Query 001242
Match_columns 1116
No_of_seqs 618 out of 2491
Neff 7.5
Searched_HMMs 46136
Date Thu Mar 28 19:39:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001242.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001242hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5077 Ubiquitin carboxyl-ter 100.0 3E-186 6E-191 1570.4 50.7 1026 44-1115 30-1089(1089)
2 KOG1863 Ubiquitin carboxyl-ter 100.0 7E-113 1E-117 1092.2 19.0 1036 48-1116 22-1093(1093)
3 cd02659 peptidase_C19C A subfa 100.0 1E-56 2.2E-61 517.3 32.8 320 195-522 1-333 (334)
4 cd02668 Peptidase_C19L A subfa 100.0 4.3E-56 9.3E-61 509.2 29.6 308 198-519 1-324 (324)
5 PF12436 USP7_ICP0_bdg: ICP0-b 100.0 2E-56 4.3E-61 487.6 20.9 249 621-874 1-249 (249)
6 cd02664 Peptidase_C19H A subfa 100.0 5E-55 1.1E-59 500.3 26.8 286 198-519 1-327 (327)
7 cd02663 Peptidase_C19G A subfa 100.0 5.1E-55 1.1E-59 494.9 26.4 276 198-519 1-300 (300)
8 KOG1865 Ubiquitin carboxyl-ter 100.0 5.5E-56 1.2E-60 503.2 17.8 298 186-521 99-410 (545)
9 cd02671 Peptidase_C19O A subfa 100.0 5.6E-54 1.2E-58 489.5 26.5 284 190-519 18-332 (332)
10 KOG4598 Putative ubiquitin-spe 100.0 3.4E-54 7.4E-59 485.5 19.4 477 191-728 82-633 (1203)
11 cd02657 Peptidase_C19A A subfa 100.0 8.5E-53 1.8E-57 478.5 25.5 288 198-519 1-305 (305)
12 cd02660 Peptidase_C19D A subfa 100.0 1.3E-52 2.8E-57 482.0 25.7 280 197-483 1-318 (328)
13 cd02667 Peptidase_C19K A subfa 100.0 2.3E-52 4.9E-57 468.3 21.3 241 198-483 1-269 (279)
14 PF14533 USP7_C2: Ubiquitin-sp 100.0 4.1E-51 8.9E-56 435.6 18.7 204 882-1097 1-213 (213)
15 cd02661 Peptidase_C19E A subfa 100.0 3.5E-50 7.6E-55 456.4 23.8 276 197-483 2-294 (304)
16 KOG1866 Ubiquitin carboxyl-ter 100.0 4.2E-52 9.2E-57 475.1 4.0 328 187-526 86-439 (944)
17 cd02658 Peptidase_C19B A subfa 100.0 2.9E-49 6.3E-54 450.7 24.6 273 198-519 1-311 (311)
18 cd02669 Peptidase_C19M A subfa 100.0 2.1E-49 4.6E-54 469.4 22.1 293 192-519 115-440 (440)
19 cd02662 Peptidase_C19F A subfa 100.0 3.9E-47 8.4E-52 416.3 22.8 203 198-483 1-229 (240)
20 cd02665 Peptidase_C19I A subfa 100.0 2.6E-46 5.6E-51 400.1 19.2 220 198-519 1-228 (228)
21 cd02666 Peptidase_C19J A subfa 100.0 6.1E-47 1.3E-51 430.8 14.9 269 196-519 1-343 (343)
22 COG5560 UBP12 Ubiquitin C-term 100.0 3.7E-46 8.1E-51 420.8 8.9 297 192-522 261-823 (823)
23 COG5533 UBP5 Ubiquitin C-termi 100.0 9.7E-45 2.1E-49 379.5 17.5 284 195-521 70-414 (415)
24 cd02674 Peptidase_C19R A subfa 100.0 2.8E-43 6.1E-48 383.7 18.6 211 198-482 1-219 (230)
25 PF00443 UCH: Ubiquitin carbox 100.0 3.3E-40 7.3E-45 365.4 22.2 245 196-518 1-269 (269)
26 cd02673 Peptidase_C19Q A subfa 100.0 8.6E-40 1.9E-44 356.7 18.9 230 199-519 2-245 (245)
27 KOG1868 Ubiquitin C-terminal h 100.0 7.6E-41 1.7E-45 398.2 10.5 303 190-526 295-651 (653)
28 KOG0944 Ubiquitin-specific pro 100.0 2.7E-39 5.7E-44 369.3 17.0 221 191-419 302-545 (763)
29 cd02257 Peptidase_C19 Peptidas 100.0 2.7E-37 5.9E-42 337.6 21.4 235 198-519 1-255 (255)
30 KOG1867 Ubiquitin-specific pro 100.0 1E-37 2.2E-42 366.3 15.0 298 192-522 157-485 (492)
31 cd02672 Peptidase_C19P A subfa 100.0 8.2E-36 1.8E-40 329.7 20.4 236 186-479 5-260 (268)
32 KOG1873 Ubiquitin-specific pro 100.0 3E-36 6.4E-41 347.1 4.9 147 344-521 680-877 (877)
33 COG5207 UBP14 Isopeptidase T [ 100.0 4.2E-34 9.1E-39 315.5 17.4 217 196-419 303-535 (749)
34 KOG1870 Ubiquitin C-terminal h 100.0 6E-32 1.3E-36 339.6 12.5 297 190-522 240-842 (842)
35 PF13423 UCH_1: Ubiquitin carb 100.0 4.2E-30 9.1E-35 290.6 19.2 266 197-474 1-295 (295)
36 cd02670 Peptidase_C19N A subfa 100.0 1.2E-30 2.7E-35 281.7 13.9 184 198-479 1-221 (241)
37 KOG1864 Ubiquitin-specific pro 100.0 9.1E-31 2E-35 312.0 12.5 285 192-483 228-557 (587)
38 KOG1871 Ubiquitin-specific pro 99.9 1.6E-26 3.5E-31 251.7 10.9 300 195-522 27-420 (420)
39 KOG1872 Ubiquitin-specific pro 99.9 3.4E-26 7.3E-31 255.9 5.0 296 196-521 105-469 (473)
40 cd03775 MATH_Ubp21p Ubiquitin- 99.9 6E-23 1.3E-27 204.5 12.6 124 54-178 2-134 (134)
41 cd03772 MATH_HAUSP Herpesvirus 99.9 1.8E-22 4E-27 201.9 13.7 128 52-181 2-134 (137)
42 KOG2026 Spindle pole body prot 99.8 1.5E-20 3.3E-25 204.1 13.5 274 191-483 129-429 (442)
43 cd03774 MATH_SPOP Speckle-type 99.8 2.5E-19 5.4E-24 179.7 12.1 127 51-182 3-139 (139)
44 cd03773 MATH_TRIM37 Tripartite 99.8 6.1E-19 1.3E-23 175.3 10.7 122 50-178 2-130 (132)
45 cd00270 MATH_TRAF_C Tumor Necr 99.7 3.4E-18 7.3E-23 173.7 8.3 123 53-177 1-148 (149)
46 cd03780 MATH_TRAF5 Tumor Necro 99.7 1.8E-17 3.9E-22 166.5 10.1 125 53-177 1-147 (148)
47 cd03776 MATH_TRAF6 Tumor Necro 99.7 8.5E-18 1.8E-22 170.2 7.0 124 53-178 1-147 (147)
48 cd03781 MATH_TRAF4 Tumor Necro 99.7 3.8E-17 8.2E-22 166.5 10.1 123 53-177 1-153 (154)
49 cd03777 MATH_TRAF3 Tumor Necro 99.7 5.2E-17 1.1E-21 168.9 11.0 127 50-178 36-184 (186)
50 cd03779 MATH_TRAF1 Tumor Necro 99.7 6.3E-17 1.4E-21 161.8 10.0 125 53-177 1-146 (147)
51 cd00121 MATH MATH (meprin and 99.7 2.1E-16 4.6E-21 154.3 12.6 123 53-178 1-126 (126)
52 KOG1275 PAB-dependent poly(A) 99.7 2.4E-16 5.2E-21 186.3 12.7 304 187-518 490-860 (1118)
53 cd03771 MATH_Meprin Meprin fam 99.6 5.1E-16 1.1E-20 158.0 10.9 124 52-177 1-166 (167)
54 cd03778 MATH_TRAF2 Tumor Necro 99.6 1.7E-15 3.8E-20 152.9 11.0 126 50-177 16-163 (164)
55 PF00917 MATH: MATH domain; I 99.6 5.1E-16 1.1E-20 150.9 5.9 116 59-179 1-119 (119)
56 smart00061 MATH meprin and TRA 99.5 3.7E-14 8E-19 131.8 10.9 93 55-153 2-95 (95)
57 cd03783 MATH_Meprin_Alpha Mepr 99.3 5.4E-12 1.2E-16 127.0 7.6 124 52-177 1-166 (167)
58 cd03782 MATH_Meprin_Beta Mepri 99.2 1.7E-11 3.8E-16 122.5 8.0 124 52-177 1-166 (167)
59 PF15499 Peptidase_C98: Ubiqui 98.4 1.2E-06 2.6E-11 92.7 9.2 224 200-473 6-252 (275)
60 KOG1987 Speckle-type POZ prote 97.8 6.2E-05 1.3E-09 85.6 10.0 121 55-183 6-129 (297)
61 KOG1864 Ubiquitin-specific pro 96.6 0.00073 1.6E-08 82.4 1.0 196 199-395 34-274 (587)
62 KOG1870 Ubiquitin C-terminal h 94.2 0.1 2.3E-06 67.4 8.2 151 885-1039 418-575 (842)
63 COG5560 UBP12 Ubiquitin C-term 92.7 0.49 1.1E-05 56.8 9.5 123 886-1024 443-567 (823)
64 PF14533 USP7_C2: Ubiquitin-sp 92.7 0.99 2.1E-05 48.8 11.4 152 801-964 21-185 (213)
65 PF08715 Viral_protease: Papai 92.5 0.7 1.5E-05 52.6 10.2 100 192-326 98-199 (320)
66 PF12436 USP7_ICP0_bdg: ICP0-b 90.0 1.8 3.9E-05 48.0 10.2 175 867-1057 27-227 (249)
67 PF11976 Rad60-SLD: Ubiquitin- 89.4 0.49 1.1E-05 41.5 4.2 57 708-772 13-69 (72)
68 KOG3556 Familial cylindromatos 88.2 0.25 5.5E-06 57.5 1.9 30 196-225 368-397 (724)
69 KOG1887 Ubiquitin carboxyl-ter 87.7 0.11 2.5E-06 64.0 -1.3 190 277-484 549-773 (806)
70 PF11543 UN_NPL4: Nuclear pore 86.8 0.9 2E-05 41.0 4.2 62 706-773 14-77 (80)
71 PF05408 Peptidase_C28: Foot-a 86.7 0.29 6.2E-06 50.1 1.1 29 449-479 136-164 (193)
72 cd06406 PB1_P67 A PB1 domain i 86.5 2.4 5.1E-05 38.1 6.5 68 593-671 12-79 (80)
73 cd01763 Sumo Small ubiquitin-r 86.5 2.7 5.9E-05 38.5 7.3 73 687-774 9-81 (87)
74 cd01768 RA RA (Ras-associating 84.4 4.5 9.8E-05 36.8 7.8 64 902-967 2-66 (87)
75 KOG0297 TNF receptor-associate 83.1 0.84 1.8E-05 53.9 3.0 77 49-125 276-365 (391)
76 smart00314 RA Ras association 82.4 5.9 0.00013 36.3 7.8 63 901-965 4-66 (90)
77 PF08817 YukD: WXG100 protein 79.9 2.2 4.7E-05 38.4 3.8 62 708-773 15-78 (79)
78 cd01805 RAD23_N Ubiquitin-like 77.9 5.8 0.00013 35.1 6.0 70 692-776 3-74 (77)
79 cd01783 DAGK_delta_RA Ubiquiti 76.7 10 0.00022 35.4 7.1 62 901-965 4-70 (97)
80 cd01794 DC_UbP_C dendritic cel 75.8 3.4 7.3E-05 36.2 3.7 33 594-626 11-43 (70)
81 cd06406 PB1_P67 A PB1 domain i 75.5 7.4 0.00016 35.0 5.7 63 801-876 5-67 (80)
82 cd01796 DDI1_N DNA damage indu 75.4 3.6 7.8E-05 36.1 3.8 34 593-626 11-44 (71)
83 PTZ00044 ubiquitin; Provisiona 75.2 3.7 8E-05 36.3 3.9 34 593-626 12-45 (76)
84 cd01798 parkin_N amino-termina 74.9 6.8 0.00015 34.1 5.4 47 1016-1069 8-54 (70)
85 cd01809 Scythe_N Ubiquitin-lik 74.9 6.7 0.00014 34.0 5.4 68 691-773 2-69 (72)
86 cd01793 Fubi Fubi ubiquitin-li 74.8 3.7 8.1E-05 36.2 3.8 33 594-626 11-43 (74)
87 cd01812 BAG1_N Ubiquitin-like 74.3 3.9 8.5E-05 35.5 3.8 33 594-626 12-44 (71)
88 cd01798 parkin_N amino-termina 72.5 4.6 0.0001 35.2 3.8 34 593-626 10-43 (70)
89 cd01807 GDX_N ubiquitin-like d 72.4 4.6 0.0001 35.6 3.8 34 593-626 12-45 (74)
90 cd01799 Hoil1_N Ubiquitin-like 72.1 5.4 0.00012 35.5 4.1 33 592-624 13-45 (75)
91 cd01791 Ubl5 UBL5 ubiquitin-li 71.9 4.5 9.8E-05 35.8 3.6 31 595-625 15-45 (73)
92 cd01792 ISG15_repeat1 ISG15 ub 71.8 6.8 0.00015 35.2 4.8 49 1016-1069 12-60 (80)
