||++||+.|...|..+ ..++.+||||.||+|+|++||++|++..|+
T Consensus 1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~ 80 (111)
T PF13881_consen 1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGP 80 (111)
T ss_dssp TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--
T ss_pred CeEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCC
Confidence 3688999999999 445 9999999999999999988644 345688999999999999999999988777
Q ss_pred -EEEEEeec
Q psy4259 74 -FIVVMLSK 81 (203)
Q Consensus 74 -~i~v~~~k 81 (203)
++||+++.
T Consensus 81 ~vmHlvvrp 89 (111)
T PF13881_consen 81 TVMHLVVRP 89 (111)
T ss_dssp EEEEEEE-S
T ss_pred EEEEEEecC
Confidence 45555543
No 38
>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=99.29 E-value=1.4e-11 Score=88.63 Aligned_cols=62 Identities=26% Similarity=0.306 Sum_probs=56.8
Q ss_pred ee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCC-CCccccccCCCCEEEEEeecCC
Q psy4259 20 VS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDD-QALSEYNIDESKFIVVMLSKPK 83 (203)
Q Consensus 20 ~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~-~tL~~~gI~~~~~i~v~~~k~~ 83 (203)
.. +|++++||++||.+|...++ +++.+|+|+|.|+.|.|+ +||++|||..++.|++.+..|.
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~--V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP~ 80 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFS--VAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEPI 80 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhc--CCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCCc
Confidence 44 89999999999999999999 999999999999999876 8999999999999999876543
No 39
>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=99.17 E-value=2.2e-10 Score=81.17 Aligned_cols=72 Identities=21% Similarity=0.276 Sum_probs=58.7
Q ss_pred eEEEEEeCCC-Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEE-EeCCe-----ec-CCCCCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQ-QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKL-IYAGK-----IL-SDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g-~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkL-i~~Gk-----~L-~D~~tL~~~gI~~~~~i~v~ 78 (203)
++|.|+.... ...+ .+++++||.+||++++..+| ++++.|+| +|.|+ .| +|+++|++||+++|..|||+
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G--~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVG--TPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHC--CCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 4566666443 2334 79999999999999999999 99999999 48887 46 56689999999999999987
Q ss_pred eec
Q psy4259 79 LSK 81 (203)
Q Consensus 79 ~~k 81 (203)
-..
T Consensus 80 D~~ 82 (84)
T cd01789 80 DVS 82 (84)
T ss_pred eCC
Confidence 543
No 40
>KOG4248|consensus
Probab=99.02 E-value=3.8e-10 Score=108.25 Aligned_cols=70 Identities=27% Similarity=0.464 Sum_probs=66.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
..|+||+++.++.+ .|...+||.+||++|.++.+ |+.+.|||||.|++|.|+|++.+|+| +|.+|||+-+
T Consensus 3 ~~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~n--i~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVN--IPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred cceeeeecccceeEEEechHHHHHHHHHHHHHhcc--cccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 35899999999999 99999999999999999999 99999999999999999999999999 9999998755
No 41
>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=99.01 E-value=9.5e-10 Score=76.49 Aligned_cols=68 Identities=18% Similarity=0.249 Sum_probs=54.3
Q ss_pred EEEEEeCCCCee-e-ec-CCCCcHHHHHHHHHhhhCCCCCCCceEE--EeCCeecCCCCCccccccCCCCEEEE
Q psy4259 9 SDITQNQWQQTV-S-HL-DVQEEVKQLKEKIQSEKGSEYLAEYQKL--IYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 9 ~I~Vk~~~g~~~-~-~v-~~~~TV~~LK~~I~~~~~~~ip~~~qkL--i~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
+|.++..+.+.+ . ++ +++.||.+||+.|+..++. +++++||| +++|++|.|+++|.+||+++|++|+|
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~-~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQ-LTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCC-CCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 456665552333 2 44 4889999999999999763 67899888 48899999999999999999999876
No 42
>PLN02560 enoyl-CoA reductase
Probab=98.98 E-value=1.4e-09 Score=94.34 Aligned_cols=69 Identities=20% Similarity=0.393 Sum_probs=60.8
Q ss_pred eEEEEEeCCCCee---e-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC---C----eecCCCCCccccccCCCCEEE
Q psy4259 8 ISDITQNQWQQTV---S-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA---G----KILSDDQALSEYNIDESKFIV 76 (203)
Q Consensus 8 m~I~Vk~~~g~~~---~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~---G----k~L~D~~tL~~~gI~~~~~i~ 76 (203)
|+|+|+..+|+.+ + +++++.||++||++|+++.+. .++++|||++. | +.|+|+++|+++|+++|++|+
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~-~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy 79 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKK-YYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV 79 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCC-CChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE
Confidence 6889998888887 5 999999999999999999872 38999999982 3 488999999999999999987
Q ss_pred E
Q psy4259 77 V 77 (203)
Q Consensus 77 v 77 (203)
+
T Consensus 80 ~ 80 (308)
T PLN02560 80 F 80 (308)
T ss_pred E
Confidence 6
No 43
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.95 E-value=4.3e-09 Score=74.80 Aligned_cols=73 Identities=22% Similarity=0.307 Sum_probs=56.6
Q ss_pred eEEEEEeCCC--Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC----C---eec-CCCCCccccccCCCCEEE
Q psy4259 8 ISDITQNQWQ--QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA----G---KIL-SDDQALSEYNIDESKFIV 76 (203)
Q Consensus 8 m~I~Vk~~~g--~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~----G---k~L-~D~~tL~~~gI~~~~~i~ 76 (203)
++|.|..... .... .++.++||.+||.+|+..+| ++++.|+|.+. | ..+ +|+++|.+||+++|..||
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~G--i~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~ 79 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTG--IPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIH 79 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHT--S-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhC--CCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEE
Confidence 5677776554 3667 99999999999999999999 99999999875 2 234 456899999999999999
Q ss_pred EEeecC
Q psy4259 77 VMLSKP 82 (203)
Q Consensus 77 v~~~k~ 82 (203)
|.=..|
T Consensus 80 V~D~~p 85 (87)
T PF14560_consen 80 VVDTNP 85 (87)
T ss_dssp EEE-T-
T ss_pred EEeCCC
Confidence 875443
No 44
>KOG0001|consensus
Probab=98.89 E-value=1.4e-08 Score=67.77 Aligned_cols=70 Identities=27% Similarity=0.475 Sum_probs=65.4
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
+.+++..|+.+. ++.+..+|..+|.+|+...+ ++.+.|++.|.|+.|.|+.+|.+|+|..++++++..+.
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~--~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~ 72 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEG--IPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSL 72 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcC--CCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEec
Confidence 567788899999 99999999999999999999 99999999999999999999999999999999987654
No 45
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=98.89 E-value=6.2e-09 Score=76.70 Aligned_cols=71 Identities=14% Similarity=0.165 Sum_probs=59.0
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccccc-------CCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNI-------DESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI-------~~~~~i~v~~ 79 (203)
|-|.||-.+ .++. ++.++.||.+||++|+.... .|+++|+|+..+.+|+|++||++||+ ....+|-+.+
T Consensus 3 vFlmIrR~K-TTiF~dakes~tVlelK~~iegI~k--~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~ 79 (119)
T cd01788 3 VFLMIRRHK-TTIFTDAKESTTVYELKRIVEGILK--RPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAF 79 (119)
T ss_pred eEEEEEecc-eEEEeecCCcccHHHHHHHHHHHhc--CChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEE
Confidence 556666333 3344 99999999999999999999 99999999977899999999999999 5577777777
Q ss_pred ec
Q psy4259 80 SK 81 (203)
Q Consensus 80 ~k 81 (203)
++
T Consensus 80 r~ 81 (119)
T cd01788 80 RS 81 (119)
T ss_pred ec
Confidence 65
No 46
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.69 E-value=3.4e-08 Score=69.31 Aligned_cols=71 Identities=18% Similarity=0.178 Sum_probs=43.9
Q ss_pred CcceEEEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC---Ceec--CCCCCccccccCCCCEEEE
Q psy4259 5 AHDISDITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA---GKIL--SDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~---Gk~L--~D~~tL~~~gI~~~~~i~v 77 (203)
...|-|.||+.+|-...++++++|+.+||++|.+.++ ++...+.|..+ ...| .++++|+++||++||.|++
T Consensus 2 ~~~milRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~--~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL 77 (80)
T PF11543_consen 2 ASSMILRVRSKDGMKRIEVSPSSTLSDLKEKISEQLS--IPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL 77 (80)
T ss_dssp ----EEEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS-----TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred CccEEEEEECCCCCEEEEcCCcccHHHHHHHHHHHcC--CCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence 3578999999888655599999999999999999999 99998888543 2345 4568999999999999976
No 47
>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=98.56 E-value=3.3e-07 Score=58.12 Aligned_cols=65 Identities=29% Similarity=0.426 Sum_probs=58.1
Q ss_pred EeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 13 QNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 13 k~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
+..++.... .+....||.+||++|..++| ++++.++|+++|..+.+...+.++++.+++.|++..
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLG--LPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHC--cChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 334677777 88899999999999999999 999999999999999999888899999999998763
No 48
>KOG1872|consensus
Probab=98.56 E-value=2.3e-07 Score=83.14 Aligned_cols=74 Identities=19% Similarity=0.212 Sum_probs=67.5
Q ss_pred ceEEEEEeCCCCeee-e-cCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCC
Q psy4259 7 DISDITQNQWQQTVS-H-LDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPK 83 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~-v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~ 83 (203)
...|.|| +.|+.+. + ++.++|+..||.++...+| ++|++||+.++|+.+.|+-.+..++|++|.+|++|.+.-.
T Consensus 3 ~~~v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTg--V~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~ 78 (473)
T KOG1872|consen 3 SDTVIVK-WGGKKYPVETLSTDETPSVLKAQLFALTG--VPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEA 78 (473)
T ss_pred cceEeee-ecCccccceeccCCCchHHHHHHHHHhcC--CCccceeEEEecccccccccccccccCCCCEEEeeccccc
Confidence 3467777 8899998 5 9999999999999999999 9999999999999999998999999999999999987654
No 49
>KOG0006|consensus
Probab=98.18 E-value=2.8e-06 Score=72.96 Aligned_cols=62 Identities=27% Similarity=0.490 Sum_probs=56.0
Q ss_pred eee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 19 TVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 19 ~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
.+. +|+.+.+|.+||+.++...| +|+++.++||.||.|.|+.|+..+.+..-+.+|+|.-+|
T Consensus 15 ~l~v~v~~~t~I~~lke~Vak~~g--vp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP 77 (446)
T KOG0006|consen 15 GLPVEVDSDTSIFQLKEVVAKRQG--VPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP 77 (446)
T ss_pred ceeEEEecCCCHHHHHHHHHHhhC--CChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence 356 89999999999999999999 999999999999999999999988888888888885444
No 50
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=98.08 E-value=2.4e-05 Score=53.57 Aligned_cols=71 Identities=20% Similarity=0.329 Sum_probs=60.2
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC---C--eecCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA---G--KILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~---G--k~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
++|+|+-+....++ .|+|..+|..+|++|...++ ++- .|||.|. | ..|.+.++|++|||=.+-.|.++-+-
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~--~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT~ 77 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRN--CSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLETF 77 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhC--ccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEecC
Confidence 57999999999999 99999999999999999999 654 8999984 3 45788899999999777777666443
No 51
>KOG3493|consensus
Probab=98.06 E-value=1.4e-06 Score=57.87 Aligned_cols=69 Identities=20% Similarity=0.278 Sum_probs=58.8
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+++.+...-|++.. .+++++||+++|+.|+.++| -.++...|---+.+++|.-+|++|.|++|-.+.+.
T Consensus 2 iev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtG--T~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 2 IEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTG--TRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred ceehhhhhcCceEEEEeCCcccccCHHHHHHHhhC--CChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 45677777799988 99999999999999999999 77777777655678899999999999999877653
No 52
>KOG4495|consensus
Probab=97.97 E-value=1.1e-05 Score=57.79 Aligned_cols=62 Identities=16% Similarity=0.175 Sum_probs=49.6
Q ss_pred ceEEEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe-C-CeecCCCCCccccccC
Q psy4259 7 DISDITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY-A-GKILSDDQALSEYNID 70 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~-~-Gk~L~D~~tL~~~gI~ 70 (203)
+|-|.||-.+-..|.+.+++.||-+||.+++.... -|++.|+|.. . ..+|+|.+||++||+.
T Consensus 2 ~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~--~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 2 DVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILK--RPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred ceeeeeeecceeEEeecCccccHHHHHHHHHHHHh--CCCcchheeecCHHHHhhccchhhhcccc
Confidence 35566774433333399999999999999999998 8999999976 3 3789999999999864
No 53
>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=97.86 E-value=0.00015 Score=50.55 Aligned_cols=71 Identities=15% Similarity=0.173 Sum_probs=59.9
Q ss_pred CcceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCc-eEEE--eCCeecCCC--CCccccccCCCCEEEE
Q psy4259 5 AHDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEY-QKLI--YAGKILSDD--QALSEYNIDESKFIVV 77 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~-qkLi--~~Gk~L~D~--~tL~~~gI~~~~~i~v 77 (203)
....+|.||..+|+.+. .+..++||.+|.+.|..... .+... .+|+ |-.+.|.++ +||+++|+..+.+|+|
T Consensus 4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~--~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLF--SPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHH--CTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcC--CCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 35689999999999999 99999999999999998887 55554 7776 556888655 5999999999998876
No 54
>KOG1769|consensus
Probab=97.83 E-value=0.00014 Score=52.48 Aligned_cols=73 Identities=12% Similarity=0.236 Sum_probs=64.5
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
.-+.|+|+.-++.... .|..+.....|+...+...| +.....|++|+|+.+.+.+|=++++..+++.|-++..
T Consensus 19 ~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~G--l~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~ 92 (99)
T KOG1769|consen 19 EHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQG--LSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQE 92 (99)
T ss_pred ceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcC--CccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEee
Confidence 3467777775566666 99999999999999999999 9999999999999999999999999999999988753
No 55
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=97.82 E-value=4.9e-05 Score=55.20 Aligned_cols=58 Identities=24% Similarity=0.229 Sum_probs=44.3
Q ss_pred EEEEeCC-CCeee-ecC--CCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc
Q psy4259 10 DITQNQW-QQTVS-HLD--VQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY 67 (203)
Q Consensus 10 I~Vk~~~-g~~~~-~v~--~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~ 67 (203)
|+||..+ -..+. ++. .+.||..||+.|....+....-.++||||+||.|.|...|...
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence 4555554 22344 666 7899999999999999544667789999999999999777654
No 56
>KOG0012|consensus
Probab=97.82 E-value=4.9e-05 Score=66.41 Aligned_cols=60 Identities=15% Similarity=0.335 Sum_probs=54.2
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCC--CCccccccCCCCEEEE
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDD--QALSEYNIDESKFIVV 77 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~--~tL~~~gI~~~~~i~v 77 (203)
..++|. +|..+-.+..|+..+...+| ++.+..-|+|+++.|.++ ..|.+||+++++++.+
T Consensus 11 ~~~~~~i~v~~dg~L~nl~aL~~~d~g--~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l 73 (380)
T KOG0012|consen 11 FEKKFPIPVTTDGELNNLAALCWKDTG--IVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL 73 (380)
T ss_pred ceeeeccccccccchhhHHHHHHHHhC--cccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence 667788 99999999999999999999 999999999999999765 6799999999999965
No 57
>KOG4583|consensus
Probab=97.78 E-value=2.2e-06 Score=73.98 Aligned_cols=82 Identities=22% Similarity=0.268 Sum_probs=63.0
Q ss_pred CcceEEEEEeCCCCeee---ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccC--CCCEEEEEe
Q psy4259 5 AHDISDITQNQWQQTVS---HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNID--ESKFIVVML 79 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~---~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~--~~~~i~v~~ 79 (203)
+.++++.||..+.+... .++..+||++||.+++..+..+--..+|||||+||.|.|..+|+|.-+| ..+++|+++
T Consensus 7 e~~v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvc 86 (391)
T KOG4583|consen 7 EFPVTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVC 86 (391)
T ss_pred CcceEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhc
Confidence 34678889988765544 6678899999999999998754445689999999999999999987443 356788887
Q ss_pred ecCCCCC
Q psy4259 80 SKPKPTP 86 (203)
Q Consensus 80 ~k~~~~~ 86 (203)
..+....
T Consensus 87 nsk~v~~ 93 (391)
T KOG4583|consen 87 NSKEVVT 93 (391)
T ss_pred CCCCCCC
Confidence 6665433
No 58
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=97.72 E-value=4.4e-05 Score=46.43 Aligned_cols=38 Identities=45% Similarity=0.716 Sum_probs=31.4
Q ss_pred HHHhhCCHHHHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHH
Q psy4259 135 LAFLRTQPQFQQMRTVVQQNPELLPTVLQQIGQSNPALLELI 176 (203)
Q Consensus 135 l~~l~~~P~~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i 176 (203)
+..++++|.|+++++.+++||++++.+++. ||++++.|
T Consensus 4 ~~~~l~~P~~~~~l~~~~~nP~~~~~~~~~----nP~~~~~i 41 (41)
T smart00727 4 MALRLQNPQVQSLLQDMQQNPDMLAQMLQE----NPQLLQLI 41 (41)
T ss_pred HHHHHcCHHHHHHHHHHHHCHHHHHHHHHh----CHHhHhhC
Confidence 456677999999999999999997777743 99998753
No 59
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.68 E-value=0.00011 Score=51.15 Aligned_cols=70 Identities=17% Similarity=0.154 Sum_probs=49.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCC-CCCC---ceEEE-eCCeecCCCCCccccccCCCCEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSE-YLAE---YQKLI-YAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~-ip~~---~qkLi-~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
++|+|...+|+.+. .++.+.+|++|...|....+.. .... ..+|. -+|..|+++++|+++||.+|+.+++
T Consensus 3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 57788865568888 9999999999999999988721 1222 35666 6799999999999999999999986
No 60
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.61 E-value=0.00044 Score=48.10 Aligned_cols=70 Identities=9% Similarity=0.056 Sum_probs=57.5
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE--eCCeecCC---CCCccccccCCCCEEEE
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI--YAGKILSD---DQALSEYNIDESKFIVV 77 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi--~~Gk~L~D---~~tL~~~gI~~~~~i~v 77 (203)
...+|.||..+|+.+. .+..++||.+|.+.|....+ ......+|+ |-.|.|.+ ++||.++|+..+.+|+|
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~--~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT--DGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc--CCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 4678999999999999 99999999999999966665 555667776 45678864 37999999988888865
No 61
>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=97.48 E-value=0.00064 Score=47.45 Aligned_cols=66 Identities=18% Similarity=0.185 Sum_probs=53.4
Q ss_pred ceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE--eCCeecCC-CCCccccccCCCC
Q psy4259 7 DISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI--YAGKILSD-DQALSEYNIDESK 73 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi--~~Gk~L~D-~~tL~~~gI~~~~ 73 (203)
..+|.||..+|+.+. .++.++||++|.+.|....+. .......|+ |-.|.|.| +.||+++|+.+..