93 PF14560 Ubiquitin_2: Ubiquiti 71.8 15 0.00032 33.6 7.0 69 708-777 16-84 (87)
94 cd01782 AF6_RA_repeat1 Ubiquit 71.1 33 0.00072 32.5 9.0 65 889-954 11-78 (112)
95 cd01806 Nedd8 Nebb8-like ubiq 70.8 5.9 0.00013 34.8 4.1 33 594-626 13-45 (76)
96 cd01803 Ubiquitin Ubiquitin. U 70.1 5.6 0.00012 34.9 3.8 33 594-626 13-45 (76)
97 smart00213 UBQ Ubiquitin homol 69.9 6.2 0.00013 33.1 3.9 34 593-626 11-44 (64)
98 cd01763 Sumo Small ubiquitin-r 69.6 6.9 0.00015 35.8 4.4 34 593-626 23-56 (87)
99 PF00240 ubiquitin: Ubiquitin 69.2 7.6 0.00016 33.5 4.4 58 709-775 9-66 (69)
100 cd01807 GDX_N ubiquitin-like d 69.1 5.7 0.00012 35.0 3.6 46 1016-1068 10-55 (74)
101 PF05408 Peptidase_C28: Foot-a 68.6 7.5 0.00016 40.2 4.7 37 191-227 28-65 (193)
102 PF14560 Ubiquitin_2: Ubiquiti 68.5 15 0.00032 33.6 6.3 59 902-961 2-60 (87)
103 cd01809 Scythe_N Ubiquitin-lik 68.3 6.8 0.00015 34.0 3.9 34 593-626 12-45 (72)
104 cd01810 ISG15_repeat2 ISG15 ub 68.1 7.8 0.00017 34.2 4.3 57 710-775 13-69 (74)
105 cd01799 Hoil1_N Ubiquitin-like 66.1 7.6 0.00017 34.6 3.8 33 1014-1046 10-42 (75)
106 cd01806 Nedd8 Nebb8-like ubiq 65.4 17 0.00036 31.9 5.9 70 692-776 3-72 (76)
107 cd01808 hPLIC_N Ubiquitin-like 65.4 8.1 0.00018 33.7 3.8 32 595-626 13-44 (71)
108 PF00240 ubiquitin: Ubiquitin 65.3 8.7 0.00019 33.1 4.0 31 1016-1046 5-35 (69)
109 PF00788 RA: Ras association ( 65.3 18 0.0004 32.9 6.4 66 901-967 4-70 (93)
110 PTZ00044 ubiquitin; Provisiona 65.2 9.1 0.0002 33.7 4.2 31 1016-1046 10-40 (76)
111 cd01769 UBL Ubiquitin-like dom 64.9 8 0.00017 32.9 3.7 31 1016-1046 7-37 (69)
112 cd01800 SF3a120_C Ubiquitin-li 64.8 8.5 0.00018 34.2 3.9 34 593-626 9-42 (76)
113 cd01791 Ubl5 UBL5 ubiquitin-li 63.6 9.5 0.0002 33.8 3.9 45 1016-1067 11-55 (73)
114 cd01769 UBL Ubiquitin-like dom 63.4 10 0.00022 32.2 4.1 33 594-626 10-42 (69)
115 cd01803 Ubiquitin Ubiquitin. U 62.6 8.8 0.00019 33.7 3.6 31 1016-1046 10-40 (76)
116 cd01804 midnolin_N Ubiquitin-l 62.5 8.5 0.00018 34.4 3.4 32 594-625 14-45 (78)
117 PF14836 Ubiquitin_3: Ubiquiti 62.4 19 0.00041 33.1 5.6 69 592-674 14-82 (88)
118 cd01789 Alp11_N Ubiquitin-like 62.3 11 0.00023 34.4 4.1 37 594-630 15-51 (84)
119 cd01802 AN1_N ubiquitin-like d 61.0 10 0.00023 35.9 3.9 33 594-626 40-72 (103)
120 cd01813 UBP_N UBP ubiquitin pr 60.5 9.8 0.00021 33.7 3.4 32 595-626 13-44 (74)
121 cd01813 UBP_N UBP ubiquitin pr 60.5 11 0.00023 33.5 3.7 35 1016-1053 9-43 (74)
122 cd01794 DC_UbP_C dendritic cel 59.2 11 0.00024 33.0 3.5 47 1016-1069 8-54 (70)
123 cd01796 DDI1_N DNA damage indu 59.0 12 0.00025 32.9 3.6 45 1016-1067 9-53 (71)
124 cd01792 ISG15_repeat1 ISG15 ub 58.9 9.4 0.0002 34.3 3.1 31 595-625 16-46 (80)
125 cd01797 NIRF_N amino-terminal 58.3 29 0.00062 31.1 6.0 56 712-776 19-74 (78)
126 cd01802 AN1_N ubiquitin-like d 56.6 27 0.00058 33.2 5.9 74 687-775 25-98 (103)
127 cd01797 NIRF_N amino-terminal 55.5 11 0.00023 33.9 2.8 29 598-626 19-47 (78)
128 PF11976 Rad60-SLD: Ubiquitin- 55.3 19 0.00042 31.2 4.4 35 1016-1052 10-44 (72)
129 cd01810 ISG15_repeat2 ISG15 ub 55.1 18 0.00038 31.9 4.2 47 1016-1069 8-54 (74)
130 cd01805 RAD23_N Ubiquitin-like 54.6 18 0.00038 32.0 4.1 33 594-626 13-47 (77)
131 cd01795 USP48_C USP ubiquitin- 54.5 19 0.00041 33.6 4.2 35 593-627 16-50 (107)
132 TIGR03180 UraD_2 OHCU decarbox 54.3 13 0.00028 38.2 3.6 28 1013-1041 105-132 (158)
133 PF14836 Ubiquitin_3: Ubiquiti 53.8 74 0.0016 29.3 7.8 67 706-777 14-81 (88)
134 smart00213 UBQ Ubiquitin homol 53.7 17 0.00036 30.4 3.7 28 1018-1045 11-38 (64)
135 cd00196 UBQ Ubiquitin-like pro 52.0 19 0.00041 28.8 3.7 31 1016-1046 7-37 (69)
136 cd01804 midnolin_N Ubiquitin-l 51.5 17 0.00037 32.5 3.4 44 1016-1066 11-54 (78)
137 cd06407 PB1_NLP A PB1 domain i 50.0 23 0.0005 32.2 4.0 25 1020-1044 13-37 (82)
138 cd01812 BAG1_N Ubiquitin-like 49.3 20 0.00043 31.0 3.5 31 1016-1046 9-39 (71)
139 cd01789 Alp11_N Ubiquitin-like 49.0 73 0.0016 28.9 7.2 66 902-969 2-67 (84)
140 PF02196 RBD: Raf-like Ras-bin 46.1 48 0.001 29.2 5.4 40 1014-1053 8-47 (71)
141 cd01790 Herp_N Homocysteine-re 46.0 80 0.0017 28.5 6.8 62 902-970 2-64 (79)
142 cd01800 SF3a120_C Ubiquitin-li 44.8 28 0.00061 30.8 3.8 32 1015-1046 6-37 (76)
143 TIGR02958 sec_mycoba_snm4 secr 44.5 58 0.0013 39.4 7.6 66 708-777 14-81 (452)
144 cd01795 USP48_C USP ubiquitin- 44.4 50 0.0011 31.0 5.2 64 706-777 15-78 (107)
145 cd01793 Fubi Fubi ubiquitin-li 43.6 34 0.00073 30.1 4.1 56 709-773 12-67 (74)
146 cd06411 PB1_p51 The PB1 domain 42.4 81 0.0018 28.4 6.1 68 594-670 9-76 (78)
147 PF11543 UN_NPL4: Nuclear pore 42.3 28 0.00061 31.4 3.4 29 1019-1047 16-44 (80)
148 cd01612 APG12_C Ubiquitin-like 39.5 50 0.0011 30.3 4.6 35 709-743 19-53 (87)
149 smart00666 PB1 PB1 domain. Pho 38.7 50 0.0011 29.4 4.5 29 1016-1044 10-38 (81)
150 TIGR03164 UHCUDC OHCU decarbox 38.0 31 0.00067 35.4 3.3 28 1013-1041 105-132 (157)
151 KOG1769 Ubiquitin-like protein 37.8 87 0.0019 29.4 5.8 59 709-776 34-92 (99)
152 cd06411 PB1_p51 The PB1 domain 36.3 77 0.0017 28.5 5.0 58 815-876 8-65 (78)
153 PRK13798 putative OHCU decarbo 35.8 35 0.00076 35.4 3.3 28 1013-1041 110-137 (166)
154 cd00196 UBQ Ubiquitin-like pro 34.9 50 0.0011 26.2 3.7 33 594-626 10-42 (69)
155 PF14847 Ras_bdg_2: Ras-bindin 34.2 57 0.0012 31.1 4.2 53 1016-1069 10-67 (105)
156 cd06408 PB1_NoxR The PB1 domai 33.8 1E+02 0.0023 28.2 5.6 54 814-875 12-65 (86)
157 PF02991 Atg8: Autophagy prote 31.4 78 0.0017 30.2 4.6 33 708-740 35-67 (104)
158 cd01768 RA RA (Ras-associating 31.1 1.3E+02 0.0028 27.1 6.0 38 707-744 14-52 (87)
159 KOG1892 Actin filament-binding 30.5 1.2E+02 0.0026 39.1 7.0 95 868-967 11-110 (1629)
160 cd01611 GABARAP Ubiquitin doma 30.1 79 0.0017 30.5 4.5 35 708-742 43-77 (112)
161 cd01808 hPLIC_N Ubiquitin-like 29.3 69 0.0015 27.8 3.7 45 1016-1068 10-54 (71)
162 cd01771 Faf1_UBX Faf1 UBX doma 28.9 1.4E+02 0.003 26.9 5.6 62 595-671 18-79 (80)
163 PF00788 RA: Ras association ( 28.1 1.3E+02 0.0028 27.1 5.6 64 693-758 4-68 (93)
164 COG3478 Predicted nucleic-acid 27.7 49 0.0011 28.3 2.2 34 361-394 3-39 (68)
165 PF00789 UBX: UBX domain; Int 27.7 2E+02 0.0042 25.6 6.5 77 689-775 6-82 (82)
166 cd01781 AF6_RA_repeat2 Ubiquit 27.6 1.9E+02 0.0041 27.4 6.3 36 918-953 19-55 (100)
167 cd01790 Herp_N Homocysteine-re 25.2 75 0.0016 28.7 3.2 31 596-626 18-50 (79)
168 cd06407 PB1_NLP A PB1 domain i 24.9 1.9E+02 0.0041 26.3 5.7 56 814-874 10-65 (82)
169 KOG1769 Ubiquitin-like protein 24.0 1.4E+02 0.0029 28.2 4.6 34 593-626 32-65 (99)
170 PTZ00380 microtubule-associate 22.7 2.3E+02 0.005 27.8 6.1 64 598-677 47-110 (121)
171 KOG3206 Alpha-tubulin folding 22.5 2.1E+02 0.0046 30.4 6.2 80 902-984 2-81 (234)
172 PF14353 CpXC: CpXC protein 22.4 60 0.0013 31.9 2.3 46 315-370 1-46 (128)
173 cd01814 NTGP5 Ubiquitin-like N 22.4 69 0.0015 30.8 2.5 42 585-626 9-57 (113)
174 cd01784 rasfadin_RA Ubiquitin- 22.4 1.9E+02 0.0041 26.6 5.1 37 918-954 16-52 (87)
175 KOG3439 Protein conjugation fa 22.2 1.4E+02 0.003 28.5 4.3 41 708-748 47-87 (116)
176 cd06410 PB1_UP2 Uncharacterize 22.1 3.2E+02 0.007 25.7 6.9 31 593-624 24-54 (97)
177 cd01775 CYR1_RA Ubiquitin doma 21.1 4.2E+02 0.0091 25.0 7.1 47 917-965 15-61 (97)
178 TIGR00601 rad23 UV excision re 20.7 1.9E+02 0.004 34.2 6.1 71 691-776 2-75 (378)
179 PF11470 TUG-UBL1: GLUT4 regul 20.4 1.1E+02 0.0023 26.6 3.0 28 916-943 8-35 (65)
180 KOG4495 RNA polymerase II tran 20.4 85 0.0019 29.1 2.5 30 600-629 20-49 (110)
181 PF04110 APG12: Ubiquitin-like 20.2 3.8E+02 0.0082 24.8 6.7 78 800-886 1-80 (87)
No 1
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.6e-186 Score=1570.38 Aligned_cols=1026 Identities=36% Similarity=0.599 Sum_probs=926.6
Q ss_pred CCCccCCCCcEEEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCC---CCCCceEEEEEEE
Q 001242 44 NQQVEDPPTMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGT---LPYGWSRYAQFSL 120 (1116)
Q Consensus 44 ~~~~~~~~~~~~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~~~~lSiyL~~~~~~~---~~~~W~~~a~f~l 120 (1116)
++.+++..+..|+|+|++||.+. +++.||+|.+||+.|+|.+||+|+++..+|+||++...+. ....|.|||||+|
T Consensus 30 ~pd~Ee~~~~sftW~vk~wsel~-~k~~Sp~F~vg~~twki~lfPqG~nq~~~sVyLe~~pqe~e~~~gk~~~ccaqFaf 108 (1089)
T COG5077 30 DPDVEELLEMSFTWKVKRWSELA-KKVESPPFSVGGHTWKIILFPQGNNQCNVSVYLEYEPQELEETGGKYYDCCAQFAF 108 (1089)
T ss_pred CccHHHHhhcccceecCChhhhh-hhccCCcccccCeeEEEEEecccCCccccEEEEEeccchhhhhcCcchhhhhheee
Confidence 77888999999999999999994 7899999999999999999999998767999999886431 1236999999999
Q ss_pred EEEeecccceeeeecceeeecCCCCCCccccccCCccCCCCCC---CcccCccceeeeeeeeecccc------ccccCCC
Q 001242 121 AVVNQIHSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSR---GYLVNDSVVVEAEVAVRKVLD------YWSYDSK 191 (1116)
Q Consensus 121 ~L~n~~~~~~~~~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p~~---gfL~nDsl~I~~~V~V~~~~~------~~~~~s~ 191 (1116)
.|.|+..|+....++++|+|+...+||||++|+.++.|..|+. +|++++++.|+++|||++++. +.+|+||
T Consensus 109 ~Is~p~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdPTGVLWHsF~nYnSK 188 (1089)
T COG5077 109 DISNPKYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDPTGVLWHSFLNYNSK 188 (1089)
T ss_pred ecCCCCCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCCccceeecccccccc
Confidence 9999999988888899999999999999999999999987754 589999999999999999965 3499999
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCc
Q 001242 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDT 271 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~ 271 (1116)
++||||||+|+|+||||||+||+||.+..||+.+|.+|+ ++..+..+++.+||++|++||.+..++++.+|+++|||.+
T Consensus 189 keTGYVGlrNqGATCYmNSLlQslffi~~FRk~Vy~ipT-d~p~grdSValaLQr~Fynlq~~~~PvdTteltrsfgWds 267 (1089)
T COG5077 189 KETGYVGLRNQGATCYMNSLLQSLFFIAKFRKDVYGIPT-DHPRGRDSVALALQRLFYNLQTGEEPVDTTELTRSFGWDS 267 (1089)
T ss_pred cceeeeeeccCCceeeHHHHHHHHHHHHHHHHHhhcCCC-CCCCccchHHHHHHHHHHHHhccCCCcchHHhhhhcCccc
Confidence 999999999999999999999999999999999999999 5666678999999999999999999999999999999999
Q ss_pred ccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCCHHHHHhhc
Q 001242 272 YDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKY 351 (1116)
Q Consensus 272 ~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~ 351 (1116)
.++++|||+|||.++|+|.||..|+++..++.++.+|.|+|+++++|.+..++|.|.|.||+++|++++.++|+++|++|
T Consensus 268 ~dsf~QHDiqEfnrVl~DnLEksmrgt~VEnaln~ifVgkmksyikCvnvnyEsarvedfwdiqlNvK~~knLqeSfr~y 347 (1089)
T COG5077 268 DDSFMQHDIQEFNRVLQDNLEKSMRGTVVENALNGIFVGKMKSYIKCVNVNYESARVEDFWDIQLNVKGMKNLQESFRRY 347 (1089)
T ss_pred chHHHHHhHHHHHHHHHHHHHHhhcCChhhhHHhHHHHHHhhceeeEEEechhhhhHHHHHHHHhcccchhhHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCcCc
Q 001242 352 VEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADR 431 (1116)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~ 431 (1116)
++.|+|+|+|+|.|+++|.|+|+|++.|.+|||||+||||||+||+.++.++|||++++||+++|| .||++.++++
T Consensus 348 IqvE~l~GdN~Y~ae~~GlqdAkKGViFeSlPpVlhlqLKRFeyDfe~d~mvKINDryEFP~eiDl----~pfld~da~k 423 (1089)
T COG5077 348 IQVETLDGDNRYNAEKHGLQDAKKGVIFESLPPVLHLQLKRFEYDFERDMMVKINDRYEFPLEIDL----LPFLDRDADK 423 (1089)
T ss_pred hhheeccCCcccccccccchhhccceeeccCchHHHHHHHHhccccccCceeeecccccCcchhcc----ccccCchhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999 9999999887
Q ss_pred Ccc--ccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCC
Q 001242 432 SVR--NLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTK 509 (1116)
Q Consensus 432 ~~~--~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~ 509 (1116)
++. +.|.|+||+||+|+.+.|||||++|+..+|+||+|||++||+++..+|+++||||+.... .+.. ....+.+
T Consensus 424 sen~d~vY~LygVlVHsGDl~~GHyYallKpe~dg~WykfdDtrVtrat~kevleeNfGgd~~~~--~k~r--~~~~~kR 499 (1089)
T COG5077 424 SENSDAVYVLYGVLVHSGDLHEGHYYALLKPEKDGRWYKFDDTRVTRATEKEVLEENFGGDHPYK--DKIR--DHSGIKR 499 (1089)
T ss_pred hcccCcEEEEEEEEEeccccCCceEEEEeccccCCCceeecceehhhHHHHHHHHHhcCCCCCCc--cccc--CCchhhh
Confidence 766 999999999999999999999999999999999999999999999999999999975321 1111 1233667
Q ss_pred CCcEEEEEEEeecCccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccC
Q 001242 510 YSNAYMLVYIRESDKDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVD 589 (1116)
Q Consensus 510 ~~~AYmL~Y~R~~~~~~~~~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~~dl~~ 589 (1116)
..+||||+|.|++..++++.||...+||+|+.+++.+|.++.|.|.+|++|+|+|..+++++.+.|.+|.| ||..|
T Consensus 500 fmsAYmLvYlRks~~ddLlnPV~a~diP~hv~e~l~eei~~~e~r~kei~e~hlYr~vrl~tid~f~~yhg----FDy~D 575 (1089)
T COG5077 500 FMSAYMLVYLRKSMLDDLLNPVAAVDIPPHVEEVLSEEIDKTEVRCKEIDEIHLYRGVRLYTIDSFIHYHG----FDYPD 575 (1089)
T ss_pred hhhhheeeeehHhHHHhhhCchhhhhCCHHHHHhhCHHHHHHHHHHHHHHHhhhheeeEEeecchhhhccC----cCchh
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999 99887
Q ss_pred CCC------ceEEEEeccccHHHHHHHHHHHhCCCCcc-eeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccc
Q 001242 590 HDK------VRSFRVQKQTSFMAFKEEIAKEFGIPIQL-QRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHT 662 (1116)
Q Consensus 590 ~~~------~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~ 662 (1116)
+.. .+.+++++.+++.+|...||+.+++|-+. +|.|.|.+|+|+|.|.+.|+. .-..|+.++....++. .
T Consensus 576 fs~~~~d~~l~qf~iKr~akisdl~~~iae~ln~pqs~~~r~w~m~krhn~tvrvd~P~n--~vnit~~e~~~m~tr~-g 652 (1089)
T COG5077 576 FSSELNDSGLAQFVIKRGAKISDLRNNIAEHLNTPQSLYLREWTMIKRHNKTVRVDRPCN--RVNITTRELVGMNTRT-G 652 (1089)
T ss_pred hhhhcccccceeEEeecCCCHHHHHHHHHHHcCCCceeeeEEEEEEeccccceeecCcch--hhhhHHHHHhhccchh-H
Confidence 764 57899999999999999999999999999 999999999999999999985 3457888887654443 3
Q ss_pred cceeeEEeeecC-CCCCC-CCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEE
Q 001242 663 AELRLFLEVEFG-PDLHP-IAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELY 740 (1116)
Q Consensus 663 ~~~~~~~e~~~~-~~~~~-~~~~~~~~~~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~ly 740 (1116)
..+++|||.... .+... ..........++||+||||+.+|.+.|+|++.|.+..+|+++.|.|++ .||.+++|.+|
T Consensus 653 e~l~~yle~~iEhnqL~s~~~~~lt~d~~~~ifvkyfd~~tq~i~gfg~lhvnk~~~issisp~ied--~~ssn~plt~y 730 (1089)
T COG5077 653 EELRSYLERIIEHNQLDSQRKVALTKDGVINIFVKYFDYTTQPISGFGGLHVNKFLKISSISPWIED--SISSNLPLTLY 730 (1089)
T ss_pred HHHHHHHHhhhhhhhhhhhhheeecCCcceEEEEEeeccccccccCccchhhhhhcccccccHHHhh--cccCCCCcchh
Confidence 477888887643 11110 011123445699999999999999999999999999999999999999 89999999999
Q ss_pred EEeecCcceeeccCCcCCccccccCCCCCEEEEEeCCCCCCcccCCCCCHHHHHHHHhcceEEEEEecCCC-CCCcEEEE
Q 001242 741 EEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSPPLESEQECRYPDVPSFLEYVHNRQIVRFRALDRP-KEDAFCLE 819 (1116)
Q Consensus 741 EEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~~~~~~~~~~~y~~~~~yy~~L~nr~~v~f~~~~~~-~~~~f~l~ 819 (1116)
|||| |+ |+..|.++.||.++||+.||||||+++...+......|.++.++|+||++||.|.|+..... ....|+++
T Consensus 731 eeik--pg-mvd~i~~n~t~~~sei~tgDIi~Fe~p~a~e~Dts~~ydsa~klydfl~~rVlv~frrfsd~~~~~vfefl 807 (1089)
T COG5077 731 EEIK--PG-MVDTIGDNITFIGSEIGTGDIICFEVPGAVEFDTSSAYDSALKLYDFLQGRVLVAFRRFSDEYRENVFEFL 807 (1089)
T ss_pred hhhc--cC-ccccccCCcceeecccCcCcEEEEeccCcccccccccchhhhHHHHhhcCcEEEEEEeeccccccceEEEe
Confidence 9998 87 55999999999999999999999998876666666779999999999999999999964322 34479999
Q ss_pred EcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhc-cCC-ccceEEEEEeccChhhhc
Q 001242 820 LSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVH-YNQ-TSDILYYEVLDIPLPELQ 897 (1116)
Q Consensus 820 ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~~-~~~~l~YEvL~ipl~elE 897 (1116)
|+....|++||+.||.++++ +|.+||++++......+. .-+...+.-+|.+.|.. +.. +....+||+|++||+|||
T Consensus 808 l~~~~~Yddlcr~vs~~~hv-~p~ylr~~~~~~l~~~~r-~vv~s~s~fll~eal~ss~e~~q~p~~~yevldvpLsele 885 (1089)
T COG5077 808 LFIGDFYDDLCRNVSCKLHV-TPFYLRGTKSTELEDRIR-RVVGSKSIFLLKEALSSSSEFRQAPVDFYEVLDVPLSELE 885 (1089)
T ss_pred eecCccHHHHHHHhccccCC-ChhHheeeeccCcccccc-eeeCCchHhHHHHHhcchhhhccCCcceeeecCccHHHHh
Confidence 99999999999999999997 599999999655443333 34444555799999965 332 446679999999999999
Q ss_pred cCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEeccEEEEecCCcccccccccccce
Q 001242 898 GLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVFYHKIYKIFAPNEKIENINDQYWT 976 (1116)
Q Consensus 898 ~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~~ 976 (1116)
.+|.+++.|+++++.+++.+++++.|++|+.|+|..+..+++++++ ..++|+|++.++|+.+.++..+.+..++. ..+
T Consensus 886 r~r~irl~flsngy~h~~l~ef~v~kdyt~~d~l~~v~~Kvg~tde~kk~vlv~e~~n~r~~r~hsl~tl~~d~n~-~st 964 (1089)
T COG5077 886 RKRLIRLCFLSNGYQHVYLAEFYVEKDYTAVDHLHIVVTKVGCTDELKKSVLVYEVVNLRPVRGHSLKTLIIDDNV-RST 964 (1089)
T ss_pred cccceEEEEeecCceEEEEEEEeecccccHHHHHHHHHhhcCCcHhhhhcEEEEEEeecceecccCccceEEeccc-cce
Confidence 9999999999999999999999999999999999999999999874 57899999999999999999999999986 679
Q ss_pred eEeeecchhhccCCCCCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEe
Q 001242 977 LRAEEIPEEEKNLGPNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLS 1056 (1116)
Q Consensus 977 ~~~E~iP~ee~~~~~~~~li~V~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~ 1056 (1116)
+++|.+|.++.++..+++.|.|.||+|+..+.| ||||+|+|.++|||.++|.||++|+|.++|+|+|+|+++..