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~-~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~ 73 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPE-FAARPFTLMTAFPVKELSDESLTLKEANLLNAV 73 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCC-CCCCCEEEecCCCCcccCCCCCcHHHCCCcCcE
Confidence 578999999999999 999999999999999987641 223556776 55788876 4899999998633
No 62
>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=97.43 E-value=0.0012 Score=45.57 Aligned_cols=67 Identities=12% Similarity=0.178 Sum_probs=53.6
Q ss_pred ceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe--CCeecCC---CCCccccccCCCCEEEE
Q psy4259 7 DISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY--AGKILSD---DQALSEYNIDESKFIVV 77 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~--~Gk~L~D---~~tL~~~gI~~~~~i~v 77 (203)
..+|.||..+|+.+. .+..++||.+|.+.|..... ......|+. -.|.+.| ++||.++|+.+ +.+.+
T Consensus 2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~---~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~ 74 (77)
T cd01767 2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP---PAEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ 74 (77)
T ss_pred cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC---CCCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence 468999999999999 99999999999999987754 245677764 4688865 58999999994 55544
No 63
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.36 E-value=0.0014 Score=45.66 Aligned_cols=68 Identities=13% Similarity=0.242 Sum_probs=56.1
Q ss_pred ceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE--eCCeecCC---CCCccccccCCCCEEEE
Q psy4259 7 DISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI--YAGKILSD---DQALSEYNIDESKFIVV 77 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi--~~Gk~L~D---~~tL~~~gI~~~~~i~v 77 (203)
..+|.||..+|+.+. .++.++||.+|.+.|....+ . .....|+ |-.|.+.+ ++||.++|+.+..+|+|
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~--~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG--N-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC--C-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 468999999999999 99999999999999987654 2 2557776 45788864 37999999999888875
No 64
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.34 E-value=0.0014 Score=44.94 Aligned_cols=70 Identities=17% Similarity=0.180 Sum_probs=57.1
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCC---CCCceEEEeCCeecCCCCCccccccCCCCEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEY---LAEYQKLIYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~i---p~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
++|-++...|++|. .++.-.+|..|-..+.+.....+ .-..+|+.-++++|.++..|.+|+|.+|+.+.+
T Consensus 7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 44556778899999 99999999999888877665322 224568889999999999999999999999875
No 65
>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=97.34 E-value=0.0016 Score=46.06 Aligned_cols=70 Identities=11% Similarity=0.125 Sum_probs=58.1
Q ss_pred CcceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC--eecC--------CCCCccccccCCCC
Q psy4259 5 AHDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG--KILS--------DDQALSEYNIDESK 73 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G--k~L~--------D~~tL~~~gI~~~~ 73 (203)
.+.++|.||..+|+.+. .+..++||++|...|.. .+ ..++...|+++= |.+. .+.||++.|+....
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~--~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~ 78 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LK--ETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSE 78 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CC--CCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCcc
Confidence 34689999999999999 99999999999999964 44 566788998764 7885 25799999999887
Q ss_pred EEEE
Q psy4259 74 FIVV 77 (203)
Q Consensus 74 ~i~v 77 (203)
+|.|
T Consensus 79 ~L~V 82 (85)
T cd01774 79 VLFV 82 (85)
T ss_pred EEEE
Confidence 7765
No 66
>KOG1639|consensus
Probab=97.24 E-value=0.00057 Score=57.20 Aligned_cols=69 Identities=20% Similarity=0.198 Sum_probs=52.3
Q ss_pred eEEEEEeCCCC-eee--ecCCCCcHHHHHHHHHhhhCCCCCCCceEE----EeCCeecCCCCCccccccCCCCEEEE
Q psy4259 8 ISDITQNQWQQ-TVS--HLDVQEEVKQLKEKIQSEKGSEYLAEYQKL----IYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 8 m~I~Vk~~~g~-~~~--~v~~~~TV~~LK~~I~~~~~~~ip~~~qkL----i~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
|+|++.+.++. ..+ +.+...||.|+++.|..+.-+ +.+.++|+ --+||.|.|+.+|++||..++++|+|
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k-~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLK-ITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhc-cCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 56777766553 333 778889999999888776654 66654544 34799999999999999999988865
No 67
>KOG0013|consensus
Probab=97.05 E-value=0.0013 Score=53.62 Aligned_cols=65 Identities=17% Similarity=0.333 Sum_probs=54.7
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCC--EEEEEeecC
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESK--FIVVMLSKP 82 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~--~i~v~~~k~ 82 (203)
.++.|. .+..-+||.++|.++..+.+ +.+..|++.|+|++|-|...|.+|+|..|. +|.+.|...
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg--~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq~ 222 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEG--VDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQE 222 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhc--cchhhheeeccCCceeccccceeeeecCCCEEEEEEEeccC
Confidence 356666 77888999999999999999 788899999999999999999999999995 444444443
No 68
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=97.01 E-value=0.0052 Score=43.22 Aligned_cols=69 Identities=23% Similarity=0.203 Sum_probs=58.7
Q ss_pred ceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC--CeecC---CCCCccccccCCCCEEEEE
Q psy4259 7 DISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA--GKILS---DDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~--Gk~L~---D~~tL~~~gI~~~~~i~v~ 78 (203)
.-+|.||..+|+... .+..++++.+|-..|.. .| .+++..+|+.+ -|++. .+.||.++|+....+|+|-
T Consensus 5 ~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g--~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 5 KARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KG--YPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cC--CCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 468999999999999 99999999999999888 57 78888999844 67774 2479999999999998763
No 69
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.73 E-value=0.013 Score=40.96 Aligned_cols=69 Identities=14% Similarity=0.134 Sum_probs=57.8
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe--CCeecC--C-CCCccccccCCCCEEEE
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY--AGKILS--D-DQALSEYNIDESKFIVV 77 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~--~Gk~L~--D-~~tL~~~gI~~~~~i~v 77 (203)
...+|.||..+|+.+. .+..++++.+|-..|... | ++....+|+. =-|.+. | +.||.+.|+....+|.|
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~--~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~V 77 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-G--YPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLIL 77 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-C--CCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEE
Confidence 3578999999999999 999999999999999875 6 7777888874 467774 2 36999999998888876
No 70
>KOG3206|consensus
Probab=96.73 E-value=0.0069 Score=49.45 Aligned_cols=71 Identities=24% Similarity=0.331 Sum_probs=54.8
Q ss_pred eEEEEEeCCCC-eee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE-eCC-----eecCCC-CCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQQ-TVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI-YAG-----KILSDD-QALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g~-~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi-~~G-----k~L~D~-~tL~~~gI~~~~~i~v~ 78 (203)
++|.|.+...+ .+. .++.+.||.+||.+++..+| .+++.++|- |.| -.|+|+ ..|..|+..+|-.||++
T Consensus 2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G--~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi 79 (234)
T KOG3206|consen 2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTG--TEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI 79 (234)
T ss_pred eEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhC--CCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence 45556544333 234 88899999999999999999 999999874 555 346655 78999999999999987
Q ss_pred ee
Q psy4259 79 LS 80 (203)
Q Consensus 79 ~~ 80 (203)
=.
T Consensus 80 D~ 81 (234)
T KOG3206|consen 80 DS 81 (234)
T ss_pred ec
Confidence 43
No 71
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=96.66 E-value=0.007 Score=40.68 Aligned_cols=62 Identities=11% Similarity=0.010 Sum_probs=44.8
Q ss_pred eCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEE
Q psy4259 14 NQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 14 ~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
..+++.+. .|.++.++.++-+....+++ +.+++-.|.|++|.|+-+.++.-.|+.+|+.+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~--l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFG--LDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcC--CCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 35677888 99999999999999999999 9999999999999999999999999999998864
No 72
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.011 Score=41.99 Aligned_cols=69 Identities=14% Similarity=0.225 Sum_probs=60.3
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+.+.|..-+|..+. .|..+.|...|.+..+...| -.-+..|++|+|+.++-++|-.+++..+++.|.++
T Consensus 25 inLkvv~qd~telfFkiKktT~f~klm~af~~rqG--K~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav 94 (103)
T COG5227 25 INLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQG--KNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAV 94 (103)
T ss_pred cceEEecCCCCEEEEEEeccchHHHHHHHHHHHhC--cCcceeEEEEcceecCCCCChhhcCCccchHHHHH
Confidence 55666666777777 99999999999999999999 67789999999999999999999999999987654
No 73
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=96.24 E-value=0.0089 Score=41.37 Aligned_cols=55 Identities=16% Similarity=0.227 Sum_probs=45.9
Q ss_pred cCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc-ccCCCCEEEEE
Q psy4259 23 LDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY-NIDESKFIVVM 78 (203)
Q Consensus 23 v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~-gI~~~~~i~v~ 78 (203)
|.++++|.++++.+...... ..-....|.|+|+.|+|...|+++ |+++|.++.++
T Consensus 1 v~~~d~v~dvrq~L~~~~~t-~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lv 56 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPET-CYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELV 56 (76)
T ss_pred CChhhHHHHHHHHHHhCccc-cceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEE
Confidence 56889999999998877542 455677899999999888889888 68999999876
No 74
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.85 E-value=0.059 Score=42.57 Aligned_cols=62 Identities=23% Similarity=0.170 Sum_probs=46.2
Q ss_pred eEEEEEeCCC----Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCce-EEEe-CCeec--CCCCCccccccCC
Q psy4259 8 ISDITQNQWQ----QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQ-KLIY-AGKIL--SDDQALSEYNIDE 71 (203)
Q Consensus 8 m~I~Vk~~~g----~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~q-kLi~-~Gk~L--~D~~tL~~~gI~~ 71 (203)
|.|.|++.+| .++. .++.+.||.+|+.+|....+ ++...+ .|.+ .++.| .++..+..+.-.+
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~--~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~ 71 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP--IPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSS 71 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC--CCccceeEEEEeCCCeeCCCccccHHhhccCc
Confidence 6799999999 4677 88899999999999999999 887774 4544 34444 3445567665433
No 75
>KOG0010|consensus
Probab=95.49 E-value=0.013 Score=53.38 Aligned_cols=47 Identities=30% Similarity=0.585 Sum_probs=23.3
Q ss_pred HHHhhCCHHHHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHcCC
Q psy4259 135 LAFLRTQPQFQQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLNEP 190 (203)
Q Consensus 135 l~~l~~~P~~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~~p 190 (203)
+-.++.||.++.++ +||++++++| ..||++.++|++|||- .+++++|
T Consensus 159 ~~~~m~nP~vq~ll----~Npd~mrq~I----~anPqmq~lm~~npei-~h~ln~p 205 (493)
T KOG0010|consen 159 LRQMMENPIVQSLL----NNPDLMRQLI----MANPQMQDLMQRNPEI-GHLLNNP 205 (493)
T ss_pred HHHhhhChHHHHHh----cChHHHHHHH----hcCHHHHHHHhhCCcc-hhhhcCh
Confidence 45566666554443 4555533333 3455555555555432 4444444
No 76
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=93.59 E-value=0.41 Score=34.07 Aligned_cols=62 Identities=8% Similarity=0.264 Sum_probs=41.3
Q ss_pred CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE--eC--C-eecCCC-CCccccccCCCCEEEEEeec
Q psy4259 17 QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI--YA--G-KILSDD-QALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 17 g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi--~~--G-k~L~D~-~tL~~~gI~~~~~i~v~~~k 81 (203)
...++ .++..+||+.++..+.+.+. + ....||- |. + -.|.+. .||.+.||.+|..|++=.+.
T Consensus 13 ~~~~t~~FSk~DTI~~v~~~~rklf~--i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 13 QSVLTKQFSKTDTIGFVEKEMRKLFN--I-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp CEEEEEEE-TTSBHHHHHHHHHHHCT----TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred ccHhHhhccccChHHHHHHHHHHHhC--C-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 34566 88999999999999999999 8 5667774 22 2 346555 79999999999988765543
No 77
>PRK06437 hypothetical protein; Provisional
Probab=93.11 E-value=0.79 Score=30.69 Aligned_cols=52 Identities=13% Similarity=0.196 Sum_probs=41.2
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
.++... +++...||.+|=+. .+ +++....+..+|+++. .++-+++||.|.++
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lg--i~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv 61 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LG--LDEEEYVVIVNGSPVL-----EDHNVKKEDDVLIL 61 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cC--CCCccEEEEECCEECC-----CceEcCCCCEEEEE
Confidence 445566 88888899888655 47 8888899999999997 56677889999876
No 78
>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=92.70 E-value=0.75 Score=31.23 Aligned_cols=65 Identities=20% Similarity=0.168 Sum_probs=48.6
Q ss_pred EEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCC-CCceEEEe----CC--eecCCCCCccccccC--CCCEEEEE
Q psy4259 12 TQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYL-AEYQKLIY----AG--KILSDDQALSEYNID--ESKFIVVM 78 (203)
Q Consensus 12 Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip-~~~qkLi~----~G--k~L~D~~tL~~~gI~--~~~~i~v~ 78 (203)
|+.++|...+ +|+.+.|+.+|=+.|....+ +. .+-.-|.| +| ..|+.+++|.++... ...++++.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~--l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~fr 75 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLG--LKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFR 75 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHT--TSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcC--CCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEE
Confidence 5778899888 99999999999999999999 54 34456777 23 457888999998776 33344443
No 79
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=92.64 E-value=1.1 Score=30.24 Aligned_cols=59 Identities=12% Similarity=0.186 Sum_probs=42.1
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
|+|++... ..... +++...||.+|-+.+ + ++.....+..+|.++.. +.-+++||.|.++
T Consensus 5 m~v~vng~-~~~~~~~~~~~~tv~~ll~~l----~--~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 5 IRVKVIGR-GIEKEIEWRKGMKVADILRAV----G--FNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred EEEEEecc-ccceEEEcCCCCcHHHHHHHc----C--CCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 56666422 12445 778888999988765 6 77777788899999853 5557889998876
No 80
>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=92.15 E-value=0.042 Score=47.57 Aligned_cols=60 Identities=22% Similarity=0.287 Sum_probs=0.0
Q ss_pred ceEEEEEeCCCCeee----ecCC--CCcHHHHHHHHHh----------hhCCCCCCCceE-----EEeCCeecCCCCCcc
Q psy4259 7 DISDITQNQWQQTVS----HLDV--QEEVKQLKEKIQS----------EKGSEYLAEYQK-----LIYAGKILSDDQALS 65 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~----~v~~--~~TV~~LK~~I~~----------~~~~~ip~~~qk-----Li~~Gk~L~D~~tL~ 65 (203)
.+.|++|....-.+. .+.+ +.||.++|..++. ..+ +|.+.+| |+|+.|.+.|.+||.
T Consensus 78 sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~--vp~dKik~~~~~lL~~kkPv~~~ktl~ 155 (309)
T PF12754_consen 78 SITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETR--VPLDKIKNFRCRLLYKKKPVGDSKTLA 155 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred eEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhccccccccccc--CCHHHhhhhhhhheecCccCCCcCcHH
Confidence 477888887766554 3323 6899999999999 778 9999999 999999999999988
Q ss_pred ccc
Q psy4259 66 EYN 68 (203)
Q Consensus 66 ~~g 68 (203)
++.
T Consensus 156 e~l 158 (309)
T PF12754_consen 156 EVL 158 (309)
T ss_dssp ---
T ss_pred HHH
Confidence 874
No 81
>KOG2086|consensus
Probab=91.72 E-value=0.39 Score=42.78 Aligned_cols=67 Identities=24% Similarity=0.210 Sum_probs=53.7
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC--CeecCCC-CCccccccCCCC
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA--GKILSDD-QALSEYNIDESK 73 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~--Gk~L~D~-~tL~~~gI~~~~ 73 (203)
.+-.|.||..+|+... .++...||.+|+..|...... .+...+.|++. -|.|.|+ .||++.|+.+..
T Consensus 304 PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~-~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsv 374 (380)
T KOG2086|consen 304 PTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPG-DSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSV 374 (380)
T ss_pred CcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCC-CcCCceeeeecCCCcccCCcchhHHhccchhhh
Confidence 3567899999999998 999999999999999988863 34445666644 5888776 899999998743
No 82
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=91.48 E-value=0.78 Score=31.60 Aligned_cols=65 Identities=5% Similarity=-0.015 Sum_probs=42.7
Q ss_pred eEEEEEeCC------CC-eee-ecCCCCcHHHHHHHHHhhhCCCCCC--CceEEEeCCeecCCCCCccccccCCCCEEEE
Q psy4259 8 ISDITQNQW------QQ-TVS-HLDVQEEVKQLKEKIQSEKGSEYLA--EYQKLIYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 8 m~I~Vk~~~------g~-~~~-~v~~~~TV~~LK~~I~~~~~~~ip~--~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
|+|+|+... |. ... +++...||.+|++.+...... +.. ....+..+|+...+ +.-+++||.|.+
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~-l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVai 75 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPS-LEEVRSCCVLALNEEYTTE-----SAALKDGDELAI 75 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChh-HHHHhhCcEEEECCEEcCC-----CcCcCCCCEEEE
Confidence 667777642 43 344 777889999999999876531 211 12345678887643 345778999987
Q ss_pred E
Q psy4259 78 M 78 (203)
Q Consensus 78 ~ 78 (203)
+
T Consensus 76 ~ 76 (82)
T PLN02799 76 I 76 (82)
T ss_pred e
Confidence 6
No 83
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=91.36 E-value=1.1 Score=30.36 Aligned_cols=52 Identities=12% Similarity=0.217 Sum_probs=38.5
Q ss_pred ecCCCCcHHHHHHHHHhhhCC--CCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGS--EYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~--~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+++...||.+|.+.+...++. ........+..+|+... .+.-+++||.|.++
T Consensus 21 ~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ 74 (80)
T cd00754 21 ELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAII 74 (80)
T ss_pred ECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEe
Confidence 777789999999999988651 01234556777898887 34568899999886
No 84
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=91.08 E-value=0.9 Score=31.75 Aligned_cols=42 Identities=24% Similarity=0.159 Sum_probs=35.9
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
++|+++. ++. .|.+..+..+|.++|.++.+ ++++..+|.|+-
T Consensus 5 vKV~f~~----tIaIrvp~~~~y~~L~~ki~~kLk--l~~e~i~LsYkd 47 (80)
T cd06406 5 VKVHFKY----TVAIQVARGLSYATLLQKISSKLE--LPAEHITLSYKS 47 (80)
T ss_pred EEEEEEE----EEEEEcCCCCCHHHHHHHHHHHhC--CCchhcEEEecc
Confidence 4455552 777 99999999999999999999 999999999964
No 85
>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=90.74 E-value=0.82 Score=32.41 Aligned_cols=43 Identities=16% Similarity=0.132 Sum_probs=37.2
Q ss_pred EEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCC---CceEEEe
Q psy4259 9 SDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLA---EYQKLIY 53 (203)
Q Consensus 9 ~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~---~~qkLi~ 53 (203)
.+++|+.+|+.+- .+.+++.+.+|++.|.++.| +.. ....|.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~--~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLG--DDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhC--CccccCCcccEEE
Confidence 4678899999999 99999999999999999999 665 4667777
No 86
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=89.71 E-value=1.2 Score=33.64 Aligned_cols=58 Identities=26% Similarity=0.398 Sum_probs=42.7
Q ss_pred ecCC-CCcHHHHHHHHHhhhCCC--------CCCCceEEEeC--C---------------eec---CCCCCccccccCCC
Q psy4259 22 HLDV-QEEVKQLKEKIQSEKGSE--------YLAEYQKLIYA--G---------------KIL---SDDQALSEYNIDES 72 (203)
Q Consensus 22 ~v~~-~~TV~~LK~~I~~~~~~~--------ip~~~qkLi~~--G---------------k~L---~D~~tL~~~gI~~~ 72 (203)
.|+. +.||++|++.+.+..... +.-+..||++. | .+| +++++|.++||.+.