T Consensus 965 lygev~pleq~ql~t~e~~VvVqhffkdl~r~h------gi~f~f~i~p~etf~dtk~rl~arfg~~~k~Fskikl~vg~ 1038 (1089)
T COG5077 965 LYGEVFPLEQEQLTTNEMCVVVQHFFKDLIRTH------GIPFMFVIVPFETFLDTKVRLVARFGYKYKLFSKIKLFVGK 1038 (1089)
T ss_pred eeeEecchhhhccccCCcEEEEeHHHHHHHHhc------CCceEEEeccccccchhHHHHHHHhCCCceeeeeEEEEEee
Confidence 999999999999999999999999999999988 99999999999999999999999999999999999999994
Q ss_pred c---C----CcccccCcccccccccccccCCCcceeEEecCCCCCCCcccccCCCCcccccceEec
Q 001242 1057 L---G----RPEYLVDTDTVFNRFQRRDVYGAWEQYLGLEHSDNAPKRAYSVNQNRHTYEKPVKIY 1115 (1116)
Q Consensus 1057 ~---~----~~~~~~~~~~~~~~~~~~~~~~~~~~~lgldh~~~~~~~~~~~~~~~~~~~~~i~i~ 1115 (1116)
. + ++.|++||+++++.+.+.+. .| ||||++.++. |.++|||.||
T Consensus 1039 s~~~g~~~~~~~~fnDedilyd~ie~l~~------il-lDhp~~~~~~--------~~~Drai~mK 1089 (1089)
T COG5077 1039 SYTDGELDWPMSYFNDEDILYDLIERLDY------IL-LDHPDRLRSH--------SSYDRAIIMK 1089 (1089)
T ss_pred cccccccccccccccchhhhhhhhhccCc------ee-ecCcccccCc--------cccccceecC
Confidence 2 3 47999999998887765553 44 9999999542 4589999986
No 2
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.6e-113 Score=1092.24 Aligned_cols=1036 Identities=37% Similarity=0.534 Sum_probs=883.2
Q ss_pred cCCCCcEEEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecc
Q 001242 48 EDPPTMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIH 127 (1116)
Q Consensus 48 ~~~~~~~~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n~~~ 127 (1116)
.+...+..+|.+.++..+. .+..||.|..|+.+|+|+++|+|+....+++|+++...+.. ..|+|++++.+.++|..+
T Consensus 22 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~~~ 99 (1093)
T KOG1863|consen 22 QTSLNQSTTIDGIDDKSLL-YRALSSNFGAGATKWKILIAPKVNSLQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKNTID 99 (1093)
T ss_pred cchhcccccccCcCcchhh-hHhcCccccccccceeeeeccccCcccceeEEeeeccCCCC-cceEecchhhhccccCCC
Confidence 3445556678888888885 48899999999999999999999988999999999987765 559999999999999656
Q ss_pred cceeeeecceeeecCCCCCCccccccCCccCCCCCCCcccCccceeeeeeeeeccccc-cccCCCCcccc-cccccCCcc
Q 001242 128 SKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKVLDY-WSYDSKKETGY-VGLKNQGAT 205 (1116)
Q Consensus 128 ~~~~~~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~V~~~~~~-~~~~s~~~~g~-~GL~N~GnT 205 (1116)
+.....+.++|.|.....||||++|+.+.++.++..||+.+|++.+++.|++..+++. +.||+++.+|+ +||.|+|||
T Consensus 100 ~~~~~~~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~~~~~d~k~~tg~~vGL~N~GaT 179 (1093)
T KOG1863|consen 100 NLPDPEKAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTSLMNPYDSKRLTGFPVGLKNLGAT 179 (1093)
T ss_pred CchhhhhhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCcccchhhhhhcCCCCccccCCCce
Confidence 6666777899999999999999999999999999999999999999999999998776 79999999999 999999999
Q ss_pred cchhhHHHHHhcchhHHHHHccCCC-CCCCCCCCCHHHHHHHHHHHHhcCCc-ccccchhhhhcccCcccccccccHHHH
Q 001242 206 CYMNSLLQTLYHIPYFRKAVYHMPT-TENDLPSGSIPLALQSLFYKLQYNDT-SVATKELTKSFGWDTYDSFMQHDVQEL 283 (1116)
Q Consensus 206 CY~NSvLQ~L~~~p~fr~~l~~~~~-~~~~~~~~~~~~~Lq~Lf~~l~~s~~-~v~~~~l~~s~~~~~~~~~~QqDa~Ef 283 (1116)
|||||+||+||+++.||+.||+++. ..+..+..+++.+||+||+.||.++. +|+|.+++++++|.+..+++|||+|||
T Consensus 180 CY~NsllQ~lf~~~~FR~~Vy~~~~~~~~~~~~~~v~~~lq~lF~~LQ~s~~k~Vdt~~~~~~~~~~~~~~~~QqDvqEf 259 (1093)
T KOG1863|consen 180 CYVNSLLQVLFLIPEFRRAVYSIPPFTGHEDPRRSIPLALQRLFYELQMSKRKYVDTSELTKSLGWDSNDSFEQQDVQEF 259 (1093)
T ss_pred eeehHHHHHHHccHHHHHHHhcCCCCCCcccccchHHHHHHHHHHHHhhcCCCCcCchhhhhhhhcccccHHhhhhHHHH
Confidence 9999999999999999999999993 25666778899999999999999987 999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCCHHHHHhhcceeEEecCCCcc
Q 001242 284 NRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVERLEGDNKY 363 (1116)
Q Consensus 284 l~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~~~~E~l~g~n~y 363 (1116)
+++|+|.|++.++++...+.+.++|.|++.+++.|..|++.+.+.|.|++++|++++..++.++|..|++.|.++|+|+|
T Consensus 260 ~~~l~d~LE~~~~~~~~~~~l~~lf~g~~~~~i~c~~~~~~s~r~e~f~d~ql~~~g~~nl~~sf~~y~~~E~l~gdn~~ 339 (1093)
T KOG1863|consen 260 LTKLLDWLEDSMIDAKVENTLQDLFTGKMKSVIKCIDVDFESSRSESFLDLQLNGKGVKNLEDSLHLYFEAEILLGDNKY 339 (1093)
T ss_pred HHHHHHHHHhhccchhhhhhhhhhhcCCcceEEEEEeeeeeccccccccCccccccchhhHHHHHHHhhhHHHhcCCccc
Confidence 99999999999999998999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCC-CcCcCcc-ccEEEEE
Q 001242 364 HAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSP-DADRSVR-NLYTLHS 441 (1116)
Q Consensus 364 ~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~-~~~~~~~-~~Y~L~g 441 (1116)
.+++++.++|.+++.+.+||+||+|||+||.||..++...|++++++||..|+| .+|++. +.+.+.. +.|+|+|
T Consensus 340 ~~~~~~~~~a~k~~~f~~lPpvl~~qL~Rf~~~~~~~~~~Ki~d~~~fp~~i~~----d~~~~~~~~~~~~~~~~y~l~~ 415 (1093)
T KOG1863|consen 340 DAECHGLQDAKKGVLFDSLPPVLFIQLMRFEYDFSTGQKIKINDKFEFPLIIDM----DRYLSRFKAEESERSAVYSLHA 415 (1093)
T ss_pred cccccchhhhhcceeeccCCchhhhhhhheeeeccCCceeehhhccCCcccccc----chhccccchhhhhccceeccch
Confidence 777778999999999999999999999999999999999999999999999999 566653 3333344 4999999
Q ss_pred EEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001242 442 VLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1116)
Q Consensus 442 VVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~ 521 (1116)
|++|.|..++|||++|+++...++|++|||..|+.++..+|++.+||+.+..... .....+||||+|.|.
T Consensus 416 v~vh~g~~~~ghy~~~i~~~~~~~w~kfdd~~v~~~~~~~~l~~~~g~~~~~~~~----------~~~~~~~~~lv~~~~ 485 (1093)
T KOG1863|consen 416 VLVHSGDAHSGHYVAYINPKLDGKWVKFDDLVVTVVSEKEALEQNYGTEEIELSS----------TADFKNAYMLVYIRD 485 (1093)
T ss_pred hhcccccccCccceeeecchhhccceeccCceeeeccHHHHHHhhCCCcchhhhc----------ccccCCcceEEEEec
Confidence 9999889999999999998889999999999999999999999999998643211 112235999999999
Q ss_pred cCccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccCC----CCceEEE
Q 001242 522 SDKDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVDH----DKVRSFR 597 (1116)
Q Consensus 522 ~~~~~~~~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~~dl~~~----~~~~~~~ 597 (1116)
+..++++++++..++|.|+.+.+..+..+.+.++++.++++++..++..+++.+..+.| |++.+. ....++|
T Consensus 486 s~~~~~~~~v~e~~i~~~l~~~~~~e~~~~~~k~k~~~~~~l~~~i~~~~~d~~~~~~~----~~~~~~~~~~~~~~~~r 561 (1093)
T KOG1863|consen 486 SCESKILKDISESSIPYHLSETLQKEKYKTEEKDKELEEARLSAVIRALSDDQLIKQHG----FDVEDELYEPEQYRTLR 561 (1093)
T ss_pred CcHHhhhcccchhhccHHHHHHhhhhhhhhhhhhhhhHHhhhhhhhhccCccchhhhcc----chHhhhhcccccchHHH
Confidence 99999999999999999999999999999999999999999999999999999999999 777665 3456789
Q ss_pred EeccccHHHHHHHHHHHhCCCCc-ceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEeeec---
Q 001242 598 VQKQTSFMAFKEEIAKEFGIPIQ-LQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEF--- 673 (1116)
Q Consensus 598 ~~~~~~~~~~~~~i~~~~~~~~~-~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~--- 673 (1116)
+.+...+.+|...++..+|+++. ..|+|.+..|.|.+.++..+........++.+..+.. .+..+..|++...
T Consensus 562 ~~~~~~~~eli~~~~~~~~~~~~~~~~~w~~~~r~~~~~~~~~~~n~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~ 638 (1093)
T KOG1863|consen 562 AAKIEELSELITRLLGEFELPPSVQPRLWPLGYRNNLTVLPQYLFNIAPLRSYILDITEKV---LNDLWHEYLELAVEEI 638 (1093)
T ss_pred HHhhhhHHHHHHHHHhhccCCccccchhhhhhccccceEeeecccccchhhhhhhhhhhhh---ccchHHHHHHHHhhhc
Confidence 99999999999999999999998 8999999999999999988765444444554444221 1123444444432
Q ss_pred -CCCCCCCCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeec
Q 001242 674 -GPDLHPIAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCE 752 (1116)
Q Consensus 674 -~~~~~~~~~~~~~~~~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie 752 (1116)
++.. ...+......++++|+|+||+.++.+.++|+...+...+..++.+.++++.|+++++.+..|+|++.+...+++
T Consensus 639 ~~~~~-~~~~~~~~~~~~~lf~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~d~~~~~~~e~~~~~~~~id 717 (1093)
T KOG1863|consen 639 GGNEV-RRLPSFQFTRDLLLFLKMYDDRKRSVTPSGELAYLALTPLRLLQVLLNELIGVVDDTSTREYSELKEEKDERID 717 (1093)
T ss_pred Ccccc-cccccccchHHHHHHHHHhccccccccchhhccccccCchhhhhhhhhhhcccCCccchHHHHHhcchhhhcch
Confidence 2211 11234445556799999999999999999999999999999999999999999999999999999844333568
Q ss_pred cCCcCCccccccCCCCCEEEEEeCCCCCCcccCCCCCHHHHHHHHhcceEEEEEecCCCCCC-cEEEEEcCCCCHHHHHH
Q 001242 753 HLDKRTSFRLSQIEDGDIICFQKSPPLESEQECRYPDVPSFLEYVHNRQIVRFRALDRPKED-AFCLELSKQHSYDEVVE 831 (1116)
Q Consensus 753 ~i~~~~t~~~~el~~GDIi~fQ~~~~~~~~~~~~y~~~~~yy~~L~nr~~v~f~~~~~~~~~-~f~l~ls~~~~Y~~~a~ 831 (1116)
.+....+|..+++++|||+||+...+. .+....++++.+|++++.+|..+.|+.+..+..+ .|+++++.+++|.+++.
T Consensus 718 ~~~~~~~~~~~~~~d~~~~~~e~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~~~~~~~~~ 796 (1093)
T KOG1863|consen 718 KIAEEKSFDLSELEDGDISVVEEEAAS-KDSESNRADVSEFLENVENRTLQRFRKVSSEIEENSFVLGRQQRVTECILAV 796 (1093)
T ss_pred hhhhhhhhhhhhhhcCCeeeecccccC-CcccccccchHHHHHHHHHHHHHHHhcccccccccccccchhhhhhhhHHHH
Confidence 888899999999999999999988543 3456789999999999999999999998777666 89999999999999999
Q ss_pred HHHHHhCCCCCCceEEeccc-ccCCCCCCCCccccCcchHHHhhhc--cCCccceE-EEEEeccChhhhccCceEEEEEE
Q 001242 832 RVARKIGLDDPSKIRLTPHN-CYSQQPKPQPIKYRGVEHLSDMLVH--YNQTSDIL-YYEVLDIPLPELQGLKNLKVAFH 907 (1116)
Q Consensus 832 ~va~~l~~~~p~~lr~~~~~-~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~~l-~YEvL~ipl~elE~~k~~kv~w~ 907 (1116)
.|+.++++ +|..++..+.. ++...+.+...+.+....+...+.+ .......+ +|.++++++.|+..++.+++.|+
T Consensus 797 ~v~~~l~~-~p~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l 875 (1093)
T KOG1863|consen 797 LVQLALGK-DPISIDSDRAEYDLEKIRFNGTVKLSQVLLDATQLVRDPRERFVSLLKVQFVLPKTIVELLDLKYFKDEWL 875 (1093)
T ss_pred HHHHHhcC-CchhccccccCCchhhccccCcceeeccccccccccccccccccccceecccCCcceeccccccccchhhh
Confidence 99999997 58888888743 2223344444444433223333322 22334555 45599999999999999999999
Q ss_pred cCCCCeEEEEEEEcCCCCCHH-HHHHHHHhhccCCC-CCccEEEEEEeccEEEEecCCcccccccccccc---------e
Q 001242 908 HATKDEVVIHNIRLPKQSTVG-DVINELKTKVELSH-PNAELRLLEVFYHKIYKIFAPNEKIENINDQYW---------T 976 (1116)
Q Consensus 908 ~~~~~~~~~~~~~v~k~~tv~-dll~~l~~~~~~~~-~~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~---------~ 976 (1116)
.....+.....+.+.|.+||. |++.++.+++.+.+ ..+++|++++.++++++.......+..|+..++ +
T Consensus 876 ~~~~~~~~~~~~~~~k~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 955 (1093)
T KOG1863|consen 876 VDMENGVEIMTLAVTKLGTILPDILREVYDRVPLDPFKSDAFRLFEVTSMKLYKETSYQKLLEELNQSYQSFELLLRDLF 955 (1093)
T ss_pred ccccccchhhheeccccchhhHHHHHHHHhhcccCcccccceeEEeecchHHHHhccchhHHHHHhHHHhhHHhhhcccc
Confidence 999999999999999999999 99999999999986 578999999999999999999999988876444 3
Q ss_pred eEeeecchhhccCC-CCCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhC-CCccccceeEEEE
Q 001242 977 LRAEEIPEEEKNLG-PNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQ-VLDEEFSKWKFAF 1054 (1116)
Q Consensus 977 ~~~E~iP~ee~~~~-~~~~li~V~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~-~~~~~f~k~kfai 1054 (1116)
+|+|++|.+++... ..+++++|.||.|+..+ .||+||.+.+.++|++.+++.|++.+++ ++++.|++||+|.
T Consensus 956 ~r~~~v~~~~~~~~~~~~~~~~~~~~~k~~~~------n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~k~~~ 1029 (1093)
T KOG1863|consen 956 LRGESVPLLEILSSKGAPKLELVIHFSKELVQ------NIGNELNLLIVQGESLKENKDHLFDDLKEVSDELFSVFKHAG 1029 (1093)
T ss_pred cccccCcHHHHhhcccccceeehhhcchhhhh------hcchhhHHHhccchhHHHHHHHHHHHHHHhhHHHhHHHhhhh
Confidence 89999999998876 56699999999999853 4599999999999999999999999999 9999999999999
Q ss_pred EecCCcc-cccCcc--cccccccccccCCCcceeEEecCCCCCCCcccccCCCCcccccceEecC
Q 001242 1055 LSLGRPE-YLVDTD--TVFNRFQRRDVYGAWEQYLGLEHSDNAPKRAYSVNQNRHTYEKPVKIYN 1116 (1116)
Q Consensus 1055 ~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~lgldh~~~~~~~~~~~~~~~~~~~~~i~i~n 1116 (1116)
+..++.. +..+.- ...+.-...+..+.+..++||||.+++|++.+--.+++ ..++||+|+|
T Consensus 1030 ~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~v~~~n 1093 (1093)
T KOG1863|consen 1030 ASVGHYWKYIQDFNLIYRKDNDEEIDVVSEPEVFLDLSGNNANPYFLSYLRQGQ-IIEEPVKIEN 1093 (1093)
T ss_pred hhhccchhhhhccccccccccchhhhcccCcccccccCCCCCCchhhhhhhccc-chhhhhhccC
Confidence 7666532 222310 00111122233455566999999999998754222333 5799999998
No 3
>cd02659 peptidase_C19C 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=100.00 E-value=1e-56 Score=517.28 Aligned_cols=320 Identities=54% Similarity=0.887 Sum_probs=277.9
Q ss_pred cccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccc-ccchh--hhhcccCc
Q 001242 195 GYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSV-ATKEL--TKSFGWDT 271 (1116)
Q Consensus 195 g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v-~~~~l--~~s~~~~~ 271 (1116)
|++||.|+||||||||+||+|+++|+||+++++........+..++.++|+.||..|+.+.... .+..+ ...++|..
T Consensus 1 g~~GL~N~GntCY~NsvLQ~L~~~~~f~~~~l~~~~~~~~~~~~~~~~~l~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (334)
T cd02659 1 GYVGLKNQGATCYMNSLLQQLYMTPEFRNAVYSIPPTEDDDDNKSVPLALQRLFLFLQLSESPVKTTELTDKTRSFGWDS 80 (334)
T ss_pred CCCCcccCCcchHHHHHHHHHhcCHHHHHHHHcCCCcccCcccccHHHHHHHHHHHHHhCCccccCcchhheeccCCCCC
Confidence 7899999999999999999999999999999987433344556789999999999999865433 33332 46677888
Q ss_pred ccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCCHHHHHhhc
Q 001242 272 YDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKY 351 (1116)
Q Consensus 272 ~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~ 351 (1116)
+..+.||||+||+..|++.|+++++.....+.|.++|+|.+.+.++|..|+..+.+.++|++|+|++++..+++++|+.|
T Consensus 81 ~~~~~QqDa~Efl~~ll~~l~~~~~~~~~~~~i~~lF~g~~~~~~~C~~C~~~s~~~e~f~~l~l~i~~~~~l~~~l~~~ 160 (334)
T cd02659 81 LNTFEQHDVQEFFRVLFDKLEEKLKGTGQEGLIKNLFGGKLVNYIICKECPHESEREEYFLDLQVAVKGKKNLEESLDAY 160 (334)
T ss_pred CCcccchhHHHHHHHHHHHHHHHhccCcccchhhhhCceEEEeEEEecCCCceecccccceEEEEEcCCCCCHHHHHHHh
Confidence 88999999999999999999999987777788999999999999999999999999999999999999999999999999
Q ss_pred ceeEEecCCCcccccccCc-eeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCc-
Q 001242 352 VEVERLEGDNKYHAEEHGL-QDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA- 429 (1116)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~-~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~- 429 (1116)
+.+|.++|.|+|.|+.|++ +.+.++..|.++|++|+|||+||.|+..++...|+++.|+||..||| .+|+....
T Consensus 161 ~~~e~l~~~~~~~C~~C~~~~~~~k~~~i~~lP~vLii~l~Rf~~~~~~~~~~K~~~~v~fp~~Ldl----~~~~~~~~~ 236 (334)
T cd02659 161 VQGETLEGDNKYFCEKCGKKVDAEKGVCFKKLPPVLTLQLKRFEFDFETMMRIKINDRFEFPLELDM----EPYTEKGLA 236 (334)
T ss_pred cCeeEecCCccEecCcCCCcccEEEEEEeecCCCEEEEEeeeeEEccccCcceeCCceEeCCceecC----ccccccccc
Confidence 9999999999999999985 58999999999999999999999999888889999999999999999 66665432
Q ss_pred --------CcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCC
Q 001242 430 --------DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFN 501 (1116)
Q Consensus 430 --------~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~ 501 (1116)
.......|+|+|||+|.|+.++|||+||+|...+++||+|||+.|+++++++|++.+|||.........+
T Consensus 237 ~~~~~~~~~~~~~~~Y~L~~vI~H~G~~~~GHY~~~vk~~~~~~W~~~nD~~V~~i~~~~v~~~~~g~~~~~~~~~~~-- 314 (334)
T cd02659 237 KKEGDSEKKDSESYIYELHGVLVHSGDAHGGHYYSYIKDRDDGKWYKFNDDVVTPFDPNDAEEECFGGEETQKTYDSG-- 314 (334)
T ss_pred cccccccccCCCCeeEEEEEEEEecCCCCCCCeEEEEECCCCCceEEEeCcccEECCHHHHHHHcCCCcccccccccc--
Confidence 2345678999999999999999999999998768999999999999999999999999997532110000
Q ss_pred CCCcccCCCCcEEEEEEEeec
Q 001242 502 NTPFKFTKYSNAYMLVYIRES 522 (1116)
Q Consensus 502 ~~~~~~~~~~~AYmL~Y~R~~ 522 (1116)
.....++.+||||||+|++
T Consensus 315 --~~~~~~~~~ay~l~Y~~~~ 333 (334)
T cd02659 315 --PRAFKRTTNAYMLFYERKS 333 (334)
T ss_pred --ccccccccceEEEEEEEeC
Confidence 1123456789999999976
No 4
>cd02668 Peptidase_C19L 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=100.00 E-value=4.3e-56 Score=509.19 Aligned_cols=308 Identities=33% Similarity=0.542 Sum_probs=262.4
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC----------CCCCCCHHHHHHHHHHHHhcCC-cccccchhhhh
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN----------DLPSGSIPLALQSLFYKLQYND-TSVATKELTKS 266 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~----------~~~~~~~~~~Lq~Lf~~l~~s~-~~v~~~~l~~s 266 (1116)
||.|+||||||||+||+|+++|+||++++....... .....+++++|++||..|+.+. .+++|..|.++
T Consensus 1 GL~NlGnTCY~NsvLQ~L~~~~~fr~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~lf~~l~~~~~~~i~p~~f~~~ 80 (324)
T cd02668 1 GLKNLGATCYVNSFLQLWFMNLEFRKAVYECNSTEDAELKNMPPDKPHEPQTIIDQLQLIFAQLQFGNRSVVDPSGFVKA 80 (324)
T ss_pred CcccCCceeHHHHHHHHHHCCHHHHHHHHccCcccccccccccccCCcccchHHHHHHHHHHHHHhCCCceEChHHHHHH
Confidence 899999999999999999999999999987664321 0123579999999999999864 57899999999
Q ss_pred cccCcccccccccHHHHHHHHHHHHHHhhcC---CccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCC
Q 001242 267 FGWDTYDSFMQHDVQELNRVLCEKLEDKMKG---TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRD 343 (1116)
Q Consensus 267 ~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~---~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~s 343 (1116)
+++ ..++||||+||+..||+.|+++++. ....+.|.++|+|++.+.++|..|++.+.+.|+|++|+|++++..+
T Consensus 81 l~~---~~~~QqDa~EFl~~lLd~L~~~l~~~~~~~~~~~i~~~F~G~~~~~~~C~~C~~~s~~~e~f~~l~l~i~~~~s 157 (324)
T cd02668 81 LGL---DTGQQQDAQEFSKLFLSLLEAKLSKSKNPDLKNIVQDLFRGEYSYVTQCSKCGRESSLPSKFYELELQLKGHKT 157 (324)
T ss_pred hCC---CCccccCHHHHHHHHHHHHHHHHhhccCCcccchhhhhcceEEEEEEEeCCCCCccccccccEEEEEEecccCC
Confidence 964 4678999999999999999999874 3345789999999999999999999999999999999999999999
Q ss_pred HHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccC
Q 001242 344 VYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENG 422 (1116)
Q Consensus 344 L~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~ 422 (1116)
|+++|+.|+.+|.++|+|+|.|+.|+ +++|.|+..|.++|++|+|||+||.||..++...|+++.|+||..||| .
T Consensus 158 l~~~L~~~~~~e~l~g~~~~~C~~C~~~~~a~k~~~i~~lP~iLii~LkRf~~d~~~~~~~Ki~~~v~fp~~Ldl----~ 233 (324)
T cd02668 158 LEECIDEFLKEEQLTGDNQYFCESCNSKTDATRRIRLTTLPPTLNFQLLRFVFDRKTGAKKKLNASISFPEILDM----G 233 (324)
T ss_pred HHHHHHHhhCceecCCCccccCCCCCceeeeEEEEEecCCCCeEEEEEEcceeecccCcceeCCcEEECCCeEec----h
Confidence 99999999999999999999999998 678999999999999999999999999888889999999999999999 7
Q ss_pred CCCCCCcCcCccccEEEEEEEEeecc-CCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCC
Q 001242 423 KYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFN 501 (1116)
Q Consensus 423 ~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~ 501 (1116)
+|+.... ..+..|+|+|||+|.|+ +++|||+||+|+..+++||+|||+.|++++++.+.+...++.......
T Consensus 234 ~~~~~~~--~~~~~Y~L~~vI~H~G~~~~~GHY~~~~k~~~~~~W~~fdD~~V~~i~~~~~~~~~~~~~~~~~~~----- 306 (324)
T cd02668 234 EYLAESD--EGSYVYELSGVLIHQGVSAYSGHYIAHIKDEQTGEWYKFNDEDVEEMPGKPLKLGNSEDPAKPRKS----- 306 (324)
T ss_pred hhccccc--CCCcEEEEEEEEEEcCCCCCCEeeEEEEECCCCCcEEEEECCceEEcCHHHhhccccccccccccc-----
Confidence 8875542 34678999999999994 899999999999767899999999999999998865433221100000
Q ss_pred CCCcccCCCCcEEEEEEE
Q 001242 502 NTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 502 ~~~~~~~~~~~AYmL~Y~ 519 (1116)
........+.+||||||+
T Consensus 307 ~~~~~~~~~~~~y~l~y~ 324 (324)
T cd02668 307 EIKKGTHSSRTAYMLVYK 324 (324)
T ss_pred ccCCCccccCceEEEEeC
Confidence 000112346799999995
No 5
>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=100.00 E-value=2e-56 Score=487.59 Aligned_cols=249 Identities=40% Similarity=0.731 Sum_probs=186.2
Q ss_pred ceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEeeecCCCCCCCCCCCCCCCcEEEEEEeecCC
Q 001242 621 LQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEFGPDLHPIAPPDKSKDDILLFFKLYDPE 700 (1116)
Q Consensus 621 ~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~illFlK~fDp~ 700 (1116)
++|||.|.+|+|+|.||+.|+.+.+.++||+++...... +.++++||||+..+.......++...+++||||||||||.
T Consensus 1 ~~RlW~~~~R~N~T~Rp~~p~~~~~~~~tl~~~~~~~~~-~~~~~~lflE~~~~~~~~~~~~~~~~~~~iLlFlK~fDp~ 79 (249)
T PF12436_consen 1 RFRLWRMVNRQNKTLRPDTPLPEEDEDMTLEEVRNKDSN-KQSELRLFLEEASPNSPSEPLPPYDPSDDILLFLKYFDPE 79 (249)
T ss_dssp GEEEEEEEE-CTTBEEE----CCHHCTSBCHHHHTS--S----SEEEEEEE--HHTTT-------TTTEEEEEEEEEETT
T ss_pred CEEEEEEECCCCCCCCCCCcCCcccccccHHHHhhcccc-cccccEEEEeccCcccccccCCCCCCCCcEEEEEEeeCCC
Confidence 689999999999999999999888889999999976554 5579999999975333333456677888999999999999
Q ss_pred CCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeCCCCC
Q 001242 701 KGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSPPLE 780 (1116)
Q Consensus 701 ~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~~~~~ 780 (1116)
+|+|+|+||++|+++++|++|+|.|+++||||+||+|.|||||+ |+ +|++|+++.||.++||+||||||||+..+.+
T Consensus 80 ~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~--~~-~ie~i~~~~t~~~~el~~GdIi~fQ~~~~~~ 156 (249)
T PF12436_consen 80 TQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIK--PN-MIEPIDPNQTFEKAELQDGDIICFQRAPSED 156 (249)
T ss_dssp TTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEE--TT-EEEE--SSSBHHHTT--TTEEEEEEE--GG-
T ss_pred CCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEec--cc-eeeEcCCCCchhhcccCCCCEEEEEeccccc
Confidence 99999999999999999999999999999999999999999998 76 5699999999999999999999999998766
Q ss_pred CcccCCCCCHHHHHHHHhcceEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCC
Q 001242 781 SEQECRYPDVPSFLEYVHNRQIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQ 860 (1116)
Q Consensus 781 ~~~~~~y~~~~~yy~~L~nr~~v~f~~~~~~~~~~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~ 860 (1116)
......|+||++||+||+||++|+|++...+.+++|+||||++|+|+|||++||++||+ ||++||||++++++++|+..
T Consensus 157 ~~~~~~~~~v~~Yy~~l~nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~-dP~~lr~~~~~~~~~~P~~~ 235 (249)
T PF12436_consen 157 LDKSSRYPDVKEYYDFLYNRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNV-DPEHLRFFTVNPYSGKPKSQ 235 (249)
T ss_dssp -GGGSSS-SHHHHHHHHHHEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS--GGGEEEE---TTS-S---S
T ss_pred cccccCCCCHHHHHHHHhCeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCC-ChHHEEEEEeccCCCCCCCc
Confidence 67888999999999999999999999999998889999999999999999999999998 79999999999999999988
Q ss_pred CccccCcchHHHhh
Q 001242 861 PIKYRGVEHLSDML 874 (1116)
Q Consensus 861 ~~~~~~~~~l~~~l 874 (1116)
+++++.++||+|||
T Consensus 236 ~~r~~~~~tL~dil 249 (249)
T PF12436_consen 236 PIRYSDNGTLKDIL 249 (249)
T ss_dssp B--TT--S-HHHHS
T ss_pred cccCCCCCcHHHhC
Confidence 88888899999996
No 6
>cd02664 Peptidase_C19H 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=100.00 E-value=5e-55 Score=500.33 Aligned_cols=286 Identities=31% Similarity=0.445 Sum_probs=246.2
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcC-Ccccccch-hhhhcccCccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYN-DTSVATKE-LTKSFGWDTYDSF 275 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s-~~~v~~~~-l~~s~~~~~~~~~ 275 (1116)
||.|+||||||||+||+|+++|+||+++++..... .....++.++|+.+|..|..+ ..++.+.. +..+...+.+..+
T Consensus 1 GL~NlGnTCY~NS~LQ~L~~~~~fr~~ll~~~~~~-~~~~~~~~~~L~~lf~~l~~~~~~~~~~~~~~l~~~~~~~f~~~ 79 (327)
T cd02664 1 GLINLGNTCYMNSVLQALFMAKDFRRQVLSLNLPR-LGDSQSVMKKLQLLQAHLMHTQRRAEAPPDYFLEASRPPWFTPG 79 (327)
T ss_pred CCcCCcccHHHHHHHHHHHCcHHHHHHHHcCCccc-cCCcchHHHHHHHHHHHHhhcCCcccCCHHHHHHHhcccccCCC
Confidence 89999999999999999999999999999877532 223467889999999999875 45566655 6655555667788
Q ss_pred ccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCCHHHHHhhcceeE
Q 001242 276 MQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVE 355 (1116)
Q Consensus 276 ~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~~~~E 355 (1116)
.||||+||+..||+.|+ +.|.++|+|++.+.++|.+|+..+.+.|+|.+|+|+|+ +|+++|+.|+.+|
T Consensus 80 ~QqDa~EFl~~lLd~l~---------~~i~~~F~G~~~~~i~C~~C~~~s~~~e~f~~l~L~i~---sl~~~l~~~~~~E 147 (327)
T cd02664 80 SQQDCSEYLRYLLDRLH---------TLIEKMFGGKLSTTIRCLNCNSTSARTERFRDLDLSFP---SVQDLLNYFLSPE 147 (327)
T ss_pred CcCCHHHHHHHHHHHHH---------HHHHhhCcEEeEeEEEcCCCCCEecccccceeeecCCC---CHHHHHHHhcCee
Confidence 99999999999999998 36889999999999999999999999999999999998 8999999999999
Q ss_pred EecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCC-------
Q 001242 356 RLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSP------- 427 (1116)
Q Consensus 356 ~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~------- 427 (1116)
.++|+|+|.|+.|+ +++|.|+..|.++|+||+|||+||.||..++...|+++.|.||..||| ..++..