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 7887 999999999888765421 34456677653 1 467 67789999999998
Q ss_pred CEEEEEe
Q psy4259 73 KFIVVML 79 (203)
Q Consensus 73 ~~i~v~~ 79 (203)
..|-+..
T Consensus 101 TEiSfF~ 107 (122)
T PF10209_consen 101 TEISFFN 107 (122)
T ss_pred ceeeeeC
Confidence 8887654
No 87
>KOG2507|consensus
Probab=89.24 E-value=0.87 Score=41.27 Aligned_cols=77 Identities=14% Similarity=0.169 Sum_probs=61.8
Q ss_pred CcceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEE--EeCCeecCCC---CCccccccCCCCEEEEE
Q psy4259 5 AHDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKL--IYAGKILSDD---QALSEYNIDESKFIVVM 78 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkL--i~~Gk~L~D~---~tL~~~gI~~~~~i~v~ 78 (203)
++..+|.||..+|..|+ +++.++-+..+|+.|....+ +......| -|--|+..|+ ++|.++.+-+...|+|+
T Consensus 312 ~d~~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~--i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvl 389 (506)
T KOG2507|consen 312 ADDVRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQT--IGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVL 389 (506)
T ss_pred cceeEEEEecCCccchhhcCCcchHHHHHHHHHHhccc--ccccceeeccccccccccchhhhhhHHHhccCCcceEEEE
Confidence 35789999999999999 99999999999999997777 66666655 4777777543 78999999998888776
Q ss_pred eecCC
Q psy4259 79 LSKPK 83 (203)
Q Consensus 79 ~~k~~ 83 (203)
-++..
T Consensus 390 pk~r~ 394 (506)
T KOG2507|consen 390 PKKRA 394 (506)
T ss_pred ecCCc
Confidence 55443
No 88
>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=88.82 E-value=1.2 Score=31.50 Aligned_cols=56 Identities=14% Similarity=0.261 Sum_probs=39.6
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
.++=...+..||..++.+.+ +.-+.-.+......|+.+++|-+-||+-...+.+.+
T Consensus 8 ~mDI~epl~~Lk~lLe~Rl~--~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnv 63 (88)
T PF11620_consen 8 HMDIREPLSTLKKLLERRLG--ISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNV 63 (88)
T ss_dssp EEESSSBGGGHHHHSHHHH---S--SS-EEEETTEE--TTSBTTTSS----SEEEEEE
T ss_pred EEecCCcHHHHHHHHHHhhC--CCcCCCeEEeccceecCCccHHHhhccccCEEEEEE
Confidence 56667789999999999999 888888877788779999999999999888888765
No 89
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=88.23 E-value=4 Score=26.64 Aligned_cols=45 Identities=11% Similarity=0.216 Sum_probs=32.5
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
++....|+.+||.++.. +.=-+||+|-..+++.. +++||.|+++-
T Consensus 11 ~~~~~~tl~~lr~~~k~--------~~DI~I~NGF~~~~d~~-----L~e~D~v~~Ik 55 (57)
T PF14453_consen 11 ETEENTTLFELRKESKP--------DADIVILNGFPTKEDIE-----LKEGDEVFLIK 55 (57)
T ss_pred EcCCCcCHHHHHHhhCC--------CCCEEEEcCcccCCccc-----cCCCCEEEEEe
Confidence 66677899999987433 22267999988877654 55689998763
No 90
>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=88.19 E-value=1.1 Score=30.12 Aligned_cols=58 Identities=12% Similarity=0.172 Sum_probs=44.3
Q ss_pred eee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 19 TVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 19 ~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
... .+....||.+|.+.+...++.........+..+|+...+ ...+.-+++||.|.++
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ 71 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAIL 71 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEE
Confidence 344 778899999999999888742112356788899999988 3666778899999886
No 91
>KOG2561|consensus
Probab=87.90 E-value=0.15 Score=46.43 Aligned_cols=57 Identities=23% Similarity=0.264 Sum_probs=50.2
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
+++...|-.+|...|++++| ++....|.|-+||+|.-.+||.+-|++....+.|++.
T Consensus 55 k~sL~i~Gselqa~iakklg--i~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 55 KCSLHITGSELQALIAKKLG--IKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hcccccccHHHHHHHHHHcC--CchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 55667788899999999999 9999999999999999999999999998877766654
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=87.76 E-value=5.6 Score=31.43 Aligned_cols=71 Identities=14% Similarity=0.114 Sum_probs=50.3
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCC-ceEEEeC---C---eecCCCCCccccccC-CCCEEE
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAE-YQKLIYA---G---KILSDDQALSEYNID-ESKFIV 76 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~-~qkLi~~---G---k~L~D~~tL~~~gI~-~~~~i~ 76 (203)
..+.|.|...+|.... .++.++||.++.+.|+.+.| +... ..-|.+. + ..|+...+|.+...+ ....++
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~--l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~ 79 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLG--IRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLY 79 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhC--CCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEE
Confidence 3578899999999999 99999999999999999999 6432 2244432 1 346666777776654 233444
Q ss_pred EE
Q psy4259 77 VM 78 (203)
Q Consensus 77 v~ 78 (203)
+.
T Consensus 80 fr 81 (207)
T smart00295 80 FR 81 (207)
T ss_pred EE
Confidence 43
No 93
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=87.51 E-value=2.8 Score=37.89 Aligned_cols=74 Identities=16% Similarity=0.155 Sum_probs=59.2
Q ss_pred eEEEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC----Cee--cCCCCCccccccCCCCEEEEEeec
Q psy4259 8 ISDITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA----GKI--LSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 8 m~I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~----Gk~--L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
|-+.||+..|....+|.++++.+.|-.+|...+..++.+++..+.-+ |.+ +..++|+.++|++.|+.+++-.+.
T Consensus 1 Mi~rfRsk~G~~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ysd 80 (571)
T COG5100 1 MIFRFRSKEGQRRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYSD 80 (571)
T ss_pred CeEEEecCCCceeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEecc
Confidence 56788888887666999999999999999888765578888887653 332 345689999999999999988743
No 94
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=86.72 E-value=2.9 Score=28.39 Aligned_cols=45 Identities=13% Similarity=0.101 Sum_probs=35.7
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
++|+++. ++..+. .++...|..+|+.+|...++ ......+|-|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~--~~~~~~~l~Y~D 47 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFG--LDNQSFTLKYQD 47 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhC--CCCCCeEEEEEC
Confidence 4555654 556666 99999999999999999999 776778888863
No 95
>PRK07440 hypothetical protein; Provisional
Probab=86.41 E-value=6.1 Score=26.59 Aligned_cols=62 Identities=15% Similarity=0.221 Sum_probs=43.6
Q ss_pred cceEEEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 6 HDISDITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
..|+|+|. |+.+ ++....||.+|-+ ..+ +++...-+-++|.++.- ....++-+++||.|.++
T Consensus 3 ~~m~i~vN---G~~~-~~~~~~tl~~lL~----~l~--~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv 64 (70)
T PRK07440 3 NPITLQVN---GETR-TCSSGTSLPDLLQ----QLG--FNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIV 64 (70)
T ss_pred CceEEEEC---CEEE-EcCCCCCHHHHHH----HcC--CCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEE
Confidence 45666665 3322 6666788887764 356 77788888899999853 24566678899999876
No 96
>KOG2982|consensus
Probab=85.53 E-value=1.8 Score=38.02 Aligned_cols=55 Identities=15% Similarity=0.213 Sum_probs=44.7
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe---CCeecC-----CCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY---AGKILS-----DDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~---~Gk~L~-----D~~tL~~~gI~~~~~i~v~ 78 (203)
-|.-.-||.|||.++..+.| +-..++||.| .||.-+ -++.|-.|+|.+|+.+.|-
T Consensus 353 ~I~~~~TV~D~~~~Ld~~VG--vk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 353 LICMTRTVLDFMKILDPKVG--VKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred EEEeehHHHHHHHHhccccc--cccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 55667799999999999999 9999999987 455432 3367888999999998763
No 97
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=84.76 E-value=5.2 Score=27.25 Aligned_cols=57 Identities=14% Similarity=0.143 Sum_probs=39.5
Q ss_pred CCee-e-ecCCC-CcHHHHHHHHHhhhCCCCC-CCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 17 QQTV-S-HLDVQ-EEVKQLKEKIQSEKGSEYL-AEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 17 g~~~-~-~v~~~-~TV~~LK~~I~~~~~~~ip-~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
|+.. . +++.. .||.+|++.+...++.... .....+..+|+...+ +.-+++|+.|.++
T Consensus 14 g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 14 GTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred CCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 4443 4 77766 8999999999888652111 133456678888774 4578889999876
No 98
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=84.57 E-value=1.4 Score=31.83 Aligned_cols=33 Identities=39% Similarity=0.563 Sum_probs=22.6
Q ss_pred EEEeCCeecCCCCCcccc-ccCCCCEEEEEeecC
Q psy4259 50 KLIYAGKILSDDQALSEY-NIDESKFIVVMLSKP 82 (203)
Q Consensus 50 kLi~~Gk~L~D~~tL~~~-gI~~~~~i~v~~~k~ 82 (203)
.|-|+||.|..+++|++| |-.+-..|+|-+.++
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~ 36 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKR 36 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccC
Confidence 577999999999999999 333334444434343
No 99
>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=84.16 E-value=5.5 Score=27.55 Aligned_cols=55 Identities=7% Similarity=0.203 Sum_probs=38.1
Q ss_pred ee-ecCCCCcHHHHHHHHHhhhCCC----CC-----CCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 20 VS-HLDVQEEVKQLKEKIQSEKGSE----YL-----AEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 20 ~~-~v~~~~TV~~LK~~I~~~~~~~----ip-----~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
.. +++ ..||.+|.+.+.++++.. +. .....+..+|+..+++.. .-+++|+.|.++
T Consensus 18 ~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 18 EEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred EEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 44 666 889999999999886520 11 123566678888765432 568899999876
No 100
>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=83.76 E-value=4.6 Score=26.46 Aligned_cols=50 Identities=12% Similarity=0.238 Sum_probs=37.4
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+++...||.+|.+.+ + ++.+...+.++|+++..+ ...++-+++||.|.++
T Consensus 10 ~~~~~~tv~~ll~~l----~--~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii 59 (65)
T cd00565 10 EVEEGATLAELLEEL----G--LDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIV 59 (65)
T ss_pred EcCCCCCHHHHHHHc----C--CCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 555678999888764 5 667788889999988553 3445568899999876
No 101
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=83.69 E-value=7.1 Score=25.55 Aligned_cols=54 Identities=13% Similarity=0.287 Sum_probs=37.8
Q ss_pred CCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 16 WQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 16 ~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+|+.+. ++ ..||.+|.+.+ + +......+-++|+++. .....+.-+++||.|.++
T Consensus 6 Ng~~~~-~~-~~tl~~Ll~~l----~--~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv 59 (65)
T PRK06488 6 NGETLQ-TE-ATTLALLLAEL----D--YEGNWLATAVNGELVH-KEARAQFVLHEGDRIEIL 59 (65)
T ss_pred CCeEEE-cC-cCcHHHHHHHc----C--CCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEE
Confidence 344443 42 35888888764 5 6666677889999986 334667778999999876
No 102
>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=82.82 E-value=4.1 Score=27.95 Aligned_cols=62 Identities=23% Similarity=0.281 Sum_probs=40.9
Q ss_pred Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe------CCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 18 QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY------AGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 18 ~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~------~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
++|- =.+++.|+.+|+..|.+++.+-+|-+ ..+.- .|=-|+.+-++++. +..++.|.|+++.
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLYP~~-~~~~I~~LQD~~~cDLD~d~~V~DV-f~~~~~vrvi~~n 71 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLYPNE-PELEILSLQDSDGCDLDPDFLVKDV-FNSNNVVRVILKN 71 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHCCCC-CCceEEEeecCCCCCCCcccEeeee-eccCCEEEEEecC
Confidence 4566 66789999999999999997634443 33321 23345555555554 4578888887754
No 103
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=82.70 E-value=8.9 Score=24.98 Aligned_cols=55 Identities=16% Similarity=0.213 Sum_probs=38.5
Q ss_pred CCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 16 WQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 16 ~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+|+.+ ++....||.+|-.. .+ ++....-+.++|+++.-.. ..+.-+++||.|-++
T Consensus 6 NG~~~-~~~~~~tl~~lL~~----l~--~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~ 60 (66)
T PRK05659 6 NGEPR-ELPDGESVAALLAR----EG--LAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIV 60 (66)
T ss_pred CCeEE-EcCCCCCHHHHHHh----cC--CCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEE
Confidence 34433 55566788877654 57 8888888899998886442 444458899998876
No 104
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=82.56 E-value=7.5 Score=25.59 Aligned_cols=49 Identities=14% Similarity=0.170 Sum_probs=36.3
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
++....||.+|=+. .+ ++....-+.++|.++..+.. +.+ +++||.|-++
T Consensus 11 ~~~~~~tl~~ll~~----l~--~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv 59 (65)
T PRK05863 11 EVDEQTTVAALLDS----LG--FPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVV 59 (65)
T ss_pred EcCCCCcHHHHHHH----cC--CCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEE
Confidence 45566787776554 57 88889999999998865432 345 8999999876
No 105
>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=82.55 E-value=5.8 Score=26.94 Aligned_cols=46 Identities=20% Similarity=0.175 Sum_probs=35.4
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
++|+++..++.... .+....|..+|+.+|...++ .+....+|-|..
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~--~~~~~~~l~Y~D 48 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFG--LLDEDFQLKYKD 48 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHT--TSTSSEEEEEEE
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhC--CCCccEEEEeeC
Confidence 45666644444444 78888899999999999999 777888998853
No 106
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=82.46 E-value=1.5 Score=26.02 Aligned_cols=25 Identities=36% Similarity=0.700 Sum_probs=11.9
Q ss_pred CCCcHHHHHHHHhhcCHHHHHHHhh-CH
Q psy4259 154 NPELLPTVLQQIGQSNPALLELISH-NQ 180 (203)
Q Consensus 154 nP~~l~~il~~l~~~nP~l~~~i~~-n~ 180 (203)
||.+ ..++++| .+||++.+.+.+ ||
T Consensus 10 ~P~~-~~~l~~~-~~nP~~~~~~~~~nP 35 (41)
T smart00727 10 NPQV-QSLLQDM-QQNPDMLAQMLQENP 35 (41)
T ss_pred CHHH-HHHHHHH-HHCHHHHHHHHHhCH
Confidence 7754 3333332 346665544444 55
No 107
>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=82.24 E-value=9.9 Score=34.93 Aligned_cols=71 Identities=17% Similarity=0.133 Sum_probs=53.6
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCC----CCCceEEE-eCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEY----LAEYQKLI-YAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~i----p~~~qkLi-~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
.+|+|...+ +..+ -++.+..|.+|-..|.+..+.+. ....-.|. -+|..|+.+.||.+.||.||+.+++.-
T Consensus 3 ~RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 3 CRVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 467777543 4466 88899999999999998887421 22334444 368899999999999999999999863
No 108
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=82.07 E-value=7.2 Score=26.15 Aligned_cols=66 Identities=15% Similarity=0.253 Sum_probs=48.6
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCC-CCCCceEEE-eCCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSE-YLAEYQKLI-YAGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~-ip~~~qkLi-~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
+|+... +.+.+..+.-+..+..+..+.. -|++...|- -+|.+|+-++.++|||+.++-++.+.++.
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeec
Confidence 455555 6677777777777766666522 567776665 36999999999999999999999887643
No 109
>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=81.37 E-value=3.2 Score=38.92 Aligned_cols=75 Identities=19% Similarity=0.275 Sum_probs=45.6
Q ss_pred ceEEEEEeCC--CCeee-ecCCCCcHHHHHHHHHhhhCCC------CCCCceEEEe--C--Ce-ecCCC-----------
Q psy4259 7 DISDITQNQW--QQTVS-HLDVQEEVKQLKEKIQSEKGSE------YLAEYQKLIY--A--GK-ILSDD----------- 61 (203)
Q Consensus 7 ~m~I~Vk~~~--g~~~~-~v~~~~TV~~LK~~I~~~~~~~------ip~~~qkLi~--~--Gk-~L~D~----------- 61 (203)
++.|.|-..+ ...+. .|-..+||.++|+||-...=++ ..+++.-|-| + |+ +|.|.
T Consensus 189 ~ltl~v~~~~~~~~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wk 268 (539)
T PF08337_consen 189 TLTLNVVPQEEGSEEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWK 268 (539)
T ss_dssp EEEEEEECTTTSSTCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEE
T ss_pred EEEEEEEecCCCCceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCce
Confidence 3556654333 23355 7878899999999998765332 2344555544 2 23 56554
Q ss_pred --CCccccccCCCCEEEEEeec
Q psy4259 62 --QALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 62 --~tL~~~gI~~~~~i~v~~~k 81 (203)
.||+.|+|.+|++|.++.+.