T Consensus 148 ~l~g~n~~~C~~C~~~~~a~k~~~i~~lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fp~~ldl----~~~~~~~~~~~~~ 223 (327)
T cd02664 148 KLTGDNQYYCEKCASLQDAEKEMKVTGAPEYLILTLLRFSYDQKTHVREKIMDNVSINEVLSL----PVRVESKSSESPL 223 (327)
T ss_pred EccCCCceeCCccCCccceeEEEEcccCChhhEEEeeeeEEccccCcceecCceEecCCEEec----Ccccccccccccc
Confidence 99999999999997 679999999999999999999999999988888999999999999999 555421
Q ss_pred ----------CcCcCccccEEEEEEEEeec-cCCCceEEEEEecCC--------------------CCCEEEEeCceeeE
Q 001242 428 ----------DADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL--------------------SDQWYKFDDERVTK 476 (1116)
Q Consensus 428 ----------~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~--------------------~~~W~~fnD~~Vt~ 476 (1116)
......+..|+|+|||+|.| ++++|||+||+|... ++.||+|||+.|++
T Consensus 224 ~~~~~~~~~~~~~~~~~~~Y~L~~Vi~H~G~~~~~GHY~a~~r~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~ 303 (327)
T cd02664 224 EKKEEESGDDGELVTRQVHYRLYAVVVHSGYSSESGHYFTYARDQTDADSTGQECPEPKDAEENDESKNWYLFNDSRVTF 303 (327)
T ss_pred ccccccccccccccCCCceEEEEEEEEEccCCCCCcceEEEEecCCccccccccccccccccccCCCCCEEEEeCCceEE
Confidence 01112467999999999999 589999999999863 37999999999999
Q ss_pred echHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 477 EDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 477 v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
++.++|..- .|+ ..+.+||||||+
T Consensus 304 ~~~~~v~~~-~~~------------------~~~~~aYlLfY~ 327 (327)
T cd02664 304 SSFESVQNV-TSR------------------FPKDTPYILFYE 327 (327)
T ss_pred CCHHHHHHh-hCC------------------CCCCCEEEEEeC
Confidence 999999752 121 123699999995
No 7
>cd02663 Peptidase_C19G 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=100.00 E-value=5.1e-55 Score=494.92 Aligned_cols=276 Identities=31% Similarity=0.552 Sum_probs=245.8
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCC---cccccchhhhhccc--Ccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYND---TSVATKELTKSFGW--DTY 272 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~---~~v~~~~l~~s~~~--~~~ 272 (1116)
||.|+||||||||+||+|++ .++.++|+.||.+|+.+. ..++|..|.+++++ +.|
T Consensus 1 Gl~NlGnTCY~NsvLQ~L~~--------------------~~l~~~L~~lf~~l~~~~~~~~~isP~~f~~~l~~~~~~f 60 (300)
T cd02663 1 GLENFGNTCYCNSVLQALYF--------------------ENLLTCLKDLFESISEQKKRTGVISPKKFITRLKRENELF 60 (300)
T ss_pred CccCCCcceehhHHHHHhhh--------------------HHHHHHHHHHHHHHHhCCCCCeeECHHHHHHHHHhhcCCC
Confidence 89999999999999999988 468899999999999853 46899999999973 568
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCC-----------------ccccccccccceEEeeeEEeeceeeecceeeeeeeee
Q 001242 273 DSFMQHDVQELNRVLCEKLEDKMKGT-----------------VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQ 335 (1116)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~-----------------~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~ 335 (1116)
..++||||+||+..|||.|+++++.. ...+.|.++|+|++.+.++|..|++.+.+.|+|++|+
T Consensus 61 ~~~~QqDA~EFl~~lLd~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~F~G~~~~~~~C~~C~~~s~~~e~f~~Ls 140 (300)
T cd02663 61 DNYMHQDAHEFLNFLLNEIAEILDAERKAEKANRKLNNNNNAEPQPTWVHEIFQGILTNETRCLTCETVSSRDETFLDLS 140 (300)
T ss_pred CCCccccHHHHHHHHHHHHHHHHHHHhhcccccccccccccCCcCCCChhhhCceEEEeeEEeCCCCCCccccceeEEec
Confidence 89999999999999999999988632 2346789999999999999999999999999999999
Q ss_pred eeccCCCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCcc
Q 001242 336 LDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ 414 (1116)
Q Consensus 336 L~v~~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~ 414 (1116)
|+|++..+|++||+.|+++|.++|+|+|.|+.|+ +++|.|+..|.++|+||+|||+||.|+...+...|++.+|.||.+
T Consensus 141 l~i~~~~sl~~~L~~~~~~E~l~~~~~~~C~~C~~~~~a~k~~~i~~lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fp~~ 220 (300)
T cd02663 141 IDVEQNTSITSCLRQFSATETLCGRNKFYCDECCSLQEAEKRMKIKKLPKILALHLKRFKYDEQLNRYIKLFYRVVFPLE 220 (300)
T ss_pred cCCCCcCCHHHHHHHhhcccccCCCCcEECCCCCCceeEEEEEEeccCCceeEEEEEeEEeecccCCceecCceEecCcE
Confidence 9999999999999999999999999999999997 788999999999999999999999999776778999999999999
Q ss_pred ccCCcccCCCCCCCcCcCccccEEEEEEEEeecc-CCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCC
Q 001242 415 LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEEL 493 (1116)
Q Consensus 415 Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~ 493 (1116)
|+| .++... .......|+|+|||+|.|+ +++|||+||+|. +++||+|||+.|++++.++|. +.+|+..
T Consensus 221 L~~----~~~~~~--~~~~~~~Y~L~~vi~H~G~~~~~GHY~a~~k~--~~~W~~fdD~~V~~~~~~~v~-~~~~~~~-- 289 (300)
T cd02663 221 LRL----FNTTDD--AENPDRLYELVAVVVHIGGGPNHGHYVSIVKS--HGGWLLFDDETVEKIDENAVE-EFFGDSP-- 289 (300)
T ss_pred Eec----cccccc--cCCCCeEEEEEEEEEEecCCCCCCceEEEEEC--CCcEEEEcCCceEEcCHHHHH-HhcCCCC--
Confidence 999 555322 1234579999999999995 899999999999 899999999999999988885 4566532
Q ss_pred CCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 494 PPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 494 ~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
.+.+||||||+
T Consensus 290 ---------------~~~~aYiLfY~ 300 (300)
T cd02663 290 ---------------NQATAYVLFYQ 300 (300)
T ss_pred ---------------CCCceEEEEeC
Confidence 24699999995
No 8
>KOG1865 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.5e-56 Score=503.18 Aligned_cols=298 Identities=27% Similarity=0.468 Sum_probs=263.1
Q ss_pred cccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCC-CCCCCHHHHHHHHHHHHhcCCc-ccccchh
Q 001242 186 WSYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEND-LPSGSIPLALQSLFYKLQYNDT-SVATKEL 263 (1116)
Q Consensus 186 ~~~~s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~-~~~~~~~~~Lq~Lf~~l~~s~~-~v~~~~l 263 (1116)
|.|+.....| .||.|+|||||+||+||||.++|++.++++.......+ ....|++|+++.+......+.+ +++|..+
T Consensus 99 ~~~~~~~~~~-~GL~NlGNtCfaNsvlQcLt~T~PLv~yLls~~hs~~C~~~~~C~lc~~q~hi~~A~~~~g~pisP~~i 177 (545)
T KOG1865|consen 99 LSSDRPAAVG-AGLQNLGNTCFANSVLQCLTYTPPLVNYLLSREHSRSCHRAKFCMLCTFQAHITRALHNPGHPISPSQI 177 (545)
T ss_pred ccccccccCC-cceecCCccHHHHHHHHHhcccHHHHHHHHHhhhhhhccccCeeeehHHHHHHHHHhcCCCCccChHHH
Confidence 4555555555 99999999999999999999999999999864432222 2457999999999887766655 9999988
Q ss_pred hhhcc--cCcccccccccHHHHHHHHHHHHHHhhcC--------CccccccccccceEEeeeEEeeceeeecceeeeeee
Q 001242 264 TKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKG--------TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYD 333 (1116)
Q Consensus 264 ~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~--------~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~ 333 (1116)
+..+. ...|..+.|.|||||++.++|.|+..+-+ ....+.|..+|+|.+++.|+|.+|.++|.++|+.++
T Consensus 178 ~s~L~~I~~~f~~grQEDAHEFLr~~vd~mqk~cL~g~~~~~~~sq~ttlv~~iFGG~LrS~vkC~~C~~vS~tyE~~~d 257 (545)
T KOG1865|consen 178 LSNLRNISAHFGRGRQEDAHEFLRFTVDAMQKACLPGHKQVDPRSQDTTLVHQIFGGYLRSQIKCLHCKGVSDTYEPYLD 257 (545)
T ss_pred HHhhhhhcccccCCchhhHHHHHHHHHHHHHHhhcCCCccCCcccccceehhhhhccchhhceecccCCCcccccccccc
Confidence 87664 25678889999999999999999988721 224568999999999999999999999999999999
Q ss_pred eeeeccCCCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecC
Q 001242 334 LQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFP 412 (1116)
Q Consensus 334 L~L~v~~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP 412 (1116)
|+|+|....+|++||+.|+.+|.|+|+|+|.|++|+ +++|.|+..|.++|+||+||||||+. +...||++.|.||
T Consensus 258 ltvei~d~~sl~~AL~qFt~~E~L~gen~Y~C~~Ck~~v~A~K~lti~raPnVLTi~LKRF~~----~~~gKI~K~I~fP 333 (545)
T KOG1865|consen 258 LTLEIQDASSLQQALEQFTKPEKLDGENAYHCGRCKQKVPASKQLTIHRAPNVLTLHLKRFSN----GTGGKISKPVSFP 333 (545)
T ss_pred eEEEeccchhHHHHHHHhhhHHhhCCccccccchhhhhCcccceeeeecCCceEEEeeehhcc----CcccccccccCCc
Confidence 999999999999999999999999999999999997 89999999999999999999999985 6788999999999
Q ss_pred ccccCCcccCCCCCCCcCcCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCC
Q 001242 413 LQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEE 491 (1116)
Q Consensus 413 ~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~ 491 (1116)
+.||| +||++.+. ..+..|.|||||||.| +..+|||+||||.. +|.||++||+.|+.++.+.|+.
T Consensus 334 E~LDl----~PyMS~~~--e~s~~Y~LYavlVH~g~~~~~GHY~cYvks~-~g~Wy~~DDS~V~~~~~~~VLs------- 399 (545)
T KOG1865|consen 334 ETLDL----QPYMSQPN--EGSTVYKLYAVLVHLGTSCHSGHYFCYVKSQ-NGQWYKMDDSEVTQSSIESVLS------- 399 (545)
T ss_pred ccccc----cccccCCC--CCCceEEEEEEEEeccccccCCceEEEEEcC-CCceEEccCceeeeccccceec-------
Confidence 99999 99999554 3578999999999999 78999999999997 8899999999999999998974
Q ss_pred CCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001242 492 ELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1116)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~ 521 (1116)
..||||||.|+
T Consensus 400 -------------------q~AYmLfY~R~ 410 (545)
T KOG1865|consen 400 -------------------QQAYILFYARK 410 (545)
T ss_pred -------------------ccceEEEEEee
Confidence 38999999998
No 9
>cd02671 Peptidase_C19O 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=100.00 E-value=5.6e-54 Score=489.49 Aligned_cols=284 Identities=29% Similarity=0.533 Sum_probs=240.9
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHh---cC-Ccccccchhhh
Q 001242 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQ---YN-DTSVATKELTK 265 (1116)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~---~s-~~~v~~~~l~~ 265 (1116)
.+..+|++||.|+||||||||+||+|+++|+||+.++++... ......+|.+|..++ .+ .....|..|+.
T Consensus 18 ~~~~~~~~GL~NlGnTCYmNSvLQ~L~~~p~fr~~l~~~~~~------~~~~~~~q~~~~~l~~~~~~~~~~~~P~~~~~ 91 (332)
T cd02671 18 RENLLPFVGLNNLGNTCYLNSVLQVLYFCPGFKHGLKHLVSL------ISSVEQLQSSFLLNPEKYNDELANQAPRRLLN 91 (332)
T ss_pred cccCCCCcceeccCceEeHHHHHHHHHcChHHHHHHHhhhcc------cCcHHHHHHHHHHHHHHHhhcccccCHHHHHH
Confidence 355689999999999999999999999999999999876521 122345666665443 22 23456888888
Q ss_pred hccc--CcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC--
Q 001242 266 SFGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC-- 341 (1116)
Q Consensus 266 s~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~-- 341 (1116)
.+++ +.|..+.||||+||++.|||.|+. .|.++|+|.+.+.++|.+|++.+.+.|+|++|+|+|++.
T Consensus 92 ~l~~~~~~f~~~~QQDA~EFl~~LLd~L~~---------~i~~~F~g~~~~~~~C~~C~~~s~~~E~f~~lsL~i~~~~~ 162 (332)
T cd02671 92 ALREVNPMYEGYLQHDAQEVLQCILGNIQE---------LVEKDFQGQLVLRTRCLECETFTERREDFQDISVPVQESEL 162 (332)
T ss_pred HHHHhccccCCccccCHHHHHHHHHHHHHH---------HHHhhhceEEEEEEEeCCCCCeeceecccEEEEEEeCCCcc
Confidence 8874 568889999999999999999984 578899999999999999999999999999999999864
Q ss_pred -----------------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeeccc----
Q 001242 342 -----------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMR---- 399 (1116)
Q Consensus 342 -----------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~---- 399 (1116)
.+|++||+.|+++|.++|+|+|.|+.|+ +++|.|+..|.++|+||+|||+||.++...