T Consensus 269 rLNTL~HY~V~dga~vaLv~k~ 290 (539)
T PF08337_consen 269 RLNTLAHYKVPDGATVALVPKQ 290 (539)
T ss_dssp E--BHHHHT--TTEEEEEEES-
T ss_pred EeccHhhcCCCCCceEEEeecc
Confidence 26788999999999877554
No 110
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=80.29 E-value=7.2 Score=27.20 Aligned_cols=62 Identities=21% Similarity=0.219 Sum_probs=40.4
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCC-CceEEEeCC----e-ecCCCCCccc----cccCCCCEEEEEe
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLA-EYQKLIYAG----K-ILSDDQALSE----YNIDESKFIVVML 79 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~-~~qkLi~~G----k-~L~D~~tL~~----~gI~~~~~i~v~~ 79 (203)
+|..+. .+.++.+..+|+++|...++ +.. ....|-|.. . .|..+.-|.+ |.....++|.+.+
T Consensus 8 ~~d~~r~~l~~~~~~~~L~~~i~~r~~--~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~~~~~~~v~l~v 80 (82)
T cd06407 8 GEEKIRFRLPPSWGFTELKQEIAKRFK--LDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYRSSGSHTIRLLV 80 (82)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHhC--CCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHHHCCCCeEEEEe
Confidence 445556 99999999999999999999 654 567777753 1 1233333444 3444455665554
No 111
>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=80.22 E-value=8.9 Score=27.13 Aligned_cols=45 Identities=13% Similarity=0.161 Sum_probs=34.4
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCe
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGK 56 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk 56 (203)
|+|+|. ..|..+. .|+++.+..+|.++|..+++ +. ...+|-|..-
T Consensus 3 ikVKv~-~~~Dv~~i~v~~~i~f~dL~~kIrdkf~--~~-~~~~iKykDE 48 (86)
T cd06408 3 IRVKVH-AQDDTRYIMIGPDTGFADFEDKIRDKFG--FK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEE-ecCcEEEEEcCCCCCHHHHHHHHHHHhC--CC-CceEEEEEcC
Confidence 445554 2566777 99999999999999999999 64 5667777653
No 112
>KOG1364|consensus
Probab=80.01 E-value=2.3 Score=37.52 Aligned_cols=65 Identities=20% Similarity=0.018 Sum_probs=54.1
Q ss_pred EEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC---eecCC--CCCccccccCCCCE
Q psy4259 9 SDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG---KILSD--DQALSEYNIDESKF 74 (203)
Q Consensus 9 ~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G---k~L~D--~~tL~~~gI~~~~~ 74 (203)
.|.||..+|+.+. .+-.+++|.-|-..++..... .+-++.+|+++= |.|.+ +.||.++||++..+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg-~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDG-SDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcc-cccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 4999999999888 888999999998888877754 677888999876 66654 47999999998765
No 113
>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=78.23 E-value=8.9 Score=25.00 Aligned_cols=50 Identities=14% Similarity=0.171 Sum_probs=36.4
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
++....||.+|.+. .+ ++++...+.++|+++..+ ...++-+++||.|.++
T Consensus 9 ~~~~~~tv~~ll~~----l~--~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii 58 (64)
T TIGR01683 9 EVEDGLTLAALLES----LG--LDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIV 58 (64)
T ss_pred EcCCCCcHHHHHHH----cC--CCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 44556789988875 45 667778888999988432 3445678899999876
No 114
>KOG2689|consensus
Probab=77.10 E-value=6.4 Score=33.74 Aligned_cols=69 Identities=13% Similarity=0.195 Sum_probs=52.8
Q ss_pred cceEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC---eecCC-C--CCccccccCCCCEEEE
Q psy4259 6 HDISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG---KILSD-D--QALSEYNIDESKFIVV 77 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G---k~L~D-~--~tL~~~gI~~~~~i~v 77 (203)
..-+|.||..+|+++. +++...|+..|+..|.-.++ ...+-..| +.| +.+.+ + ++|..+++...++|++
T Consensus 209 s~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~--~~~~P~~f-~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 209 SQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRG--DGLDPYSF-HTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred cceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhcc--CCCCCeee-ecCCCceecccccccccHHHhccccchheec
Confidence 3578999999999999 99999999999999999998 43333333 333 44542 2 7899999988877754
No 115
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=76.57 E-value=16 Score=25.64 Aligned_cols=56 Identities=7% Similarity=0.105 Sum_probs=40.3
Q ss_pred CCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 16 WQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 16 ~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
+|+.+ +++...||.+|=+. .+ ++....-+-++|.++. ....+++-+++||.|.++-
T Consensus 24 NG~~~-~~~~~~tl~~LL~~----l~--~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 24 NDQSI-QVDISSSLAQIIAQ----LS--LPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred CCeEE-EcCCCCcHHHHHHH----cC--CCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 34433 55567788877654 46 7777788889999984 3457777899999998763
No 116
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=76.45 E-value=19 Score=23.65 Aligned_cols=50 Identities=14% Similarity=0.205 Sum_probs=35.9
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
++....||.+|-+. .+ +......+-.+|.++.. ...+++-+++||.|.++
T Consensus 11 ~~~~~~tl~~ll~~----l~--~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii 60 (66)
T PRK08053 11 QCAAGQTVHELLEQ----LN--QLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLF 60 (66)
T ss_pred EcCCCCCHHHHHHH----cC--CCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEE
Confidence 55566789888765 45 55566788899999853 23555568899999876
No 117
>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=76.32 E-value=10 Score=26.38 Aligned_cols=66 Identities=15% Similarity=0.221 Sum_probs=40.2
Q ss_pred EEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe--CCeecCCCCCccccccCCCCEEEEEeec
Q psy4259 10 DITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY--AGKILSDDQALSEYNIDESKFIVVMLSK 81 (203)
Q Consensus 10 I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~--~Gk~L~D~~tL~~~gI~~~~~i~v~~~k 81 (203)
+.|+..+.....-|- ..++.+|+.+....++ ++.+..+|.. .|.+++|+.-+.. +. .+++.|++.+
T Consensus 5 ~kv~~~~r~~k~Gv~-A~sL~eL~~K~~~~l~--~~~~~~~lvL~eDGT~VddEeyF~t--Lp-~nT~lm~L~~ 72 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVA-ASSLEELLEKACDKLQ--LPEEPVRLVLEEDGTEVDDEEYFQT--LP-DNTVLMLLEK 72 (78)
T ss_dssp EEEEETTSSCEEEEE-ESSHHHHHHHHHHHHT---SSSTCEEEETTTTCBESSCHHHCC--SS-SSEEEEEEES
T ss_pred EEEecCCCCceEeEE-cCCHHHHHHHHHHHhC--CCCcCcEEEEeCCCcEEccHHHHhh--CC-CCCEEEEECC
Confidence 345555443333221 2589999999999999 8877777655 6888887643332 22 3455555544
No 118
>smart00455 RBD Raf-like Ras-binding domain.
Probab=75.61 E-value=9.1 Score=25.79 Aligned_cols=48 Identities=17% Similarity=0.086 Sum_probs=40.2
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC--eecC
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG--KILS 59 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G--k~L~ 59 (203)
+.|-..+|+... .+.+..||.++=..+.++.| +.++...+.+.| |.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~--l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRG--LNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcC--CCHHHEEEEEcCCCccee
Confidence 356677888888 99999999999999999999 999988888755 4554
No 119
>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=74.75 E-value=12 Score=25.18 Aligned_cols=44 Identities=18% Similarity=0.082 Sum_probs=32.3
Q ss_pred EEEEEeCCCCeee-ecC-CCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 9 SDITQNQWQQTVS-HLD-VQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 9 ~I~Vk~~~g~~~~-~v~-~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
+|+++.. |..+. .+. ...|..+|+.+|...++ ......+|-|..
T Consensus 2 ~vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~--~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFG--LDAVSFKLKYPD 47 (81)
T ss_pred cEEEEec-CCCEEEEEecCCCCHHHHHHHHHHHhC--CCCCcEEEEeeC
Confidence 3455533 45555 776 89999999999999999 665667777754
No 120
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=74.75 E-value=15 Score=25.64 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=39.3
Q ss_pred CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe-CCeecCCCCCccccccCCCCEEEEE
Q psy4259 17 QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY-AGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 17 g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~-~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+..+. .++...||+++-+. .| +|..+..+|+ +|+...= +|-+++|+.|.|.
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LG--VP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LG--VPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVY 74 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cC--CChHHeEEEEECCEECCC-----cccCCCCCEEEEE
Confidence 45567 88999999887654 78 9999998775 7877643 3778899999875
No 121
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=74.56 E-value=7.1 Score=29.44 Aligned_cols=74 Identities=12% Similarity=0.157 Sum_probs=50.1
Q ss_pred cceEEEEEeCC---CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc--c-cCCCCEEEEE
Q psy4259 6 HDISDITQNQW---QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY--N-IDESKFIVVM 78 (203)
Q Consensus 6 ~~m~I~Vk~~~---g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~--g-I~~~~~i~v~ 78 (203)
+.+-|+|.-.. .+... =|+.+.||++|...|....+ +.++..-|..++.++..+.+++++ . -.++.++++.
T Consensus 26 drIPVIvEk~~~s~dK~KfllVP~d~tV~qF~~iIRkrl~--l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~ 103 (121)
T PTZ00380 26 GHVAVVVEAAEKAGSKVHFLALPRDATVAELEAAVRQALG--TSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVS 103 (121)
T ss_pred CccEEEEeecCCCCCceEEEEcCCCCcHHHHHHHHHHHcC--CChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEE
Confidence 34556664432 12223 58899999999999999999 888885444456566667788775 1 2346788887
Q ss_pred eec
Q psy4259 79 LSK 81 (203)
Q Consensus 79 ~~k 81 (203)
.+.
T Consensus 104 Ys~ 106 (121)
T PTZ00380 104 VRT 106 (121)
T ss_pred Ecc
Confidence 654
No 122
>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=74.07 E-value=11 Score=27.97 Aligned_cols=58 Identities=16% Similarity=0.131 Sum_probs=41.6
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCce-EEEeCCeecCCCCCcccc--ccC-CCCEEEEEeec
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQ-KLIYAGKILSDDQALSEY--NID-ESKFIVVMLSK 81 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~q-kLi~~Gk~L~D~~tL~~~--gI~-~~~~i~v~~~k 81 (203)
-|+.+.||.+|...|..... +.++.- -|..++.....+.+++++ .-+ ++.++++..+.
T Consensus 46 lVp~~~tv~~f~~~irk~l~--l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyl~Ys~ 107 (112)
T cd01611 46 LVPSDLTVGQFVYIIRKRIQ--LRPEKALFLFVNNSLPPTSATMSQLYEEHKDEDGFLYMTYSS 107 (112)
T ss_pred EecCCCCHHHHHHHHHHHhC--CCccceEEEEECCccCCchhHHHHHHHHhCCCCCEEEEEEec
Confidence 68899999999999999988 777764 444455455666777765 233 36788887654
No 123
>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=73.64 E-value=3.3 Score=37.16 Aligned_cols=36 Identities=28% Similarity=0.658 Sum_probs=21.9
Q ss_pred hhCCHHHH-H-HHHHHHhCCCcHHHHHHHHhhcCHH-HHHHHhh
Q psy4259 138 LRTQPQFQ-Q-MRTVVQQNPELLPTVLQQIGQSNPA-LLELISH 178 (203)
Q Consensus 138 l~~~P~~~-~-~r~~i~~nP~~l~~il~~l~~~nP~-l~~~i~~ 178 (203)
+.+||++- . |.++-++||++++.|. + ||+ +.+++..
T Consensus 264 vq~NP~~L~~lLqql~~~nP~l~q~I~----~-n~e~Fl~ll~~ 302 (378)
T TIGR00601 264 VQQNPQLLPPLLQQIGQENPQLLQQIS----Q-HPEQFLQMLNE 302 (378)
T ss_pred HHHCHHHHHHHHHHHHhhCHHHHHHHH----H-CHHHHHHHhcC
Confidence 34699853 3 4444568999965443 2 555 5677654
No 124
>KOG4147|consensus
Probab=73.36 E-value=7.7 Score=28.70 Aligned_cols=58 Identities=16% Similarity=0.227 Sum_probs=35.8
Q ss_pred ecCC-CCcHHHHHHHHHhhhCCC--CCC------CceEEEe----------------CC-eecCCC-CCccccccCCCCE
Q psy4259 22 HLDV-QEEVKQLKEKIQSEKGSE--YLA------EYQKLIY----------------AG-KILSDD-QALSEYNIDESKF 74 (203)
Q Consensus 22 ~v~~-~~TV~~LK~~I~~~~~~~--ip~------~~qkLi~----------------~G-k~L~D~-~tL~~~gI~~~~~ 74 (203)
+++. +.||.+|+..|......+ +++ +..|+++ .. ..|+|+ +||..|||.+...
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 7776 789999888777654311 221 2334332 22 456644 7899999988776
Q ss_pred EEEEe
Q psy4259 75 IVVML 79 (203)
Q Consensus 75 i~v~~ 79 (203)
|-+..
T Consensus 108 is~F~ 112 (127)
T KOG4147|consen 108 ISFFC 112 (127)
T ss_pred hhhhh
Confidence 65543
No 125
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=72.76 E-value=23 Score=22.88 Aligned_cols=49 Identities=10% Similarity=0.055 Sum_probs=33.3
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
++....||.+|.+.+ + +. ....+.++|+.+..+. ..+.-+++||.|.++
T Consensus 11 ~~~~~~tl~~ll~~l----~--~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~ 59 (65)
T PRK06944 11 SLPDGATVADALAAY----G--AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLV 59 (65)
T ss_pred ECCCCCcHHHHHHhh----C--CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEE
Confidence 555677899888764 4 43 3466778998875432 334448889999876
No 126
>KOG4250|consensus
Probab=71.75 E-value=8.4 Score=37.23 Aligned_cols=43 Identities=16% Similarity=0.269 Sum_probs=37.1
Q ss_pred eCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeec
Q psy4259 14 NQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKIL 58 (203)
Q Consensus 14 ~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L 58 (203)
..++..+. -++++.|+..|+..|...+| +|.+.|.|+|.|...
T Consensus 321 ~~~~~~~~~~~~~~ntl~~~~~~I~~~Tg--ipe~~qeLL~e~~~~ 364 (732)
T KOG4250|consen 321 MVQATSHEYYVHADNTLHSLIERISKQTG--IPEGKQELLFEGGLS 364 (732)
T ss_pred eccceEEEEecChhhhHHHHHHHHHHhhC--CCCccceeeeecCcc
Confidence 34566677 89999999999999999999 999999999997543
No 127
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=70.91 E-value=27 Score=23.07 Aligned_cols=56 Identities=11% Similarity=0.080 Sum_probs=38.2
Q ss_pred CCCeeeecCCC-CcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 16 WQQTVSHLDVQ-EEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 16 ~g~~~~~v~~~-~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
+|+.+ ++... .||.+|-+ ..+ +++...-+-++|.++.-+ ...++-+++||.|.++-
T Consensus 6 NG~~~-~~~~~~~tv~~lL~----~l~--~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 6 NGNQI-EVPESVKTVAELLT----HLE--LDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CCEEE-EcCCCcccHHHHHH----HcC--CCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 34433 44444 57777654 356 777888888999998543 45666789999998763
No 128
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=70.64 E-value=1.6 Score=25.48 Aligned_cols=15 Identities=13% Similarity=0.297 Sum_probs=11.6
Q ss_pred hhhHHHHHhCCcCCC
Q psy4259 110 TATSDSMLKVFFERV 124 (203)
Q Consensus 110 ~~~v~~~~~mG~~~~ 124 (203)
.+.|+.|++|||+++
T Consensus 3 ~~~v~~L~~mGf~~~ 17 (37)
T PF00627_consen 3 EEKVQQLMEMGFSRE 17 (37)
T ss_dssp HHHHHHHHHHTS-HH
T ss_pred HHHHHHHHHcCCCHH
Confidence 468999999999653
No 129
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=70.40 E-value=3.8 Score=28.69 Aligned_cols=31 Identities=39% Similarity=0.544 Sum_probs=18.4
Q ss_pred HHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhh
Q psy4259 144 FQQMRTVVQQNPELLPTVLQQIGQSNPALLELISH 178 (203)
Q Consensus 144 ~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~ 178 (203)
+.+|+.++..||+.++.+|. .||+|+-++-+
T Consensus 35 l~~mK~l~~~~p~~ar~lL~----~nPqLa~Al~q 65 (84)
T PF14327_consen 35 LSQMKQLAQQNPEQARQLLQ----QNPQLAYALFQ 65 (84)
T ss_dssp HHHHHHHHC----HHHHHHH----S-THHHHHHHH
T ss_pred HHHHHHHHHhCHHHHHHHHH----HCcHHHHHHHH
Confidence 34677888888888777774 58888876654
No 130
>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=70.11 E-value=13 Score=25.25 Aligned_cols=44 Identities=14% Similarity=0.049 Sum_probs=37.0
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
+.|-..+|..-. .|.+..||.++=.++.++.| +.++...|.+.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~--l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRG--LNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcC--CCHHHEEEEEec
Confidence 456677888777 99999999999999999999 888877766654
No 131
>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=69.95 E-value=17 Score=24.91 Aligned_cols=32 Identities=22% Similarity=0.134 Sum_probs=22.2
Q ss_pred EEEEeCCCCeee--ecC-CCCcHHHHHHHHHhhhC
Q psy4259 10 DITQNQWQQTVS--HLD-VQEEVKQLKEKIQSEKG 41 (203)
Q Consensus 10 I~Vk~~~g~~~~--~v~-~~~TV~~LK~~I~~~~~ 41 (203)
|+.|....+.+. .++ ...+|.+||..|..+.+
T Consensus 1 V~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 1 VHYKFKSQKDYDTITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT
T ss_pred CeEEecccCCccEEEECCCeeEHHHHHHHHHHHhC
Confidence 345555555555 555 46899999999988776
No 132
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=68.21 E-value=2.4 Score=24.58 Aligned_cols=14 Identities=21% Similarity=0.366 Sum_probs=11.6
Q ss_pred hhHHHHHhCCcCCC
Q psy4259 111 ATSDSMLKVFFERV 124 (203)
Q Consensus 111 ~~v~~~~~mG~~~~ 124 (203)
+.|+.|++|||+++
T Consensus 3 ~~v~~L~~mGf~~~ 16 (38)
T cd00194 3 EKLEQLLEMGFSRE 16 (38)
T ss_pred HHHHHHHHcCCCHH
Confidence 57899999999754
No 133
>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=67.86 E-value=17 Score=25.28 Aligned_cols=34 Identities=21% Similarity=0.218 Sum_probs=30.6
Q ss_pred eee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC
Q psy4259 19 TVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA 54 (203)
Q Consensus 19 ~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~ 54 (203)
++. .+.+..+..+|..+|+++.. .+++..+|.|.
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~--l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALP--QQAQRGQLSYR 42 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhc--CChhhcEEEec
Confidence 344 88899999999999999999 99999999996
No 134
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=67.64 E-value=7.1 Score=27.49 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=28.7
Q ss_pred CCCcHHHHHHHHHh-hhCCCCCCC----ceEEEeCCee----cCCCCCccccccCCCCEEEEE
Q psy4259 25 VQEEVKQLKEKIQS-EKGSEYLAE----YQKLIYAGKI----LSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 25 ~~~TV~~LK~~I~~-~~~~~ip~~----~qkLi~~Gk~----L~D~~tL~~~gI~~~~~i~v~ 78 (203)
..+|+++|-++|.+ +.| +..- .-++||..-. -..+++|+++||++|+++.|.
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg--~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLG--MNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp TT-BHHHHHHHCCCCCS----SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hhCcHHHHHHHHHHhccC--CCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 46799999887754 455 3221 3356665432 123478999999999988764
No 135
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=67.52 E-value=2.2 Score=28.04 Aligned_cols=6 Identities=67% Similarity=1.110 Sum_probs=2.8
Q ss_pred HhCCCc
Q psy4259 152 QQNPEL 157 (203)
Q Consensus 152 ~~nP~~ 157 (203)
.+||++
T Consensus 33 ~~nP~l 38 (59)
T PF09280_consen 33 QSNPQL 38 (59)
T ss_dssp CCSHHH
T ss_pred ccCHHH
Confidence 345554
No 136
>KOG3391|consensus
Probab=67.31 E-value=5.9 Score=30.48 Aligned_cols=30 Identities=17% Similarity=0.406 Sum_probs=24.7
Q ss_pred eecCCCCCccccccCCCCEEEEEeecCCCC
Q psy4259 56 KILSDDQALSEYNIDESKFIVVMLSKPKPT 85 (203)
Q Consensus 56 k~L~D~~tL~~~gI~~~~~i~v~~~k~~~~ 85 (203)
|-.+|++||.+++++-||.|.|.++.+.-.
T Consensus 112 Kg~ddnktL~~~kf~iGD~lDVaI~~p~~~ 141 (151)
T KOG3391|consen 112 KGIDDNKTLQQTKFEIGDYLDVAITPPNRR 141 (151)
T ss_pred ccCCccchhhhCCccccceEEEEecCcccC
Confidence 445788999999999999999988766543
No 137
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=66.03 E-value=2.8 Score=24.15 Aligned_cols=14 Identities=29% Similarity=0.420 Sum_probs=11.5
Q ss_pred hhHHHHHhCCcCCC
Q psy4259 111 ATSDSMLKVFFERV 124 (203)
Q Consensus 111 ~~v~~~~~mG~~~~ 124 (203)
+.|+.|++|||+++
T Consensus 3 ~~v~~L~~mGf~~~ 16 (37)
T smart00165 3 EKIDQLLEMGFSRE 16 (37)
T ss_pred HHHHHHHHcCCCHH
Confidence 57899999999654
No 138
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=65.56 E-value=27 Score=30.75 Aligned_cols=51 Identities=8% Similarity=0.102 Sum_probs=38.1
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEe
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
++....||.+|-+. .+ ++.+..-+.++|+++.- ..+.++-+++||.|.++-
T Consensus 11 el~e~~TL~dLL~~----L~--i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~ 61 (326)
T PRK11840 11 QVPAGLTIAALLAE----LG--LAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVH 61 (326)
T ss_pred ecCCCCcHHHHHHH----cC--CCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEE
Confidence 55566788877654 57 88889999999999953 345666788999888763
No 139
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=65.00 E-value=35 Score=22.94 Aligned_cols=54 Identities=17% Similarity=0.035 Sum_probs=38.0
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC--CeecCCCCCcc
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA--GKILSDDQALS 65 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~--Gk~L~D~~tL~ 65 (203)
+.|-.++|+.-. .+.+..||.++=.++.++.+ +.++...+... .+.|+-++...
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~--L~~~~~~V~~~~~~k~l~~~~d~~ 59 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRG--LNPECCDVRLVGEKKPLDWDQDSS 59 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT----CCCEEEEEEEEEEEE-TTSBGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcC--CCHHHEEEEEcCCCccccCCCcee
Confidence 556777888777 99999999999999999999 88877665443 45665554443
No 140
>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=63.92 E-value=19 Score=26.31 Aligned_cols=58 Identities=19% Similarity=0.159 Sum_probs=41.2
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCc-eEEEeCCeecCCCCCcccc--c-cCCCCEEEEEeec
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEY-QKLIYAGKILSDDQALSEY--N-IDESKFIVVMLSK 81 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~-qkLi~~Gk~L~D~~tL~~~--g-I~~~~~i~v~~~k 81 (203)
=|+.+.||++|...|..... +.++. +-|..++.....+.+++++ . -.++.++++..+.
T Consensus 38 Lvp~~~tv~qf~~~ir~rl~--l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys~ 99 (104)
T PF02991_consen 38 LVPKDLTVGQFVYIIRKRLQ--LSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYSS 99 (104)
T ss_dssp EEETTSBHHHHHHHHHHHTT----TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEES
T ss_pred EEcCCCchhhHHHHhhhhhc--CCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEecc
Confidence 35678999999999999998 76664 4566677777788888875 1 2357788887654
No 141
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=63.54 E-value=34 Score=23.40 Aligned_cols=55 Identities=7% Similarity=0.030 Sum_probs=42.4
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC-CeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA-GKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~-Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
.|..+.....+-+..++++. +++..--+|.+ |--+...+|-.+.-++.|+.+.++
T Consensus 21 sVPE~apftaVlkfaAeeF~--vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 21 SVPEEAPFTAVLKFAAEEFK--VPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEETTSBHHHHHHHHHHHTT--S-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred ecCCCCchHHHHHHHHHHcC--CCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 88888878888888899998 99888888876 766777889988889999988764
No 142
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=63.22 E-value=11 Score=26.43 Aligned_cols=25 Identities=24% Similarity=0.598 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHHHhCCCcHHHHHHH
Q psy4259 140 TQPQFQQMRTVVQQNPELLPTVLQQ 164 (203)
Q Consensus 140 ~~P~~~~~r~~i~~nP~~l~~il~~ 164 (203)
.-|.|..++.+...||+.+.++-+.
T Consensus 2 ~lp~FD~L~~LA~~dPe~fe~lr~~ 26 (83)
T PF11333_consen 2 ELPDFDELKELAQNDPEAFEQLRQE 26 (83)
T ss_pred CCCCHHHHHHHHHhCHHHHHHHHHH
Confidence 3578999999999999998887655
No 143
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=62.75 E-value=44 Score=22.42 Aligned_cols=50 Identities=18% Similarity=0.204 Sum_probs=37.1
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
+++...||.+|-+. .+ ++.+..-+.++|.++..+ -..+.-+++||.|.++
T Consensus 13 e~~~~~tv~dLL~~----l~--~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv 62 (68)
T COG2104 13 EIAEGTTVADLLAQ----LG--LNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVV 62 (68)
T ss_pred EcCCCCcHHHHHHH----hC--CCCceEEEEECCEEccch-hhhhccccCCCEEEEE
Confidence 55555889887654 67 888888899999998643 3455567888988775
No 144
>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=61.53 E-value=17 Score=28.49 Aligned_cols=53 Identities=11% Similarity=0.300 Sum_probs=36.4
Q ss_pred ceEEEEEeCCCCeeeecCC-CCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc
Q psy4259 7 DISDITQNQWQQTVSHLDV-QEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY 67 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~~v~~-~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~ 67 (203)
.+.++|+. |..+.++.. .+.+..+++.+.+.+. ++-+ ++-|+-++...|++||
T Consensus 67 ~veL~V~v--Gri~lele~~~~~ie~I~~iCee~lp--f~y~----i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 67 EVELTVKV--GRIILELEDEEDVIEKIREICEEVLP--FGYD----IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEEEE--eEEEEEecCcHHHHHHHHHHHHHhCC--CceE----eeeeEEeccCCchhhh
Confidence 45566663 444447777 6777777776666655 4333 4679999999999998
No 145
>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=60.82 E-value=12 Score=26.32 Aligned_cols=55 Identities=13% Similarity=0.179 Sum_probs=37.2
Q ss_pred ecCCCCcHHHHHHHHHhhhCCC-----CCCCceEEEeCCe-ecC----C--CCCccccccCCCCEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSE-----YLAEYQKLIYAGK-ILS----D--DQALSEYNIDESKFIVV 77 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~-----ip~~~qkLi~~Gk-~L~----D--~~tL~~~gI~~~~~i~v 77 (203)
+|++++|+.+|-+.+.+..... +..+.-.|++.+- .|+ . +++|.++ +.+|+.|+|
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~V 68 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITV 68 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEE
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEE
Confidence 5789999999999999874310 2333445555442 122 2 4789999 999999876
No 146
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=59.74 E-value=58 Score=26.62 Aligned_cols=58 Identities=26% Similarity=0.288 Sum_probs=32.7
Q ss_pred eEEEEEeCCC---Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCC---ceEE--EeCCee---cCCCCCcccc
Q psy4259 8 ISDITQNQWQ---QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAE---YQKL--IYAGKI---LSDDQALSEY 67 (203)
Q Consensus 8 m~I~Vk~~~g---~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~---~qkL--i~~Gk~---L~D~~tL~~~ 67 (203)
++|+.-..+- +.+. -|+.+.||.||.+.+..+.+ ++.+ .+|| +++||+ +..+.+|..+
T Consensus 21 ~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~--~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 21 FKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVG--FSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT------TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcC--CCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 4555443332 2355 78999999999999999998 7655 4454 467755 6677778766
No 147
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=58.52 E-value=26 Score=24.09 Aligned_cols=38 Identities=16% Similarity=0.267 Sum_probs=28.9
Q ss_pred CCcHHHHHHHHHhhhCCCCCCCceEEE--eCCeecCCCCCcc
Q psy4259 26 QEEVKQLKEKIQSEKGSEYLAEYQKLI--YAGKILSDDQALS 65 (203)
Q Consensus 26 ~~TV~~LK~~I~~~~~~~ip~~~qkLi--~~Gk~L~D~~tL~ 65 (203)
..|..+|+.+....++ ++....+|. -.|..++|+.-+.
T Consensus 18 A~sL~eL~~K~~~~l~--l~~~~~~l~L~eDGT~VddEeyF~ 57 (74)
T smart00266 18 ASSLEELLSKVCDKLA--LPDSPVTLVLEEDGTIVDDEEYFQ 57 (74)
T ss_pred cCCHHHHHHHHHHHhC--CCCCCcEEEEecCCcEEccHHHHh
Confidence 3479999999999999 886556654 3799998775444
No 148
>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=58.26 E-value=20 Score=27.95 Aligned_cols=53 Identities=19% Similarity=0.306 Sum_probs=37.2
Q ss_pred ceEEEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc
Q psy4259 7 DISDITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY 67 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~ 67 (203)
.|.++|+. |..+.++...+.+..+++.+.+.+. ++-+ +..|+-+.+..|+.||
T Consensus 66 ~veL~V~V--GrI~le~~~~~~i~~I~eiC~e~~p--F~y~----i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 66 DVELRVQV--GRIILELEDEDIVEEIEEICKEMLP--FGYE----VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEEEEE--eEEEEEecCHHHHHHHHHHHHhhCC--CceE----eeeeeEeecCCchhhh
Confidence 45666663 4444477777778888777666655 4333 5679999999999998
No 149
>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=56.20 E-value=66 Score=22.34 Aligned_cols=63 Identities=10% Similarity=0.126 Sum_probs=37.9
Q ss_pred EEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEE--EeCCeecCCCCCccccccCCCCEEEE
Q psy4259 10 DITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKL--IYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 10 I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkL--i~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
+.|++.+.....-| -..+..+|+.+....+. ++.+..+| .-.|..++|+.-+.. +.++..+++
T Consensus 5 fkV~~~~r~~k~GV-~A~sL~EL~~K~~~~l~--~~~~~~~lvL~eDGT~Vd~EeyF~~--LpdnT~lm~ 69 (78)
T cd06539 5 FRVSNHDRSSRRGV-MASSLQELISKTLDALV--ITSGLVTLVLEEDGTVVDTEEFFQT--LGDNTHFMV 69 (78)
T ss_pred EEEecCCCCceEEE-EecCHHHHHHHHHHHhC--CCCCCcEEEEeCCCCEEccHHHHhh--CCCCCEEEE
Confidence 34554444332322 13479999999999999 77554554 456999977744433 334444443
No 150
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=55.88 E-value=27 Score=24.26 Aligned_cols=37 Identities=14% Similarity=0.175 Sum_probs=28.1
Q ss_pred CcHHHHHHHHHhhhCCCCCCCceEEE--eCCeecCCCCCcc
Q psy4259 27 EEVKQLKEKIQSEKGSEYLAEYQKLI--YAGKILSDDQALS 65 (203)
Q Consensus 27 ~TV~~LK~~I~~~~~~~ip~~~qkLi--~~Gk~L~D~~tL~ 65 (203)
.|..+|+.+...+++ ++....+|+ -.|..++|+.-+.
T Consensus 21 ~sL~eL~~K~~~~l~--l~~~~~~lvL~eDGTeVddEeYF~ 59 (78)
T cd01615 21 SSLEELLSKACEKLK--LPSAPVTLVLEEDGTEVDDEEYFQ 59 (78)
T ss_pred CCHHHHHHHHHHHcC--CCCCCeEEEEeCCCcEEccHHHHh
Confidence 479999999999999 865555554 3699998774443
No 151
>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=55.64 E-value=77 Score=23.00 Aligned_cols=76 Identities=13% Similarity=0.093 Sum_probs=48.1
Q ss_pred cceEEEEEeCC-CCeee-ecCCCCcHHHHHHHHHhhh----CCCCCCC-ceEEEeCCee--cCCCCCcccc-----ccCC
Q psy4259 6 HDISDITQNQW-QQTVS-HLDVQEEVKQLKEKIQSEK----GSEYLAE-YQKLIYAGKI--LSDDQALSEY-----NIDE 71 (203)
Q Consensus 6 ~~m~I~Vk~~~-g~~~~-~v~~~~TV~~LK~~I~~~~----~~~ip~~-~qkLi~~Gk~--L~D~~tL~~~-----gI~~ 71 (203)
..+.|.|...+ ...++ .+++++|+.+|.+.+..+. +..-+.+ +-.|--.|+. |..+..|.+| .++.
T Consensus 16 ~~i~v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~ 95 (108)
T smart00144 16 NKILIVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKN 95 (108)
T ss_pred CeEEEEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhc
Confidence 34566666544 34577 9999999999999887762 1102222 3444445643 5566667766 3777
Q ss_pred CCEEEEEeec
Q psy4259 72 SKFIVVMLSK 81 (203)
Q Consensus 72 ~~~i~v~~~k 81 (203)
|..+++++..
T Consensus 96 ~~~~~L~L~~ 105 (108)
T smart00144 96 GREPHLVLMT 105 (108)
T ss_pred CCCceEEEEe
Confidence 8888887644
No 152
>KOG0007|consensus
Probab=55.04 E-value=5.5 Score=35.13 Aligned_cols=48 Identities=35% Similarity=0.412 Sum_probs=40.3
Q ss_pred CCCCeee-ecC-CCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCc
Q psy4259 15 QWQQTVS-HLD-VQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQAL 64 (203)
Q Consensus 15 ~~g~~~~-~v~-~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL 64 (203)
.+|.... .+. .+..|..+|.++....+ ++++.|++.+.|..|+|+..+
T Consensus 290 ~dg~~~~~~~~~~~~~~~~~k~k~~~~~~--i~~~~q~~~~~~~~l~d~~~~ 339 (341)
T KOG0007|consen 290 ADGQVIKITVQSLSENVASLKEKIADESQ--IPANKQKLRGEGAFLKDNRSL 339 (341)
T ss_pred CCCceeeeccccccccccccccccccccc--cchhheeeccCCcccCccccc
Confidence 4566655 554 77889999999999999 999999999999999998443
No 153
>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=54.99 E-value=47 Score=23.18 Aligned_cols=28 Identities=7% Similarity=0.005 Sum_probs=23.2
Q ss_pred CCCeee-ecCC--CCcHHHHHHHHHhhhCCCCC
Q psy4259 16 WQQTVS-HLDV--QEEVKQLKEKIQSEKGSEYL 45 (203)
Q Consensus 16 ~g~~~~-~v~~--~~TV~~LK~~I~~~~~~~ip 45 (203)
+|.+.. .+++ +.|..+|++.|...++ ++
T Consensus 8 ~~d~~rf~~~~~~~~~~~~L~~ev~~rf~--l~ 38 (81)
T cd06396 8 NGESQSFLVSDSENTTWASVEAMVKVSFG--LN 38 (81)
T ss_pred CCeEEEEEecCCCCCCHHHHHHHHHHHhC--CC
Confidence 455555 7877 7799999999999999 77
No 154
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=54.59 E-value=8.8 Score=22.83 Aligned_cols=25 Identities=20% Similarity=0.421 Sum_probs=18.3
Q ss_pred CCCcHHHHHHHHhhcCHHHHHHHhh
Q psy4259 154 NPELLPTVLQQIGQSNPALLELISH 178 (203)
Q Consensus 154 nP~~l~~il~~l~~~nP~l~~~i~~ 178 (203)
|.+.|+.+++.+.+.||++.+.|..
T Consensus 11 d~~qL~~lL~~l~~~HPei~~~i~~ 35 (38)
T PF14483_consen 11 DKDQLQSLLQSLCERHPEIQQEIRS 35 (38)
T ss_dssp -HHHHHHHHHHHHHHSTHHHHHHHT
T ss_pred CHHHHHHHHHHHHHhChhHHHHHHh
Confidence 3455777888888889998887653
No 155
>KOG3439|consensus
Probab=53.15 E-value=48 Score=24.64 Aligned_cols=51 Identities=4% Similarity=0.017 Sum_probs=40.1
Q ss_pred ceEEEEEeCCC----Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecC
Q psy4259 7 DISDITQNQWQ----QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILS 59 (203)
Q Consensus 7 ~m~I~Vk~~~g----~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~ 59 (203)
.+.|.+|..++ +.-. .|++++|++.+-..|.+..+ ++..++-.+|-..-..
T Consensus 30 kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lk--l~as~slflYVN~sFA 85 (116)
T KOG3439|consen 30 KVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLK--LQASDSLFLYVNNSFA 85 (116)
T ss_pred eEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhC--CcccCeEEEEEcCccC
Confidence 46677776654 3334 88999999999999999999 9999998888665543
No 156
>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=51.24 E-value=83 Score=22.07 Aligned_cols=58 Identities=10% Similarity=0.179 Sum_probs=40.6
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCee-c-CCCCCcccc--ccCCCCEEEEEeec
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKI-L-SDDQALSEY--NIDESKFIVVMLSK 81 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~-L-~D~~tL~~~--gI~~~~~i~v~~~k 81 (203)
-|+.+.||++|...|..+.+ +.+++--.+|-+.. + ..+.+++++ ...++.++++....