T Consensus 163 ~~~~~~~~~~~~~~~~~~tL~~~L~~f~~~E~l~g~n~y~C~~C~~~~~a~k~~~~~~~P~vL~i~LkRF~~~~~~~~~~ 242 (332)
T cd02671 163 SKSEESSEISPDPKTEMKTLKWAISQFASVERIVGEDKYFCENCHHYTEAERSLLFDKLPEVITIHLKCFAANGSEFDCY 242 (332)
T ss_pred cccccccccccccccccCCHHHHHHHhCCcceecCCCCeeCCCCCCceeEEEEEEEecCCCEEEEEeeeecccccccccc
Confidence 4899999999999999999999999997 789999999999999999999999986432
Q ss_pred CeeeeccceEecCccccCCcccCCCCCCCcCcCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEec
Q 001242 400 DAMVKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1116)
Q Consensus 400 ~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1116)
+...|+++.|.||..||+ .++... .....|+|+|||+|.| +.++|||+|||| ||+|||+.|++++
T Consensus 243 ~~~~Ki~~~v~fp~~L~~----~~~~~~----~~~~~Y~L~~VI~H~G~~~~~GHY~a~vr------W~~fdD~~V~~~~ 308 (332)
T cd02671 243 GGLSKVNTPLLTPLKLSL----EEWSTK----PKNDVYRLFAVVMHSGATISSGHYTAYVR------WLLFDDSEVKVTE 308 (332)
T ss_pred CCceecCccccCcccccc----ccccCC----CCCCeEEEEEEEEEcCCCCCCCeEEEEEE------EEEEcCcceEEcc
Confidence 457899999999999999 555432 2457899999999999 589999999999 9999999999999
Q ss_pred hHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 479 VKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 479 ~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
++++.+...|.. ....+||||||.
T Consensus 309 ~~~~~~~~~~~~-----------------~~~~~aYiLfY~ 332 (332)
T cd02671 309 EKDFLEALSPNT-----------------SSTSTPYLLFYK 332 (332)
T ss_pred HHHHHhhcCCCC-----------------CCCCceEEEEEC
Confidence 999987654432 124699999994
No 10
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.4e-54 Score=485.46 Aligned_cols=477 Identities=27% Similarity=0.423 Sum_probs=341.0
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccC
Q 001242 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWD 270 (1116)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~ 270 (1116)
....|||||.|+..|||+|+.+|+|+..|.||+.+|..+ +.++.++.|+++|||.
T Consensus 82 ~~~~~yvglvnqa~~~~l~~~~~a~~~~~~~~~~~yts~-------------------------~~~~et~dlt~sfgw~ 136 (1203)
T KOG4598|consen 82 ENGHRYVGLVNQASNDLLFEQSCAISLHDSGISKCYTSE-------------------------NDSLETKDLTQSFGWT 136 (1203)
T ss_pred cCCcceEeehhhHHHHHHHHHhhhhccChhhhhhhhCCC-------------------------cccccchhhHhhcCCC
Confidence 446789999999999999999999999999999998322 3456788999999999
Q ss_pred cccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC------CCH
Q 001242 271 TYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC------RDV 344 (1116)
Q Consensus 271 ~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~------~sL 344 (1116)
+.+.++|||+||++++++|.||.+.+++..+..|.+++.|+|..++.|..|+.++.+.+.|++|+|+|++. .++
T Consensus 137 s~ea~~qhdiqelcr~mfdalehk~k~t~~~~li~~ly~g~m~d~v~cl~c~~e~~~~d~fld~pl~v~pfg~~~ay~si 216 (1203)
T KOG4598|consen 137 SNEAYDQHDVQELCRLMFDALEHKWKGTEHEKLIQDLYRGTMEDFVACLKCGRESVKTDYFLDLPLAVKPFGAIHAYKSV 216 (1203)
T ss_pred cchhhhhhhHHHHHHHHHHHHHhhhcCchHHHHHHHHhcchHHHHHHHHHcCccccccceeecccccccCCcchhhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999753 479
Q ss_pred HHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCC
Q 001242 345 YASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGK 423 (1116)
Q Consensus 345 ~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~ 423 (1116)
+++|..|+++|.|+|.|+|-|++|+ +++|.|+..|+++|-+|.||||||.||+++..++|+|+++.||..|||+.|...
T Consensus 217 eeal~afvqpe~ldg~nqy~ce~ck~k~dahkgl~~~~fpy~lt~~lkrfdfdy~tmhriklnd~~tfp~~l~ln~~in~ 296 (1203)
T KOG4598|consen 217 EEALTAFVQPELLDGSNQYMCENCKSKQDAHKGLRITQFPYLLTIQLKRFDFDYNTMHRIKLNDKMTFPDVLDLNDYVNK 296 (1203)
T ss_pred HHHHHHhcChhhcCCccHHHHhhhhhhhhhhcCceeeccceeeEEeeecccccchheeeeeecccccCcccccHHHhhhh
Confidence 9999999999999999999999997 899999999999999999999999999999999999999999999999643100
Q ss_pred C-------------------------C-CCC----------------------------------cCcCccccEEEEEEE
Q 001242 424 Y-------------------------L-SPD----------------------------------ADRSVRNLYTLHSVL 443 (1116)
Q Consensus 424 ~-------------------------l-~~~----------------------------------~~~~~~~~Y~L~gVV 443 (1116)
- + +++ ...+++..|+|++|.
T Consensus 297 ~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~s~~~~~~~~n~~~g~~~~~~~~~~~~~~sg~~~yelf~im 376 (1203)
T KOG4598|consen 297 EKRSTTSSAWQQIGKNKSENEEDDMELGSPNPKRCTPGVQSPNRYQGSENVCVGQPIDHAAVDDIVKTSGDNVYELFSVM 376 (1203)
T ss_pred ccCCcchhHhhhcccccccccccccccCCCCcccCcccccCcccccCccccccCCcCchhhhhhHhhcCCccHHHhhhhh
Confidence 0 0 000 012467899999999
Q ss_pred EeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecC
Q 001242 444 VHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESD 523 (1116)
Q Consensus 444 vH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~~ 523 (1116)
+|+|++.+|||+||||+..++.||+|||.+|+.++..++ +..|||... ++ ...+++||||+|+|.+.
T Consensus 377 ihsg~a~gghy~ayik~~d~~~w~~fnd~~v~~~t~~~i-~~sfgg~~~------~~------~~s~tnaymlmyr~id~ 443 (1203)
T KOG4598|consen 377 VHSGNAAGGHYFAYIKNLDQDRWYVFNDTRVDFATPLEI-EKSFGGHPS------GW------NQSNTNAYMLMYRRIDP 443 (1203)
T ss_pred eecCCCCCceeeeeecccCcCceEEecCccccccCHHHH-HHhhCCCCC------Cc------cccCcchhhhhhhhcCc
Confidence 999999999999999999899999999999999998776 788999642 11 23457999999999987
Q ss_pred ccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccCCC----CceEEEEe
Q 001242 524 KDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVDHD----KVRSFRVQ 599 (1116)
Q Consensus 524 ~~~~~~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~~dl~~~~----~~~~~~~~ 599 (1116)
+.+-+. +...+.|+|++..+.+-..+++.+.-+ .-.|+. .+.+.....+.-- .+|- .++ +.....|.
T Consensus 444 krn~~~-~~~~~~p~hik~~~~k~~~~e~~~~~~-~~r~~s-~~~~~~~~~y~~~----~~~~--~p~~k~~~~t~~~is 514 (1203)
T KOG4598|consen 444 KRNARF-ILSNQLPQHIKDSQEKWKRLEREAEDE-RLRKLS-LIQVYVTINYPFP----SVVT--LPDKKQLDLTKTEIS 514 (1203)
T ss_pred ccccce-eecccchHHHHHHHHHHHHHHHHHHHh-hhceee-EEEEEeeccCCCc----eEEE--CCchhhccceeeeee
Confidence 655432 346789999987765433222211111 112222 2233222221100 0111 122 12334566
Q ss_pred ccccHHHHHHH----HHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEeeecCC
Q 001242 600 KQTSFMAFKEE----IAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEFGP 675 (1116)
Q Consensus 600 ~~~~~~~~~~~----i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 675 (1116)
+++++.-+... +..+-..|..++|+..+... -+++.- .+. +..++.+.+.+- ..+-.+.+.||+.-..
T Consensus 515 ~~~~i~~v~~~a~e~~n~~~~~p~s~~~~~~~~~~-~~s~~~--~~~-s~~d~~~~~~~~----~~~y~~~f~l~~r~~~ 586 (1203)
T KOG4598|consen 515 REMPIKNVFNHAFEFFNERANLPFTKNSARLIYVE-HGSLMM--DFK-SKADMNVNHGEP----GSMYGVHFILDVRIAS 586 (1203)
T ss_pred ccccHHHHHHHHHHHhhhhhcCCcccceeEEEeec-ccHHHH--hhh-hccCcccccCCc----ccccceeEEEEEeecc
Confidence 67776655433 33344456667666554221 111100 000 111223333221 1112467788886443
Q ss_pred CCCCCCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHh
Q 001242 676 DLHPIAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQM 728 (1116)
Q Consensus 676 ~~~~~~~~~~~~~~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~ 728 (1116)
.+-| . +..+.|.+++-..|..+....+---+|+....+ .+.-.|+.+
T Consensus 587 ~~f~---v-~~~n~it~~v~~vd~~~~~~~~~~~v~~~a~e~--~~~~vl~~~ 633 (1203)
T KOG4598|consen 587 SFFP---V-DIKNKITIKVQRVDIGKKTTANELIVVVDANEK--MIKVVLNAR 633 (1203)
T ss_pred cccc---c-cCCCCcEEEEEEEeccccccCCceEEEEccchH--HHHHHHhhh
Confidence 3322 2 234457776666666666555544445544443 334445543
No 11
>cd02657 Peptidase_C19A 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 hydrolyse 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=100.00 E-value=8.5e-53 Score=478.49 Aligned_cols=288 Identities=28% Similarity=0.421 Sum_probs=248.7
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCC--CCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhccc--Ccc-
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTE--NDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGW--DTY- 272 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~--~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~--~~~- 272 (1116)
||.|+||||||||+||+|+++|+||++++...... ......++.++|++||..|+.+..+++|.+|...++. +.+
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~l~~~~~~i~p~~~~~~l~~~~~~f~ 80 (305)
T cd02657 1 GLTNLGNTCYLNSTLQCLRSVPELRDALKNYNPARRGANQSSDNLTNALRDLFDTMDKKQEPVPPIEFLQLLRMAFPQFA 80 (305)
T ss_pred CcccccchhHHHHHHHHHhCCHHHHHHHHhccccccccccchhHHHHHHHHHHHHHHhCCCcCCcHHHHHHHHHHCcCcc
Confidence 89999999999999999999999999998765421 1223468999999999999998889999999887752 333
Q ss_pred -----cccccccHHHHHHHHHHHHHHhhcC-CccccccccccceEEeeeEEeecee-eecceeeeeeeeeeeccCC---C
Q 001242 273 -----DSFMQHDVQELNRVLCEKLEDKMKG-TVVEGTIQQLFEGHHMNYIECINVD-YKSTRKESFYDLQLDVKGC---R 342 (1116)
Q Consensus 273 -----~~~~QqDa~Efl~~Lld~Le~~~~~-~~~~~~i~~lF~g~~~~~i~C~~C~-~~s~~~e~f~~L~L~v~~~---~ 342 (1116)
..++||||+||+..||+.|++++++ ....+.|.++|+|++.+.++|.+|+ ..+.+.|+|++|+|++++. .
T Consensus 81 ~~~~~~~~~QqDA~EFl~~lld~L~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~~~~~~~~e~f~~Lsl~i~~~~~~~ 160 (305)
T cd02657 81 EKQNQGGYAQQDAEECWSQLLSVLSQKLPGAGSKGSFIDQLFGIELETKMKCTESPDEEEVSTESEYKLQCHISITTEVN 160 (305)
T ss_pred cccCCCCccccCHHHHHHHHHHHHHHHhcccCCCCcHHHHhhceEEEEEEEcCCCCCCCccccccceEEEeecCCCcccc
Confidence 4558999999999999999999874 2345689999999999999999999 7999999999999999876 6
Q ss_pred CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCccc
Q 001242 343 DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDREN 421 (1116)
Q Consensus 343 sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~ 421 (1116)
+|+++|+.+++++.. ..|+.|+ ...+.|+..|.++|++|+|||+||.|+...+...|+++.|+||.+|||
T Consensus 161 ~l~~~L~~~~~~~~~-----~~~~~~~~~~~~~k~~~i~~lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fP~~Ldl---- 231 (305)
T cd02657 161 YLQDGLKKGLEEEIE-----KHSPTLGRDAIYTKTSRISRLPKYLTVQFVRFFWKRDIQKKAKILRKVKFPFELDL---- 231 (305)
T ss_pred cHHHHHHHhhhhhhh-----hcCcccCCCceEEEEEEeccCCcEEEEEEECCccccccCceeecCcEEECCceEec----
Confidence 899999999986654 3577776 567889999999999999999999999887888999999999999999
Q ss_pred CCCCCCCcCcCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCC
Q 001242 422 GKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGF 500 (1116)
Q Consensus 422 ~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~ 500 (1116)
.+|+. .+..|+|+|||+|.| ++++|||+||+|...+++||+|||+.|++++.++|++. +||+.