T Consensus 21 lv~~~~tv~~~~~~lrk~L~--l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 21 KISATQSFQAVIDFLRKRLK--LKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred EeCCCCCHHHHHHHHHHHhC--CCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEeC
Confidence 68899999999999999998 77665444454443 3 344666553 22678888887654
No 157
>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=49.63 E-value=54 Score=23.56 Aligned_cols=39 Identities=21% Similarity=0.079 Sum_probs=31.3
Q ss_pred EEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe
Q psy4259 12 TQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY 53 (203)
Q Consensus 12 Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~ 53 (203)
++-.+|.+.. .|+.+.|..+|+.++.+.++ +... ..|-|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~--~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFG--AGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhC--CCCc-eEEEE
Confidence 4556777777 99999999999999999999 6665 55544
No 158
>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=49.53 E-value=47 Score=23.55 Aligned_cols=54 Identities=19% Similarity=0.262 Sum_probs=36.2
Q ss_pred CCCcHHHHHHHHHhhhCCCCCC-CceEEEeC---Ce--ecCCCCCcccc-----ccCCCCEEEEEee
Q psy4259 25 VQEEVKQLKEKIQSEKGSEYLA-EYQKLIYA---GK--ILSDDQALSEY-----NIDESKFIVVMLS 80 (203)
Q Consensus 25 ~~~TV~~LK~~I~~~~~~~ip~-~~qkLi~~---Gk--~L~D~~tL~~~-----gI~~~~~i~v~~~ 80 (203)
++.+..+|+++|.+.++ ++. ....|-|. |. .|.++.-|.++ +.....++.+.++
T Consensus 23 ~d~~~~~L~~kI~~~f~--l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~~lrl~v~ 87 (91)
T cd06398 23 LDLNMDGLREKVEELFS--LSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLNPLRIDVT 87 (91)
T ss_pred CCCCHHHHHHHHHHHhC--CCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCceEEEEEE
Confidence 47999999999999999 877 56778885 32 23444444333 3335667766654
No 159
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=49.36 E-value=43 Score=20.48 Aligned_cols=27 Identities=30% Similarity=0.521 Sum_probs=16.6
Q ss_pred HHHHHHhhcCHHHHHHHhh--CHHHHHHHH
Q psy4259 160 TVLQQIGQSNPALLELISH--NQEAFVRML 187 (203)
Q Consensus 160 ~il~~l~~~nP~l~~~i~~--n~~~f~~ml 187 (203)
.+++.+ .+||.|++.+.+ ++++|+.+-
T Consensus 8 ~Fl~~~-~~d~~l~~~l~~~~~~~e~~~lA 36 (49)
T PF07862_consen 8 AFLEKV-KSDPELREQLKACQNPEEVVALA 36 (49)
T ss_pred HHHHHH-hcCHHHHHHHHhcCCHHHHHHHH
Confidence 334433 466777766655 777777765
No 160
>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=48.67 E-value=57 Score=23.02 Aligned_cols=67 Identities=7% Similarity=0.081 Sum_probs=46.5
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCC-ceEEE------eCCeecCCCCCcccc----ccCCCCEE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAE-YQKLI------YAGKILSDDQALSEY----NIDESKFI 75 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~-~qkLi------~~Gk~L~D~~tL~~~----gI~~~~~i 75 (203)
.-|+|-..+|.... .|+...|+.++-+.+..+.+ +..+ .--|+ +=.+.++|...|-++ ++..++.+
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h--~~~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l 80 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNH--CQDDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVL 80 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhC--CCCCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEE
Confidence 34677778899999 99999999999999999998 4333 33443 124677887665554 45444444
Q ss_pred E
Q psy4259 76 V 76 (203)
Q Consensus 76 ~ 76 (203)
+
T Consensus 81 ~ 81 (85)
T cd01787 81 F 81 (85)
T ss_pred E
Confidence 3
No 161
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=48.34 E-value=19 Score=25.52 Aligned_cols=51 Identities=25% Similarity=0.474 Sum_probs=26.3
Q ss_pred HHHhhCCHHH----HHHHHHHHhCCCcHHHHHHHHhhcCHHHHH-HHhhCHHHHHHHHcC
Q psy4259 135 LAFLRTQPQF----QQMRTVVQQNPELLPTVLQQIGQSNPALLE-LISHNQEAFVRMLNE 189 (203)
Q Consensus 135 l~~l~~~P~~----~~~r~~i~~nP~~l~~il~~l~~~nP~l~~-~i~~n~~~f~~ml~~ 189 (203)
|..+++++.| +++++.|++||++ +.+|+ ++.|+|-+ +|..+-..|.+.+.+
T Consensus 8 l~~~~~~~~~~~~~~~l~~~vl~dp~V-~~Fl~---~h~~eLt~~~i~rsl~kLyEy~~e 63 (94)
T PF07319_consen 8 LKQLMKRRNFEERYEQLKQEVLSDPEV-QAFLQ---EHQPELTQEMIERSLSKLYEYVSE 63 (94)
T ss_dssp ----S---HHHHHHHHHHHHHTT-HHH-HHHHH---HSTTT--HHHHHHTHHHHHHHHHS
T ss_pred HHHHHhcccHHHHHHHHHHHHHcCHHH-HHHHH---HhHHhcCHHHHHHHHHHHHHHHHH
Confidence 5556666666 8899999999985 33332 33377765 566666666666643
No 162
>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=48.30 E-value=93 Score=21.76 Aligned_cols=63 Identities=10% Similarity=0.045 Sum_probs=36.7
Q ss_pred EEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCC-CceEEEeCCeecCCCCCccccccCCCCEEEE
Q psy4259 10 DITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLA-EYQKLIYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 10 I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~-~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
++|++.+.....-| -..+..+|+.+...... ++. ..+.|.-.|..++|+.-+.. +.++..+++
T Consensus 5 fkv~~~~r~~kkGV-~A~sL~EL~~K~~~~L~--~~~~~~lvLeeDGT~Vd~EeyF~t--LpdnT~lm~ 68 (81)
T cd06537 5 FRVCDHKRTVRKGL-TAASLQELLAKALETLL--LSGVLTLVLEEDGTAVDSEDFFEL--LEDDTCLMV 68 (81)
T ss_pred eEEecCCCCeeEeE-EccCHHHHHHHHHHHhC--CCCceEEEEecCCCEEccHHHHhh--CCCCCEEEE
Confidence 44555554433322 13479999999999998 753 23344446888877744433 334444443
No 163
>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=47.83 E-value=99 Score=22.07 Aligned_cols=75 Identities=21% Similarity=0.233 Sum_probs=44.9
Q ss_pred cceEEEEEeC-CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCC----ceEEEeCCe--ecCCCCCcccc-----ccCCC
Q psy4259 6 HDISDITQNQ-WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAE----YQKLIYAGK--ILSDDQALSEY-----NIDES 72 (203)
Q Consensus 6 ~~m~I~Vk~~-~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~----~qkLi~~Gk--~L~D~~tL~~~-----gI~~~ 72 (203)
..+.|.|... .+..++ .|+.+.|+.+|-..+..+........ +-.|--.|+ -|..+..|.+| .++.+
T Consensus 15 ~~i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~ 94 (106)
T PF00794_consen 15 NKIKVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRG 94 (106)
T ss_dssp SEEEEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT
T ss_pred CeEEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcC
Confidence 4577888777 455677 99999999999998887721001111 334444563 36677788887 36667
Q ss_pred CEEEEEee
Q psy4259 73 KFIVVMLS 80 (203)
Q Consensus 73 ~~i~v~~~ 80 (203)
..+++++-
T Consensus 95 ~~~~L~Lv 102 (106)
T PF00794_consen 95 KDPHLVLV 102 (106)
T ss_dssp --EEEEEE
T ss_pred CCcEEEEE
Confidence 77777654
No 164
>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=47.38 E-value=31 Score=29.01 Aligned_cols=71 Identities=17% Similarity=0.220 Sum_probs=46.9
Q ss_pred ceEEEEEeCC--CCeee-----ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC----Ce--ecCCCCCccccccCCCC
Q psy4259 7 DISDITQNQW--QQTVS-----HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA----GK--ILSDDQALSEYNIDESK 73 (203)
Q Consensus 7 ~m~I~Vk~~~--g~~~~-----~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~----Gk--~L~D~~tL~~~gI~~~~ 73 (203)
.+-|++|-.+ .+++. -|+.+++|.+|-..|.+..| +|++.--++|. ++ .++.+.|+....+.+|+
T Consensus 68 ~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g--~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~Gd 145 (249)
T PF12436_consen 68 DILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAG--LPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGD 145 (249)
T ss_dssp EEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT----TT--EEEEEEEETTEEEE--SSSBHHHTT--TTE
T ss_pred cEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcC--CCCCCceEEEEEeccceeeEcCCCCchhhcccCCCC
Confidence 4667777654 23322 67889999999999999999 98886666663 43 46777999999999999
Q ss_pred EEEEEe
Q psy4259 74 FIVVML 79 (203)
Q Consensus 74 ~i~v~~ 79 (203)
.|.+-.
T Consensus 146 Ii~fQ~ 151 (249)
T PF12436_consen 146 IICFQR 151 (249)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 998754
No 165
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=47.28 E-value=43 Score=23.38 Aligned_cols=53 Identities=17% Similarity=0.189 Sum_probs=33.1
Q ss_pred EEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCC--ceEE--EeCCeecCCCCCcc
Q psy4259 10 DITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAE--YQKL--IYAGKILSDDQALS 65 (203)
Q Consensus 10 I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~--~qkL--i~~Gk~L~D~~tL~ 65 (203)
+.|++.+...-.-| -..|..+|+.+....+. ++.. ..+| --.|..++|+.-+.
T Consensus 5 fkV~~~~r~~k~GV-~A~sL~eL~~K~~~~l~--l~~~~~~~~lvL~eDGT~VddEeyF~ 61 (80)
T cd06536 5 CVVCNVSRQKQHGV-AASSLEELRIKACESLG--FDSSSAPITLVLAEDGTIVEDEDYFL 61 (80)
T ss_pred eEEecCCCCeeEeE-EcCCHHHHHHHHHHHhC--CCCCCCceEEEEecCCcEEccHHHHh
Confidence 34554443333322 23479999999999999 7732 2444 34699998775444
No 166
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=45.55 E-value=94 Score=21.05 Aligned_cols=48 Identities=6% Similarity=0.060 Sum_probs=30.3
Q ss_pred CCcHHHHHHHHHhhhCC---CCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 26 QEEVKQLKEKIQSEKGS---EYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 26 ~~TV~~LK~~I~~~~~~---~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
..||.+|++.+..++.. ....+..++..++....+ +.-+++||.|.++
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~ 75 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFF 75 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEe
Confidence 47999999999888641 012233344445544332 3358899999876
No 167
>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=43.66 E-value=54 Score=22.83 Aligned_cols=50 Identities=10% Similarity=0.122 Sum_probs=31.8
Q ss_pred CCcHHHHHHHHHhhhCCCCCC-CceEEEeCCeecCCCCCccccccCCCCEEEEEee
Q psy4259 26 QEEVKQLKEKIQSEKGSEYLA-EYQKLIYAGKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 26 ~~TV~~LK~~I~~~~~~~ip~-~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
..|..+|+.+....++ ++. ..+.|--.|..++|+.-+.. +. ++++.|++.
T Consensus 20 A~sL~eL~~K~~~~l~--l~~~~~lvL~eDGT~Vd~EeyF~t--Lp-~nt~l~vL~ 70 (79)
T cd06538 20 ADSLEDLLNKVLDALL--LDCISSLVLDEDGTGVDTEEFFQA--LA-DNTVFMVLG 70 (79)
T ss_pred cCCHHHHHHHHHHHcC--CCCccEEEEecCCcEEccHHHHhh--CC-CCcEEEEEC
Confidence 3579999999999999 743 23444457888877744433 23 344444443
No 168
>KOG4248|consensus
Probab=43.62 E-value=17 Score=36.73 Aligned_cols=71 Identities=14% Similarity=0.011 Sum_probs=55.8
Q ss_pred EeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCCCC
Q psy4259 13 QNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPKPT 85 (203)
Q Consensus 13 k~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~~~ 85 (203)
+++.-..+. -+....++...|.+|..++| |++..++|++-|..++++..+..|....+...+..++.+.++
T Consensus 330 ~~l~~p~~~~~~~~~~~~~~~~p~~~~qtg--ipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~~~aspa~s 401 (1143)
T KOG4248|consen 330 CNLACPPPRHLHVVRPMSHYTTPMVLQQTG--IPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPGQAASPAPS 401 (1143)
T ss_pred hcccCCCCceeeecchhhhccCceeeeccc--ccccccceeeecccccCCCCCCccccccCCCCCccccCcCcc
Confidence 344444555 55667788888999999999 999999999999999999999988888777777655555443
No 169
>KOG2660|consensus
Probab=43.52 E-value=20 Score=31.59 Aligned_cols=50 Identities=12% Similarity=0.149 Sum_probs=39.8
Q ss_pred CeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc
Q psy4259 18 QTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY 67 (203)
Q Consensus 18 ~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~ 67 (203)
+.|..++...||.+||+.+..+.+..-...+.-++|++..|.+..||.+.
T Consensus 165 ~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 165 RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhh
Confidence 34446778899999999999998832345566889999999999999864
No 170
>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=42.86 E-value=1.1e+02 Score=21.08 Aligned_cols=57 Identities=9% Similarity=0.008 Sum_probs=46.1
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC-CeecCCCCCccccccCCCCEEEEEee
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA-GKILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~-Gk~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
.|....-...+-+..++++. +++..--+|.+ |--+...+|-..+-++.|+.+.++-+
T Consensus 21 sVpE~aPftAvlkfaAEeFk--v~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPR 78 (82)
T cd01766 21 SVPESTPFTAVLKFAAEEFK--VPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPR 78 (82)
T ss_pred eccccCchHHHHHHHHHhcC--CCccceeEEecCccccChhhcccceeeecCCEeeeccc
Confidence 88888778888888889998 88887777765 66677778899988999999988754
No 171
>KOG0011|consensus
Probab=42.72 E-value=21 Score=31.48 Aligned_cols=40 Identities=30% Similarity=0.551 Sum_probs=24.8
Q ss_pred HHHhh----CCHHHHH-HH-HHHHhCCCcHHHHHHHHhhcCHHHHHHHhh
Q psy4259 135 LAFLR----TQPQFQQ-MR-TVVQQNPELLPTVLQQIGQSNPALLELISH 178 (203)
Q Consensus 135 l~~l~----~~P~~~~-~r-~~i~~nP~~l~~il~~l~~~nP~l~~~i~~ 178 (203)
+..|| +||.+-. |. ++=.+||++++ .|.++--.+.+||.+
T Consensus 225 f~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q----~Iq~nqe~Fl~mlne 270 (340)
T KOG0011|consen 225 FQQLRQMIQQNPELLHPLLQQLGKQNPQLLQ----LIQENQEAFLQLLNE 270 (340)
T ss_pred HHHHHHHHhhCHHHHHHHHHHHhhhCHHHHH----HHHHHHHHHHHHhhc
Confidence 55555 6887533 33 44568999844 444455567788865
No 172
>KOG4361|consensus
Probab=42.32 E-value=13 Score=32.91 Aligned_cols=56 Identities=25% Similarity=0.275 Sum_probs=42.8
Q ss_pred ecCCCCcHH---HHHHHHHhhhCCCCCCCce--EEEeCCeecCCCC-CccccccCCCCEEEEEe
Q psy4259 22 HLDVQEEVK---QLKEKIQSEKGSEYLAEYQ--KLIYAGKILSDDQ-ALSEYNIDESKFIVVML 79 (203)
Q Consensus 22 ~v~~~~TV~---~LK~~I~~~~~~~ip~~~q--kLi~~Gk~L~D~~-tL~~~gI~~~~~i~v~~ 79 (203)
.+.+..+.+ ++++......| +....+ +++|.++.|+|.. .|..++.++-+.+.++.
T Consensus 76 ~i~p~~~~g~~~d~a~~~~~~ag--~sh~d~~~k~~y~~~e~rd~~l~l~~~g~p~~sk~~~~~ 137 (344)
T KOG4361|consen 76 AIVPQYPSGNALDLAKPLTEDAG--LSHYDQEVKLVYVDKELRDQSLRLSSAGVPDASKINVVP 137 (344)
T ss_pred ccccccccccchhhhcccccccc--eeecccccccceecccccccccccccccCcccccceecc
Confidence 444444444 88887777777 555555 9999999999885 58999999999888764
No 173
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=42.17 E-value=26 Score=24.01 Aligned_cols=25 Identities=32% Similarity=0.598 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhCCCcHHHHHHHHhh
Q psy4259 143 QFQQMRTVVQQNPELLPTVLQQIGQ 167 (203)
Q Consensus 143 ~~~~~r~~i~~nP~~l~~il~~l~~ 167 (203)
-+|+++-+|++||.++.+....|+-
T Consensus 45 KLQ~lm~~VMqnP~LikeAv~ELgL 69 (82)
T PF11212_consen 45 KLQQLMAQVMQNPALIKEAVEELGL 69 (82)
T ss_pred HHHHHHHHHhcChHHHHHHHHHhCC
Confidence 3678888888999888777766553
No 174
>cd02667 Peptidase_C19K A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=41.76 E-value=32 Score=28.96 Aligned_cols=49 Identities=16% Similarity=0.409 Sum_probs=38.0
Q ss_pred HHHhhCCHHHHHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHcC
Q psy4259 135 LAFLRTQPQFQQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLNE 189 (203)
Q Consensus 135 l~~l~~~P~~~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~~ 189 (203)
|+.|...|. +|+.++++|.. ++..+...+|.+..-.+|+..||+..|.+
T Consensus 15 LQ~L~~~~~---~~~~~l~~P~~---~~~~l~~~~~~f~~~~QqDA~Efl~~lld 63 (279)
T cd02667 15 MQNLSQTPA---LRELLSETPKE---LFSQVCRKAPQFKGYQQQDSHELLRYLLD 63 (279)
T ss_pred HHHHhcCHH---HHHHHHHCHHH---HHHHHHHhhHhhcCCchhhHHHHHHHHHH
Confidence 788888886 67777888854 57777888998877778888888777654
No 175
>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=41.69 E-value=1.2e+02 Score=21.33 Aligned_cols=59 Identities=12% Similarity=0.260 Sum_probs=41.6
Q ss_pred ecCCCCcHHHHHHHHHhhh-CCCCC--CC-ceEEEeCC--eecCCCCCccccccCCCCEEEEEee
Q psy4259 22 HLDVQEEVKQLKEKIQSEK-GSEYL--AE-YQKLIYAG--KILSDDQALSEYNIDESKFIVVMLS 80 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~-~~~ip--~~-~qkLi~~G--k~L~D~~tL~~~gI~~~~~i~v~~~ 80 (203)
.|+..+|+.++-++++.-. |..++ ++ ..++.+.| ..+..+.|+.+.||..-+.|-+...
T Consensus 20 ~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 20 PVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence 8899999999999998654 32232 23 45777888 8999999999999999999887653
No 176
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=40.97 E-value=7.1 Score=25.28 Aligned_cols=15 Identities=27% Similarity=0.242 Sum_probs=11.1
Q ss_pred hhhHHHHHhCCcCCC
Q psy4259 110 TATSDSMLKVFFERV 124 (203)
Q Consensus 110 ~~~v~~~~~mG~~~~ 124 (203)
.+.|.++++|||+++
T Consensus 10 ~~lVd~F~~mGF~~d 24 (55)
T PF09288_consen 10 KDLVDQFENMGFERD 24 (55)
T ss_dssp HHHHHHHHHHT--HH
T ss_pred HHHHHHHHHcCCcHH
Confidence 478999999999876
No 177
>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=40.96 E-value=67 Score=26.93 Aligned_cols=44 Identities=14% Similarity=0.083 Sum_probs=33.1
Q ss_pred ceEEEEEeCC---CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE
Q psy4259 7 DISDITQNQW---QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI 52 (203)
Q Consensus 7 ~m~I~Vk~~~---g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi 52 (203)
++.|+|+... +..|+ .++...|-.+|-++|++..+ +.+..+||.
T Consensus 176 rv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~--~dP~~lr~~ 223 (249)
T PF12436_consen 176 RVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLN--VDPEHLRFF 223 (249)
T ss_dssp EEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHT--S-GGGEEEE
T ss_pred eEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHC--CChHHEEEE
Confidence 5778887643 34788 99999999999999999999 999999885
No 178
>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=40.44 E-value=1.1e+02 Score=20.52 Aligned_cols=52 Identities=13% Similarity=0.093 Sum_probs=35.8
Q ss_pred EEEEeCCCC----eee-ecCCCCcHHHHHHHHHhhhCCCC--CCCceEEE-e---CC--eecCCCCC
Q psy4259 10 DITQNQWQQ----TVS-HLDVQEEVKQLKEKIQSEKGSEY--LAEYQKLI-Y---AG--KILSDDQA 63 (203)
Q Consensus 10 I~Vk~~~g~----~~~-~v~~~~TV~~LK~~I~~~~~~~i--p~~~qkLi-~---~G--k~L~D~~t 63 (203)
|.|-..++. ..+ .|+.++|+.+|-+.+..+++ + .+....|. + .| +.|.|+..
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~--l~~~~~~y~L~~~~~~~~~er~L~~~E~ 69 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFG--LAEDPSDYCLVEVEESGGEERPLDDDEC 69 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTT--TSSSGGGEEEEEEECTTTEEEEETTTSB
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhC--CCCCCCCEEEEEEEcCCCEEEEcCCCCc
Confidence 445545554 444 99999999999999999999 6 44455663 2 23 67876643
No 179
>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=40.42 E-value=59 Score=23.05 Aligned_cols=41 Identities=12% Similarity=0.061 Sum_probs=36.1
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceE
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQK 50 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qk 50 (203)
+.|.|-..+|..+. +|..+++..++=+.+..+.| +|.+...
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~--L~~e~~~ 43 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAG--MDSYTQN 43 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhC--CCHHHHh
Confidence 56778888999999 99999999999999999999 8887654
No 180
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=39.47 E-value=27 Score=27.18 Aligned_cols=73 Identities=19% Similarity=0.248 Sum_probs=35.9
Q ss_pred eEEEEEeCCCCeeeec-CCCCcHHHHHHHHHhhhCCC--CCCCce----EEEe-CCeecCCCCCccccccCCCCEEEEEe
Q psy4259 8 ISDITQNQWQQTVSHL-DVQEEVKQLKEKIQSEKGSE--YLAEYQ----KLIY-AGKILSDDQALSEYNIDESKFIVVML 79 (203)
Q Consensus 8 m~I~Vk~~~g~~~~~v-~~~~TV~~LK~~I~~~~~~~--ip~~~q----kLi~-~Gk~L~D~~tL~~~gI~~~~~i~v~~ 79 (203)
|+|+|....-+...-+ +.+.||.+|-++....+.+. ..++.. .|-| .|-+|+.+..|.+. +.+.+.|+.+.
T Consensus 1 mkvtV~fg~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAvy 79 (145)
T PF12053_consen 1 MKVTVCFGRTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAVY 79 (145)
T ss_dssp -EEEEEETTEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEEE
T ss_pred CeEEEEeCCeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhheee
Confidence 7888886443333344 56799999977655444311 222322 3333 46688777777775 45666776665
Q ss_pred ec
Q psy4259 80 SK 81 (203)
Q Consensus 80 ~k 81 (203)
..
T Consensus 80 dE 81 (145)
T PF12053_consen 80 DE 81 (145)
T ss_dssp EE
T ss_pred cc
Confidence 44
No 181
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=39.08 E-value=62 Score=22.58 Aligned_cols=11 Identities=18% Similarity=0.329 Sum_probs=5.6
Q ss_pred HHHHHHhCCCc
Q psy4259 147 MRTVVQQNPEL 157 (203)
Q Consensus 147 ~r~~i~~nP~~ 157 (203)
.|+.+++||+.
T Consensus 19 ~rerF~~DPea 29 (81)
T cd07922 19 LIERFQDDPSA 29 (81)
T ss_pred HHHHHHHCHHH
Confidence 45555555554
No 182
>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=38.14 E-value=68 Score=22.60 Aligned_cols=40 Identities=20% Similarity=0.279 Sum_probs=33.9
Q ss_pred Ceee-ecCCCCcHHHHHHHHHhhhCCCCCCCceE-EEeCCeecC
Q psy4259 18 QTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQK-LIYAGKILS 59 (203)
Q Consensus 18 ~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qk-Li~~Gk~L~ 59 (203)
..++ .|+...|=.++|+.|+..+| +.+...+ +++.||.-.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~--V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYG--VKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHT--SEEEEEEEEEETSEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcC--CCeeEEEEeEeCCCceE
Confidence 4577 99999999999999999999 9888885 567887654
No 183
>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=37.37 E-value=1.3e+02 Score=20.31 Aligned_cols=44 Identities=11% Similarity=0.191 Sum_probs=31.3
Q ss_pred CCeee-ecCCCCcHHHHHHHHHhhhCCCCC--CCceEEE--eC----CeecCCCC
Q psy4259 17 QQTVS-HLDVQEEVKQLKEKIQSEKGSEYL--AEYQKLI--YA----GKILSDDQ 62 (203)
Q Consensus 17 g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip--~~~qkLi--~~----Gk~L~D~~ 62 (203)
+...+ .|+.++|..++-..+.++++ +. +....|+ +. .+.|.|+.
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~--l~~~~~~y~L~ev~~~~~~er~L~~~e 64 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFG--LDDDPEDYALVEVLGDGGLERLLLPDE 64 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhC--CcCCcccEEEEEEECCceEEEEeCCCC
Confidence 33445 99999999999999999999 65 4455554 22 25676664
No 184
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=37.06 E-value=87 Score=27.43 Aligned_cols=57 Identities=21% Similarity=0.254 Sum_probs=40.9
Q ss_pred CCcHHHHHHHHHhhhC-------------CCCCCCceEEEeCCeecCCCCCccccc---cCCCCEEEEEeecC
Q psy4259 26 QEEVKQLKEKIQSEKG-------------SEYLAEYQKLIYAGKILSDDQALSEYN---IDESKFIVVMLSKP 82 (203)
Q Consensus 26 ~~TV~~LK~~I~~~~~-------------~~ip~~~qkLi~~Gk~L~D~~tL~~~g---I~~~~~i~v~~~k~ 82 (203)
-.-|.-++..|.+++. .-.+.+.+.|+++|++|..+-||+.+. -+.+.-|++..+.+
T Consensus 257 mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k 329 (331)
T PF11816_consen 257 MLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRK 329 (331)
T ss_pred hhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEec
Confidence 3457888888888881 003566778999999999998887764 36677776766543
No 185
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=34.67 E-value=83 Score=20.24 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=30.0
Q ss_pred CCcHHHHHHHHHhhhCCCCCCCceEEEe--CCeecCCCCCccccccCCCCEEEEE
Q psy4259 26 QEEVKQLKEKIQSEKGSEYLAEYQKLIY--AGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 26 ~~TV~~LK~~I~~~~~~~ip~~~qkLi~--~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
..|...|.+.|.++.+ ++-+ .|-+| .|+.+. .|++ +.+|...+..
T Consensus 8 ~~s~e~lL~~it~~v~--l~~g-Vr~lyt~~G~~V~---~l~~--l~dg~~yVa~ 54 (60)
T PF03607_consen 8 FRSFEQLLDEITEKVQ--LPSG-VRKLYTLDGKRVK---SLDE--LEDGGSYVAS 54 (60)
T ss_dssp HSSHHHHHHHHHHSSS--STTS--SEEEETTSSEES---SGGG--S-TTEEEEEE
T ss_pred hcCHHHHHHHHHhhcC--CCcc-cceEECCCCCEeC---CHHH--HCCCCEEEEE
Confidence 3578899999999888 7766 66566 477773 4555 5667665544
No 186
>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=34.31 E-value=55 Score=24.57 Aligned_cols=55 Identities=16% Similarity=0.272 Sum_probs=28.8
Q ss_pred CCCCcHHHHHHHHHhhhCCCC---CCCceEEEe-----------------CCeec-CCCCCccccccCCCCEEEEE
Q psy4259 24 DVQEEVKQLKEKIQSEKGSEY---LAEYQKLIY-----------------AGKIL-SDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 24 ~~~~TV~~LK~~I~~~~~~~i---p~~~qkLi~-----------------~Gk~L-~D~~tL~~~gI~~~~~i~v~ 78 (203)
..++|+.+|-..|.......- ..=..+++| .|+.. +|++||.+++..-|+.|-+.
T Consensus 44 W~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyidva 119 (120)
T PF06487_consen 44 WMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYIDVA 119 (120)
T ss_dssp -TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EEEEE
T ss_pred cccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEEEEe
Confidence 467899988888876432100 000113333 34333 56699999999999999774
No 187
>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=34.01 E-value=65 Score=21.71 Aligned_cols=43 Identities=16% Similarity=0.244 Sum_probs=27.4
Q ss_pred CcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEE
Q psy4259 27 EEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 27 ~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v 77 (203)
.|+.+|.+..++++| +.+ ..-+.-.|-..+|=. -|.||+.+++
T Consensus 26 ~SleeLl~ia~~kfg--~~~-~~v~~~dgaeIdDI~-----~IRDgD~L~~ 68 (69)
T PF11834_consen 26 DSLEELLKIASEKFG--FSA-TKVLNEDGAEIDDID-----VIRDGDHLYL 68 (69)
T ss_pred ccHHHHHHHHHHHhC--CCc-eEEEcCCCCEEeEEE-----EEEcCCEEEE
Confidence 699999999999999 642 222223344443322 2567888876
No 188
>KOG4146|consensus
Probab=33.13 E-value=1.9e+02 Score=20.88 Aligned_cols=73 Identities=15% Similarity=0.140 Sum_probs=43.9
Q ss_pred CcceEEEEEeCCCC--------eee---ec-CCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCee------cCCC---CC
Q psy4259 5 AHDISDITQNQWQQ--------TVS---HL-DVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKI------LSDD---QA 63 (203)
Q Consensus 5 ~~~m~I~Vk~~~g~--------~~~---~v-~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~------L~D~---~t 63 (203)
++.+.++|+...|- ... ++ ...+||++|-..|..+.- -.+ .+-+|++|.+ |-++ ..
T Consensus 2 ~~~~~vkvef~Gg~dllfn~~k~~~~~l~~~e~~~tvgdll~yi~~~~i--e~r-~~lFi~~gsvrpGii~lINd~DWEl 78 (101)
T KOG4146|consen 2 PEAHEVKVEFLGGLDLLFNKQKIHLTRLEVGESPATVGDLLDYIFGKYI--ETR-DSLFIHHGSVRPGIIVLINDMDWEL 78 (101)
T ss_pred CcceeEEEEEcCceeeeECCeEEEEEecccCCCcccHHHHHHHHHHHHh--cCC-cceEeeCCcCcCcEEEEEeccchhh
Confidence 34567777766542 121 33 245899999999988764 122 2355566532 3222 23
Q ss_pred c--cccccCCCCEEEEEee
Q psy4259 64 L--SEYNIDESKFIVVMLS 80 (203)
Q Consensus 64 L--~~~gI~~~~~i~v~~~ 80 (203)
| .+|.+++||.|+++.+
T Consensus 79 lekedy~ledgD~ivfiST 97 (101)
T KOG4146|consen 79 LEKEDYPLEDGDHIVFIST 97 (101)
T ss_pred hcccccCcccCCEEEEEEe
Confidence 3 5688999999988643
No 189
>COG4055 McrD Methyl coenzyme M reductase, subunit D [Coenzyme metabolism]
Probab=32.58 E-value=1.1e+02 Score=23.96 Aligned_cols=53 Identities=9% Similarity=0.239 Sum_probs=33.8
Q ss_pred ceEEEEEeCCCCeeeecCCCC-cHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCcccc
Q psy4259 7 DISDITQNQWQQTVSHLDVQE-EVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEY 67 (203)
Q Consensus 7 ~m~I~Vk~~~g~~~~~v~~~~-TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~ 67 (203)
.+.++|+. |..+.++.+.+ ++..+++.+.+.+. +. .. ++-|+.+.+..|+.||
T Consensus 75 ~~eL~Vkv--Gri~~eie~e~~~~e~ie~ic~e~lP--f~---y~-v~vG~F~r~kpTVTDy 128 (165)
T COG4055 75 EIELKVKV--GRIILEIEDEDETMEKIEEICDEMLP--FG---YE-VRVGKFTRRKPTVTDY 128 (165)
T ss_pred EEEEEEEe--eEEEEEecCcHhHHHHHHHHHHHhCC--Cc---ee-eeeeeeeccCCcchhh
Confidence 35555553 44444666554 77777765555544 22 22 4779999999999998
No 190
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=32.40 E-value=30 Score=22.68 Aligned_cols=19 Identities=26% Similarity=0.735 Sum_probs=13.4
Q ss_pred HHHHHHHHHhCCCcHHHHH
Q psy4259 144 FQQMRTVVQQNPELLPTVL 162 (203)
Q Consensus 144 ~~~~r~~i~~nP~~l~~il 162 (203)
|+++...|.+||++.+.|+
T Consensus 2 ~~~lt~~I~~~p~l~ekIL 20 (64)
T PF09494_consen 2 FEALTKLIRSDPELYEKIL 20 (64)
T ss_pred HHHHHHHHHcCHHHHHHHH
Confidence 4567777777777766665
No 191
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=31.86 E-value=1.1e+02 Score=21.70 Aligned_cols=40 Identities=18% Similarity=0.147 Sum_probs=33.5
Q ss_pred CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceE-EEeCCeec
Q psy4259 17 QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQK-LIYAGKIL 58 (203)
Q Consensus 17 g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qk-Li~~Gk~L 58 (203)
...+. .|+...|=.++|+.|+..++ +.+...+ +++.||.=
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~--VkV~~VnT~~~~gk~k 61 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFG--VKVESVNTLNVKGKTK 61 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcC--CceeEEEEEEeCCcee
Confidence 45777 99999999999999999999 9898884 56777553
No 192
>PF05591 DUF770: Protein of unknown function (DUF770); InterPro: IPR008312 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, these proteins are encoded in type VI secretion loci (including the SCI genomic island in Salmonella enterica and the imp locus in Rhizobium leguminosarum) implicated in pathogenicity and protein secretion [, , [].
Probab=31.48 E-value=48 Score=26.06 Aligned_cols=24 Identities=21% Similarity=0.483 Sum_probs=11.6
Q ss_pred CCHHHHHHHHHHHhCCCcHHHHHH
Q psy4259 140 TQPQFQQMRTVVQQNPELLPTVLQ 163 (203)
Q Consensus 140 ~~P~~~~~r~~i~~nP~~l~~il~ 163 (203)
+++.|...-+.+++||+.+..+.+
T Consensus 130 ~~~~~r~~l~~~l~~~~~~~~l~~ 153 (157)
T PF05591_consen 130 NNPAFRKLLQEILSDPEALEKLKS 153 (157)
T ss_pred chHHHHHHHHHHHCCHHHHHHHHH
Confidence 445555544444555555444443
No 193
>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=30.86 E-value=33 Score=23.82 Aligned_cols=43 Identities=19% Similarity=0.217 Sum_probs=24.2
Q ss_pred HHHhhhCCCCCCCceEEEe---CCeecCCCCCccccccCCCCEEEEEeecC
Q psy4259 35 KIQSEKGSEYLAEYQKLIY---AGKILSDDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 35 ~I~~~~~~~ip~~~qkLi~---~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
.|.+++. +.++...|+- ++..|+=+++|.+|||++ ++.+=.+.
T Consensus 2 ~IC~KCE--fdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~~~ 47 (79)
T PF09469_consen 2 AICEKCE--FDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDTSR 47 (79)
T ss_dssp HHHHHTT----TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE---
T ss_pred ccccccc--cCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhcccc
Confidence 4677777 8888777764 468899999999999987 66654443
No 194
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=30.39 E-value=1.1e+02 Score=22.31 Aligned_cols=35 Identities=9% Similarity=-0.038 Sum_probs=26.1
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCC
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLA 46 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~ 46 (203)
|+|-..+|.+.. .|..-.+-.++|.++..++| +..
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg--~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFG--LPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHT--SS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcC--Ccc
Confidence 566677888888 99999999999999999999 555
No 195
>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=29.25 E-value=1.8e+02 Score=20.49 Aligned_cols=53 Identities=21% Similarity=0.331 Sum_probs=31.5
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe-CC------eecCCCC---Cc--cccccCCCCEEEEE
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY-AG------KILSDDQ---AL--SEYNIDESKFIVVM 78 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~-~G------k~L~D~~---tL--~~~gI~~~~~i~v~ 78 (203)
+++...||.+|=+.+...+. ..+-+|+. .| -+|-|+. .+ .++-+++||.|.++
T Consensus 24 ~~~~~~tV~dll~~L~~~~~----~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 24 DGEKPVTVGDLLDYVASNLL----EERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred cCCCCCcHHHHHHHHHHhCc----hhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 33356799999999887763 22233322 12 2233332 23 34679999999886
No 196
>PF14003 YlbE: YlbE-like protein
Probab=28.86 E-value=46 Score=22.28 Aligned_cols=10 Identities=20% Similarity=0.341 Sum_probs=3.8
Q ss_pred HHHHHHhhCH
Q psy4259 171 ALLELISHNQ 180 (203)
Q Consensus 171 ~l~~~i~~n~ 180 (203)
+|+..|+.+|
T Consensus 3 el~~fiR~~P 12 (65)
T PF14003_consen 3 ELRQFIREQP 12 (65)
T ss_pred HHHHHHHHCc
Confidence 3333333333
No 197
>COG1391 GlnE Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]
Probab=28.76 E-value=70 Score=32.18 Aligned_cols=42 Identities=19% Similarity=0.320 Sum_probs=33.0
Q ss_pred HHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHH
Q psy4259 145 QQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRML 187 (203)
Q Consensus 145 ~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml 187 (203)
.++-.++..||++|..++ .|....|.++++|..+|.-|=+++
T Consensus 553 ~~ylslL~e~P~~l~~L~-~i~~~Sp~la~~lar~P~llDell 594 (963)
T COG1391 553 STYLSLLRENPAALKRLV-TIMGASPYLAEQLARYPILLDELL 594 (963)
T ss_pred hHHHHHHHhCHHHHHHHH-HHHcccHhHHHHHHhCcHHHHHhc
Confidence 456677788999999877 577889999999999986554444
No 198
>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=28.57 E-value=1.6e+02 Score=18.75 Aligned_cols=59 Identities=10% Similarity=0.042 Sum_probs=37.0
Q ss_pred EEEEeCCCCeeeecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCCeecCCCCCccccccCCCCEEEEE
Q psy4259 10 DITQNQWQQTVSHLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVM 78 (203)
Q Consensus 10 I~Vk~~~g~~~~~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~ 78 (203)
|.|.+.+|+.. +++...|+.++=..|....++ .-.--..+|+..+-+ +-+++|++|.++
T Consensus 1 I~v~lpdG~~~-~~~~g~T~~d~A~~I~~~l~~----~~~~A~Vng~~vdl~-----~~L~~~d~v~ii 59 (60)
T PF02824_consen 1 IRVYLPDGSIK-ELPEGSTVLDVAYSIHSSLAK----RAVAAKVNGQLVDLD-----HPLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEE-EEETTBBHHHHHHHHSHHHHH----CEEEEEETTEEEETT-----SBB-SSEEEEEE
T ss_pred CEEECCCCCee-eCCCCCCHHHHHHHHCHHHHh----heeEEEEcCEECCCC-----CCcCCCCEEEEE
Confidence 45666777654 466678999999999988772 122234577655443 345567777654
No 199
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=28.49 E-value=17 Score=26.14 Aligned_cols=44 Identities=23% Similarity=0.416 Sum_probs=25.5
Q ss_pred HHHHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHc
Q psy4259 145 QQMRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLN 188 (203)
Q Consensus 145 ~~~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~ 188 (203)
.++++++..+-.-+.-=+..|..-+|.|+..|.+||.+++.++.
T Consensus 20 ~~l~~~~~~~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~ 63 (121)
T PF14551_consen 20 DQLREMIQRNKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFE 63 (121)
T ss_dssp HHHHHHHHHT-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHH
T ss_pred HHHHHHHHcCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555444443333456677778888888777766666654
No 200
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=28.19 E-value=2e+02 Score=19.68 Aligned_cols=46 Identities=17% Similarity=0.102 Sum_probs=36.4
Q ss_pred EEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC--eecC
Q psy4259 12 TQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG--KILS 59 (203)
Q Consensus 12 Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G--k~L~ 59 (203)
|-..+|..-. .+.+..||.++=.++.++.| +..+...+..-| |.|.
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRg--l~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRG--INYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcC--CChhHEEEEEecCCcccc
Confidence 4456777666 99999999999999999999 888877776655 4443
No 201
>PF09030 Creb_binding: Creb binding; InterPro: IPR014744 This entry represents the interlocking domain of the eukaryotic nuclear receptor coactivators CREBP and p300. The interlocking domain forms a 3-helical non-globular array that forms interlocked heterodimers with its target. Nuclear receptors are ligand-activated transcription factors involved in the regulation of many processes, including development, reproduction and homeostasis. Nuclear receptor coactivators act to modulate the function of nuclear receptors. Coactivators associate with promoters and enhancers primarily through protein-protein contacts to facilitate the interaction between DNA-bound transcription factors and the transcription machinery. Many of these coactivators are structurally related, including CBP (CREB-binding protein) and p300 []. CBP and p300 both have histone acetyltransferase activity (2.3.1.48 from EC). CBP/p300 proteins function synergistically to activate transcription, acting to remodel chromatin and to recruit RNA polymerase II and the basal transcription machinery. CBP is required for proper cell cycle control, differentiation and apoptosis. The interaction of CBP/p300 with transcription factors involves several small domains. The IBiD domain in the C-terminal of CBP is responsible for CBP interaction with IRF-3, as well as with the adenoviral oncoprotein E1A, TIF-2 coactivator, and the IRF homologue KSHV IRF-1 []. ; GO: 0003713 transcription coactivator activity, 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0016573 histone acetylation, 0000123 histone acetyltransferase complex, 0005634 nucleus; PDB: 2KKJ_A 2C52_A 1JJS_A 2L14_A 1KBH_B 1ZOQ_C.
Probab=27.10 E-value=43 Score=24.48 Aligned_cols=21 Identities=29% Similarity=0.591 Sum_probs=14.0
Q ss_pred HHHHHHHHHhCCCcHHHHHHH
Q psy4259 144 FQQMRTVVQQNPELLPTVLQQ 164 (203)
Q Consensus 144 ~~~~r~~i~~nP~~l~~il~~ 164 (203)
=+++-.++.+||+++..+|.+
T Consensus 72 QQQVLnILkSNPqLMAAFIKQ 92 (104)
T PF09030_consen 72 QQQVLNILKSNPQLMAAFIKQ 92 (104)
T ss_dssp HHHHHHHHHTSHHHHHHHHHH
T ss_pred HHHHHHHHhhCHHHHHHHHHH
Confidence 345666777777777776654
No 202
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=25.45 E-value=1.4e+02 Score=21.39 Aligned_cols=60 Identities=18% Similarity=0.148 Sum_probs=42.2
Q ss_pred CCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceE-EEeCCee---------cCCCCCccccccCCCCEEEE
Q psy4259 16 WQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQK-LIYAGKI---------LSDDQALSEYNIDESKFIVV 77 (203)
Q Consensus 16 ~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qk-Li~~Gk~---------L~D~~tL~~~gI~~~~~i~v 77 (203)
...+++ .|++..|=.++|+.|++.++ +-+.... |+..|+. +..+..-...-+..|..|.+
T Consensus 20 ~~nk~vF~V~~~AtK~~IK~AvE~lF~--VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 20 KENKYVFIVDPDATKPEIKAAVEELFG--VKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred hCCEEEEEECCCCCHHHHHHHHHHHhC--CeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 346778 99999999999999999999 8888874 5666642 33333444445566666543
No 203
>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=24.89 E-value=2.5e+02 Score=19.66 Aligned_cols=42 Identities=10% Similarity=-0.071 Sum_probs=30.3
Q ss_pred EEEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeC
Q psy4259 10 DITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYA 54 (203)
Q Consensus 10 I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~ 54 (203)
.+|+ ..|.... .++..-|-..|+++|...+. +|....-|.|-
T Consensus 3 fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~--lp~~~~~vtYi 45 (82)
T cd06397 3 FKSS-FLGDTRRIVFPDIPTWEALASKLENLYN--LPEIKVGVTYI 45 (82)
T ss_pred EEEE-eCCceEEEecCCCccHHHHHHHHHHHhC--CChhHeEEEEE
Confidence 4454 3344433 55556688999999999999 99887777773
No 204
>KOG4598|consensus
Probab=24.56 E-value=1.4e+02 Score=29.51 Aligned_cols=57 Identities=25% Similarity=0.334 Sum_probs=43.0
Q ss_pred ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEe----CCeecC--CCCCccccccCCCCEEEEEeecC
Q psy4259 22 HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIY----AGKILS--DDQALSEYNIDESKFIVVMLSKP 82 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~----~Gk~L~--D~~tL~~~gI~~~~~i~v~~~k~ 82 (203)
.|+...++..||++|+...+ ++.+..||.- +|..+. ++.||.. .-++++|.+-+.++
T Consensus 882 ~Vd~rmr~~AFKkHiE~~i~--V~~~HFKi~R~~~~N~~~~S~~~NetLs~--~~~~~~iTI~LG~~ 944 (1203)
T KOG4598|consen 882 DVDSRMRVLAFKKHVEEQLE--VDKDHFKIVRHASDNGSEASFMDNETLSG--AFQSCFITIKLGAP 944 (1203)
T ss_pred eccceeeHHHHHHHHHHHhC--cChhHeEEEEEecCCcchhhhccchhhhh--hcccceEEEEecCc
Confidence 88899999999999999999 9999999862 344443 4567764 45677777665443
No 205
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=24.51 E-value=55 Score=26.79 Aligned_cols=49 Identities=20% Similarity=0.219 Sum_probs=26.2
Q ss_pred CCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCc---eEE--EeCC-----eecCCCC--Ccccc
Q psy4259 17 QQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEY---QKL--IYAG-----KILSDDQ--ALSEY 67 (203)
Q Consensus 17 g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~---qkL--i~~G-----k~L~D~~--tL~~~ 67 (203)
|-.|. -|.+.+|+.++|++|.++.| ++... .|+ +..+ ..|+|+. .|.+.
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlg--v~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~ 193 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLG--VSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDE 193 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH-----HHHHTT-EEEEEETTEE---EE--TT-T----GG
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhC--CChhhheeEEEEEEecCCcccceeccccchhhhhhh
Confidence 45566 88999999999999999999 65543 343 3344 4566654 45444
No 206
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=24.17 E-value=2.4e+02 Score=19.47 Aligned_cols=40 Identities=18% Similarity=-0.080 Sum_probs=32.6
Q ss_pred EEEeCCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEE
Q psy4259 11 ITQNQWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLI 52 (203)
Q Consensus 11 ~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi 52 (203)
.|-..+|.... .|.+..||.++=+.+.+..+ +.+..--|-
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~--ldp~eh~Lr 43 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQ--LDPMEHYLR 43 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcC--CChhHheeE
Confidence 45567788778 99999999999999999999 777766443
No 207
>PF12552 DUF3741: Protein of unknown function (DUF3741); InterPro: IPR022212 This domain family is found in eukaryotes, and is approximately 50 amino acids in length.
Probab=24.13 E-value=1.1e+02 Score=18.99 Aligned_cols=19 Identities=37% Similarity=0.840 Sum_probs=12.3
Q ss_pred HHHHhhCHHHHHHHHcCCc
Q psy4259 173 LELISHNQEAFVRMLNEPV 191 (203)
Q Consensus 173 ~~~i~~n~~~f~~ml~~p~ 191 (203)
.+.+..|-+-|+.+|.+|.
T Consensus 27 LeiL~sNkdlflk~LqdP~ 45 (46)
T PF12552_consen 27 LEILSSNKDLFLKFLQDPN 45 (46)
T ss_pred HHHHHhCHHHHHHHHhCCC
Confidence 4455666677777777664
No 208
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=23.79 E-value=53 Score=24.40 Aligned_cols=28 Identities=7% Similarity=0.074 Sum_probs=21.6
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHH
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKI 36 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I 36 (203)
|+|+|.. +++.+. ++..+.|..+|.+++
T Consensus 1 mkI~i~i-~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITI-GGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEE-TTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEE-CCEEEEEEECCCHHHHHHHHhC
Confidence 6777774 478888 999998888887764
No 209
>KOG4572|consensus
Probab=23.59 E-value=1.2e+02 Score=30.39 Aligned_cols=63 Identities=21% Similarity=0.332 Sum_probs=45.0
Q ss_pred CCeee-ecC-CCCcHHHHHHHHHhhhCCCCCCCceEEEeC-CeecCCCCCcccccc--CCCCEEEEEeec
Q psy4259 17 QQTVS-HLD-VQEEVKQLKEKIQSEKGSEYLAEYQKLIYA-GKILSDDQALSEYNI--DESKFIVVMLSK 81 (203)
Q Consensus 17 g~~~~-~v~-~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~-Gk~L~D~~tL~~~gI--~~~~~i~v~~~k 81 (203)
|...+ +.+ ...|+.+||..|..+.| +....+.++-. |....-++.|..|.- .+.+-|++..++
T Consensus 4 GqaltFDleaetqT~adLk~aiqke~~--~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFnke 71 (1424)
T KOG4572|consen 4 GQALTFDLEAETQTFADLKDAIQKEVG--HAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFNKE 71 (1424)
T ss_pred CceeEEeecceeehHHHHHHHHHHHhc--hhhceeeeeecCCcCcccccchhhhccccCCCCceEEeehh
Confidence 45545 443 46899999999999999 77888877654 677877888888763 344556665333
No 210
>TIGR03358 VI_chp_5 type VI secretion protein, VC_A0107 family. Work by Mougous, et al. (2006), describes IAHP-related loci as a type VI secretion system (PubMed:16763151). This protein family is associated with type VI secretion loci, although not treated explicitly by Mougous, et al.
Probab=23.21 E-value=73 Score=25.15 Aligned_cols=26 Identities=15% Similarity=0.482 Sum_probs=14.5
Q ss_pred CCHHHHHHHHHHHhCCCcHHHHHHHH
Q psy4259 140 TQPQFQQMRTVVQQNPELLPTVLQQI 165 (203)
Q Consensus 140 ~~P~~~~~r~~i~~nP~~l~~il~~l 165 (203)
++|.|...-+.+++|++.+..+...+
T Consensus 131 ~~~~~~~~l~~~l~d~~~~~~L~~el 156 (159)
T TIGR03358 131 NNPDLRKLLQELLKDKDLLEKLLSEL 156 (159)
T ss_pred CcHHHHHHHHHHHCCHHHHHHHHHHh
Confidence 55566555555556666555555443
No 211
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=23.17 E-value=86 Score=30.07 Aligned_cols=36 Identities=11% Similarity=0.138 Sum_probs=27.9
Q ss_pred cceEEEEEeCCCCeee---ecCC-------CCcHHHHHHHHHhhhC
Q psy4259 6 HDISDITQNQWQQTVS---HLDV-------QEEVKQLKEKIQSEKG 41 (203)
Q Consensus 6 ~~m~I~Vk~~~g~~~~---~v~~-------~~TV~~LK~~I~~~~~ 41 (203)
.++.|+|+..+|++.. ..++ -.|+.+||.+|+++.|
T Consensus 247 ~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~ 292 (603)
T PRK05841 247 RKLNITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTG 292 (603)
T ss_pred CeEEEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhccc
Confidence 4688999988888754 4331 2579999999999888
No 212
>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=23.08 E-value=83 Score=21.72 Aligned_cols=20 Identities=15% Similarity=0.310 Sum_probs=16.4
Q ss_pred ecCCCCcHHHHHHHHHhhhC
Q psy4259 22 HLDVQEEVKQLKEKIQSEKG 41 (203)
Q Consensus 22 ~v~~~~TV~~LK~~I~~~~~ 41 (203)
+|+.+.|+.++|+.+..+..
T Consensus 5 ~~~~~~Tl~~iK~~lw~~A~ 24 (78)
T PF02192_consen 5 RVSRDATLSEIKEELWEEAK 24 (78)
T ss_dssp EEETT-BHHHHHHHHHHHGG
T ss_pred EccCcCcHHHHHHHHHHHHH
Confidence 67889999999999887765
No 213
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=22.73 E-value=73 Score=22.48 Aligned_cols=39 Identities=8% Similarity=0.168 Sum_probs=26.2
Q ss_pred CCCCceEEEeCCeecCCCCCccccccCCCCEEEEEeecCC
Q psy4259 44 YLAEYQKLIYAGKILSDDQALSEYNIDESKFIVVMLSKPK 83 (203)
Q Consensus 44 ip~~~qkLi~~Gk~L~D~~tL~~~gI~~~~~i~v~~~k~~ 83 (203)
+++.+-+++|+|+.+.-. -+..-+|..|++|.+..+.+.
T Consensus 6 i~vkra~Vly~g~k~~i~-d~~~~~v~Hge~VsffCknke 44 (85)
T PF09014_consen 6 IPVKRARVLYNGEKVWIQ-DLFKNGVLHGEIVSFFCKNKE 44 (85)
T ss_dssp -SSSS-EEEETTEEEEHH-HHTTT-BETT-EEEEEEEETT
T ss_pred cceeEEEEEECCEEechh-hcccCceeeCCEEEEEEcCCc
Confidence 788899999999876422 133457999999999987654
No 214
>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=21.64 E-value=49 Score=22.11 Aligned_cols=16 Identities=19% Similarity=0.279 Sum_probs=10.5
Q ss_pred CCccccccCCCCEEEE
Q psy4259 62 QALSEYNIDESKFIVV 77 (203)
Q Consensus 62 ~tL~~~gI~~~~~i~v 77 (203)
+.|...|+++|++|.+
T Consensus 47 ~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHTTT--TT-EEEE
T ss_pred HHHHHcCCCCCCEEEE
Confidence 4678889999999975
No 215
>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=21.54 E-value=2.6e+02 Score=20.72 Aligned_cols=34 Identities=3% Similarity=0.077 Sum_probs=29.1
Q ss_pred eEEEEEeCCCCeee---ecCCCCcHHHHHHHHHhhhC
Q psy4259 8 ISDITQNQWQQTVS---HLDVQEEVKQLKEKIQSEKG 41 (203)
Q Consensus 8 m~I~Vk~~~g~~~~---~v~~~~TV~~LK~~I~~~~~ 41 (203)
|++.+...+++.-+ .|+.+.|+.++.+.+.+++.
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk 60 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFR 60 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhc
Confidence 78888887776654 88999999999999999987
No 216
>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=21.43 E-value=68 Score=20.63 Aligned_cols=31 Identities=10% Similarity=0.071 Sum_probs=20.6
Q ss_pred eEEEEEeCCCCeee-ecCCCCcHHHHHHHHHh
Q psy4259 8 ISDITQNQWQQTVS-HLDVQEEVKQLKEKIQS 38 (203)
Q Consensus 8 m~I~Vk~~~g~~~~-~v~~~~TV~~LK~~I~~ 38 (203)
|.|++++.+|..|. +...-.--.-||..+..
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 57899999999998 65433344455666654
No 217
>KOG3321|consensus
Probab=21.38 E-value=1.7e+02 Score=23.25 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=37.0
Q ss_pred HHHHHHhCCCcHHHHHHHHhhcCHHHH-------------HHHhhCHHHHHHHHcCCc
Q psy4259 147 MRTVVQQNPELLPTVLQQIGQSNPALL-------------ELISHNQEAFVRMLNEPV 191 (203)
Q Consensus 147 ~r~~i~~nP~~l~~il~~l~~~nP~l~-------------~~i~~n~~~f~~ml~~p~ 191 (203)
+.++..-||..++-++.-|+.++|+=. ..|.+|+++|..++++|-
T Consensus 116 ~i~l~~~tgsTl~tfleYI~rn~pegV~mq~~~tele~ip~~lkk~~de~~sl~n~~s 173 (175)
T KOG3321|consen 116 LIELYSVTGSTLDTFLEYIQRNLPEGVGMQAKFTELEEIPLHLKKNIDEFKSLLNGPS 173 (175)
T ss_pred HHHHhhcCchHHHHHHHHHHhhChhhhcceeceeecccchHhHhcCHHHHHHHhcCcc
Confidence 455566899999999999999999843 347889999999998873
No 218
>KOG4842|consensus
Probab=21.31 E-value=20 Score=30.61 Aligned_cols=39 Identities=8% Similarity=0.061 Sum_probs=32.9
Q ss_pred CCCCeee-ecCCCCcHHHHHHHHHhhhCCCCCCCceEEEeCC
Q psy4259 15 QWQQTVS-HLDVQEEVKQLKEKIQSEKGSEYLAEYQKLIYAG 55 (203)
Q Consensus 15 ~~g~~~~-~v~~~~TV~~LK~~I~~~~~~~ip~~~qkLi~~G 55 (203)
+.|..+. +++...+|.|.+.++.+..+ +.+...|+++.+
T Consensus 10 ~~gn~i~ls~~~~~ri~D~~~~l~K~~~--vss~~~kll~~~ 49 (278)
T KOG4842|consen 10 KSGNAIYLSMAGSQRIPDKNPHLQKVAV--VSSKPNKLLALN 49 (278)
T ss_pred ecCcEEEEEeccccccCCCCcccceeee--eccchHHHHhhh
Confidence 3577777 99999999999999999888 888888887765
No 219
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=21.30 E-value=76 Score=23.16 Aligned_cols=45 Identities=13% Similarity=0.208 Sum_probs=28.1
Q ss_pred HHHHHHhCCCcHHHHHHHHhhcCHHHHHHHhhCHHHHHHHHcCCcc
Q psy4259 147 MRTVVQQNPELLPTVLQQIGQSNPALLELISHNQEAFVRMLNEPVA 192 (203)
Q Consensus 147 ~r~~i~~nP~~l~~il~~l~~~nP~l~~~i~~n~~~f~~ml~~p~~ 192 (203)
.-.+++.||.+...+...|...+ ....++.+--+.|..++..-.|
T Consensus 72 ah~~~L~D~~l~~~v~~~I~~~~-~Ae~Av~~~~~~~~~~f~~~~d 116 (123)
T PF05524_consen 72 AHLMMLEDPELIDEVEELIREGK-NAEYAVQEVIEEYIEQFEAMDD 116 (123)
T ss_dssp HHHHHHT-HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHTSS-
T ss_pred HHHHHhcCHhHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHhCCC
Confidence 34455699999999998888888 5555555545567777665444
No 220
>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=21.10 E-value=36 Score=22.80 Aligned_cols=16 Identities=13% Similarity=0.248 Sum_probs=13.9
Q ss_pred CCccccccCCCCEEEE
Q psy4259 62 QALSEYNIDESKFIVV 77 (203)
Q Consensus 62 ~tL~~~gI~~~~~i~v 77 (203)
+.|.+.|+++|++|.+
T Consensus 47 ~~L~~~G~~~GD~V~I 62 (69)
T TIGR03595 47 DALRKAGAKDGDTVRI 62 (69)
T ss_pred HHHHHcCCCCCCEEEE
Confidence 5688899999999976
No 221
>COG3516 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.98 E-value=91 Score=24.80 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=18.3
Q ss_pred hCCHHHHHHHHHHHhCCCcHHHHHHHH
Q psy4259 139 RTQPQFQQMRTVVQQNPELLPTVLQQI 165 (203)
Q Consensus 139 ~~~P~~~~~r~~i~~nP~~l~~il~~l 165 (203)
-++|.|..+-+.++.|+++++.+...+
T Consensus 135 dg~~~~e~~l~~lL~n~~~l~~L~~e~ 161 (169)
T COG3516 135 DGNPAFEELLQDLLKNEELLQKLASEL 161 (169)
T ss_pred cCcHHHHHHHHHHHcCHHHHHHHHHhh
Confidence 367777777777777777766665543
Done!