T Consensus 232 ~~~~~------~~~~Y~L~~vI~H~G~~~~~GHY~~~~~~~~~~~W~~fdD~~V~~~~~~~v~~~-~~~~~--------- 295 (305)
T cd02657 232 YELCT------PSGYYELVAVITHQGRSADSGHYVAWVRRKNDGKWIKFDDDKVSEVTEEDILKL-SGGGD--------- 295 (305)
T ss_pred ccccC------CCCcEEEEEEEEecCCCCCCcEEEEEEEcCCCCeEEEEECCceEEeCHHHHHhh-cCCCC---------
Confidence 77775 346899999999999 58999999999997569999999999999999998754 44421
Q ss_pred CCCCcccCCCCcEEEEEEE
Q 001242 501 NNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 501 ~~~~~~~~~~~~AYmL~Y~ 519 (1116)
+.+||||||+
T Consensus 296 ---------~~~aYiL~Y~ 305 (305)
T cd02657 296 ---------WHIAYILLYK 305 (305)
T ss_pred ---------CceEEEEEEC
Confidence 2599999995
No 12
>cd02660 Peptidase_C19D 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=100.00 E-value=1.3e-52 Score=481.97 Aligned_cols=280 Identities=30% Similarity=0.488 Sum_probs=244.0
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCC---CCCCCCCCHHHHHHHHHHHHhcC--Ccccccchhhhhcc--c
Q 001242 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT---ENDLPSGSIPLALQSLFYKLQYN--DTSVATKELTKSFG--W 269 (1116)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~---~~~~~~~~~~~~Lq~Lf~~l~~s--~~~v~~~~l~~s~~--~ 269 (1116)
+||.|+||||||||+||+|+++|+||++++..... ....+..++.++|++||..|+.+ ..++.|..+++++. .
T Consensus 1 rGl~N~gntCY~NsvLQ~L~~~~~f~~~ll~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~l~~~~~~~ 80 (328)
T cd02660 1 RGLINLGATCFMNVILQALLHNPLLRNYFLSDRHSCTCLSCSPNSCLSCAMDEIFQEFYYSGDRSPYGPINLLYLSWKHS 80 (328)
T ss_pred CCccccCcchHHHHHHHHHhcCHHHHHHHhcCccccccccCCccccHHHHHHHHHHHHhcCCCCCCcCHHHHHHHHHhhc
Confidence 69999999999999999999999999999875422 12344578999999999999654 35678888887763 2
Q ss_pred CcccccccccHHHHHHHHHHHHHHhhcCCc--------cccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC
Q 001242 270 DTYDSFMQHDVQELNRVLCEKLEDKMKGTV--------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC 341 (1116)
Q Consensus 270 ~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~--------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~ 341 (1116)
+.+.++.||||+||+..||+.|++++.... ..++|.++|+|.+.+.++|..|++.+.+.|+|++|+|+++..
T Consensus 81 ~~f~~~~QqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~~~s~~~e~f~~lsl~i~~~ 160 (328)
T cd02660 81 RNLAGYSQQDAHEFFQFLLDQLHTHYGGDKNEANDESHCNCIIHQTFSGSLQSSVTCQRCGGVSTTVDPFLDLSLDIPNK 160 (328)
T ss_pred hhhcccccccHHHHHHHHHHHHHHHhhcccccccccccCCceeEEecccEEEeeeEcCCCCCccceecccceeeeecccc
Confidence 357788999999999999999999886542 235789999999999999999999999999999999999865
Q ss_pred ---------------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeec
Q 001242 342 ---------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKI 405 (1116)
Q Consensus 342 ---------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki 405 (1116)
.+|+++|+.|+.+|.+++.+ |.|+.|+ ++++.++..|.++|++|+|||+||.|+.. +...|+
T Consensus 161 ~~~~~~~~~~~~~~~~sl~~~L~~~~~~e~~~~~~-~~C~~C~~~~~~~~~~~i~~lP~~Lii~lkRf~~~~~-~~~~K~ 238 (328)
T cd02660 161 STPSWALGESGVSGTPTLSDCLDRFTRPEKLGDFA-YKCSGCGSTQEATKQLSIKKLPPVLCFQLKRFEHSLN-KTSRKI 238 (328)
T ss_pred ccccccccccCCCCCCCHHHHHHHhcCccccCCCC-ccCCCCCCccceEEEEEecCCCceeEEEEEeEEecCC-CCCcCC
Confidence 78999999999999999888 9999998 56899999999999999999999999865 567899
Q ss_pred cceEecCccccCCcccCCCCCCC-------cCcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEec
Q 001242 406 NDRYEFPLQLDLDRENGKYLSPD-------ADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1116)
Q Consensus 406 ~~~v~fP~~Ldl~~~~~~~l~~~-------~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1116)
++.|.||.+||| .+|+..+ ........|+|+|||+|+|+.++|||+||+|.. +++||+|||+.|++++
T Consensus 239 ~~~v~fp~~Ldl----~~~~~~~~~~~~~~~~~~~~~~Y~L~avi~H~G~~~~GHY~~~~~~~-~~~W~~~nD~~V~~~~ 313 (328)
T cd02660 239 DTYVQFPLELNM----TPYTSSSIGDTQDSNSLDPDYTYDLFAVVVHKGTLDTGHYTAYCRQG-DGQWFKFDDAMITRVS 313 (328)
T ss_pred CcEEeCCCEech----hhhcccccccccccccCCCCceEEEEEEEEeeccCCCCcEEEEEECC-CCcEEEEECCeeEECC
Confidence 999999999999 7777641 223457899999999999998999999999996 5999999999999999
Q ss_pred hHhHH
Q 001242 479 VKRAL 483 (1116)
Q Consensus 479 ~~~vl 483 (1116)
+++|+
T Consensus 314 ~~~v~ 318 (328)
T cd02660 314 EEEVL 318 (328)
T ss_pred HHHhc
Confidence 99986
No 13
>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=100.00 E-value=2.3e-52 Score=468.27 Aligned_cols=241 Identities=32% Similarity=0.536 Sum_probs=210.7
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCccccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1116)
||.|+||||||||+||+|+++|+||+++++ ..+.++..+... .+.+..++|
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~~~~~~l~---------------~P~~~~~~l~~~--------------~~~f~~~~Q 51 (279)
T cd02667 1 GLSNLGNTCFFNAVMQNLSQTPALRELLSE---------------TPKELFSQVCRK--------------APQFKGYQQ 51 (279)
T ss_pred CCcCCCCchHHHHHHHHHhcCHHHHHHHHH---------------CHHHHHHHHHHh--------------hHhhcCCch
Confidence 899999999999999999999999999986 112233332211 234677899
Q ss_pred ccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccC----CCCHHHHHhhcce
Q 001242 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKG----CRDVYASFDKYVE 353 (1116)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~----~~sL~e~L~~~~~ 353 (1116)
|||+||+..||+.|+ +.|.++|.|++.+.+.|.+|++.+.+.|+|++|+|+++. ..+|++||+.|+.
T Consensus 52 qDA~Efl~~lld~l~---------~~i~~~F~G~~~~~i~C~~C~~~s~~~E~f~~L~Lp~~~~~~~~~sL~~~L~~~~~ 122 (279)
T cd02667 52 QDSHELLRYLLDGLR---------TFIDSIFGGELTSTIMCESCGTVSLVYEPFLDLSLPRSDEIKSECSIESCLKQFTE 122 (279)
T ss_pred hhHHHHHHHHHHHHH---------HhhhhhcceEEEEEEEcCCCCCEeCccccceEEecCCCcccCCCCCHHHHHHhhcC
Confidence 999999999999998 468899999999999999999999999999999998753 4689999999999
Q ss_pred eEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCC---cC
Q 001242 354 VERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPD---AD 430 (1116)
Q Consensus 354 ~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~---~~ 430 (1116)
+|.++|+|+|.|+.|++ |.|+..|.++|++|+|||+||.|+... ...|++..|.||.+||| ++|+..+ ..
T Consensus 123 ~E~l~~~~~~~C~~C~~--a~k~~~i~~~P~~Lii~LkRF~~~~~~-~~~Ki~~~v~fP~~Ldl----~~~~~~~~~~~~ 195 (279)
T cd02667 123 VEILEGNNKFACENCTK--AKKQYLISKLPPVLVIHLKRFQQPRSA-NLRKVSRHVSFPEILDL----APFCDPKCNSSE 195 (279)
T ss_pred eeEecCCCcccCCccCc--eeeEeEhhhCCCeEEEEEeccccCccc-CceecCceEeCCCccch----hhccCccccccc
Confidence 99999999999999987 899999999999999999999998653 57899999999999999 7887662 23
Q ss_pred cCccccEEEEEEEEeeccCCCceEEEEEecCC---------------------CCCEEEEeCceeeEechHhHH
Q 001242 431 RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTL---------------------SDQWYKFDDERVTKEDVKRAL 483 (1116)
Q Consensus 431 ~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~---------------------~~~W~~fnD~~Vt~v~~~~vl 483 (1116)
......|+|+|||+|.|+.++|||+||+|... ++.||+|||+.|++++.++|+
T Consensus 196 ~~~~~~Y~L~~vi~H~G~~~~GHY~a~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~dD~~V~~v~~~~v~ 269 (279)
T cd02667 196 DKSSVLYRLYGVVEHSGTMRSGHYVAYVKVRPPQQRLSDLTKSKPAADEAGPGSGQWYYISDSDVREVSLEEVL 269 (279)
T ss_pred cCCCceEEEEEEEEEeCCCCCCEeEEEEEcCccccccccccccccccccCCCCCCcEEEEECCccEECCHHHhc
Confidence 34568999999999999889999999999753 679999999999999999985
No 14
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=100.00 E-value=4.1e-51 Score=435.58 Aligned_cols=204 Identities=48% Similarity=0.824 Sum_probs=144.5
Q ss_pred ceEEEEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEeccEEEEe
Q 001242 882 DILYYEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVFYHKIYKI 960 (1116)
Q Consensus 882 ~~l~YEvL~ipl~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~~~ki~~~ 960 (1116)
+.||||+|+|||+|||++|+|||+|+++++.++++++++|||+|||+||+++++++++++++ +++||+|++++|||+++
T Consensus 1 ~~l~YevL~i~l~ElE~kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~ 80 (213)
T PF14533_consen 1 DTLYYEVLDIPLKELENKKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKI 80 (213)
T ss_dssp -EEEEEE-SS-HHHHHSB--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEE
T ss_pred CceEEEecCCCHHHHhCceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEee
Confidence 47899999999999999999999999999999999999999999999999999999999874 68999999999999999
Q ss_pred cCCcccccccccccceeEeeecchhhccCC-C--CCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHH
Q 001242 961 FAPNEKIENINDQYWTLRAEEIPEEEKNLG-P--NDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQ 1037 (1116)
Q Consensus 961 ~~~~~~i~~i~~~~~~~~~E~iP~ee~~~~-~--~~~li~V~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~ 1037 (1116)
++++++|.+|++ +..+|+|+||+||.++. + ++++|+|+||+|++++.| |+||+|+|++||+|++||+|||
T Consensus 81 ~~~d~~i~~l~~-~~~~r~E~ip~ee~~~~~~~~~~~li~V~hf~k~~~~~h------GiPF~f~v~~gE~f~~tK~Rl~ 153 (213)
T PF14533_consen 81 LSEDEPISSLND-YITLRIEEIPEEELNLDDESEGEKLIPVFHFHKDPSRTH------GIPFLFVVKPGETFSDTKERLQ 153 (213)
T ss_dssp E-TTSBGGGS---TTEEEEEE--GGGSS--TT--TEEEEEEEEESSSTT-EE------EEEEEEEEETT--HHHHHHHHH
T ss_pred cCCCCchhhccC-cceeeeecCChHHhhcccccccceEEEEEEEecCccccC------CCCEEEEeeCCCcHHHHHHHHH
Confidence 999999999976 44899999999999886 4 689999999999999666 9999999999999999999999
Q ss_pred HHhCCCccccceeEEEEEecCC---cccccCcc--cccccccccccCCCcceeEEecCCCCCCCc
Q 001242 1038 RKLQVLDEEFSKWKFAFLSLGR---PEYLVDTD--TVFNRFQRRDVYGAWEQYLGLEHSDNAPKR 1097 (1116)
Q Consensus 1038 ~rl~~~~~~f~k~kfai~~~~~---~~~~~~~~--~~~~~~~~~~~~~~~~~~lgldh~~~~~~~ 1097 (1116)
+||||++|||+|||||||..++ |+|++|++ ++++.....+ ++||||||+||+|||
T Consensus 154 ~rlgv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~~~~~-----~~~LgLdH~dk~~kr 213 (213)
T PF14533_consen 154 KRLGVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEIFNPD-----DPWLGLDHPDKSPKR 213 (213)
T ss_dssp HHH---HHHHTT-EEEEEETTEE---EE--TT-T----GGGTS-S-------EEEEE--------
T ss_pred HHhCCChhhheeEEEEEEecCCcccceeccccchhhhhhhhcCcc-----CCEEEEeCCCCCCCC
Confidence 9999999999999999997654 69999986 7777664333 459999999999986
No 15
>cd02661 Peptidase_C19E 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=100.00 E-value=3.5e-50 Score=456.42 Aligned_cols=276 Identities=29% Similarity=0.477 Sum_probs=242.2
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCCC-CCCCCCCHHHHHHHHHHHHhcC-Ccccccchhhhhcc--cCcc
Q 001242 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTE-NDLPSGSIPLALQSLFYKLQYN-DTSVATKELTKSFG--WDTY 272 (1116)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~-~~~~~~~~~~~Lq~Lf~~l~~s-~~~v~~~~l~~s~~--~~~~ 272 (1116)
+||.|.||||||||+||+|+++|+||+++++..... ...+..++.++|+++|..+..+ ...+.|..|...++ ++.+
T Consensus 2 ~GL~N~gntCY~NsvLQ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~~~l~~~~~~f 81 (304)
T cd02661 2 AGLQNLGNTCFLNSVLQCLTHTPPLANYLLSREHSKDCCNEGFCMMCALEAHVERALASSGPGSAPRIFSSNLKQISKHF 81 (304)
T ss_pred CCccccCchhHHHHHHHHhhCCHHHHHHHhcchhhhhccCCcchHHHHHHHHHHHHHhCCCCccChHHHHHHHHHHHHhh
Confidence 899999999999999999999999999998644322 2333468999999999998865 56677888776664 4568
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCCc-----------cccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC
Q 001242 273 DSFMQHDVQELNRVLCEKLEDKMKGTV-----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC 341 (1116)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~ 341 (1116)
..+.||||+||+..|++.|++++.... ..+.+.++|+|++.+.+.|.+|+..+.+.++|+.|+|++++.
T Consensus 82 ~~~~qqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~~~s~~~e~~~~l~l~i~~~ 161 (304)
T cd02661 82 RIGRQEDAHEFLRYLLDAMQKACLDRFKKLKAVDPSSQETTLVQQIFGGYLRSQVKCLNCKHVSNTYDPFLDLSLDIKGA 161 (304)
T ss_pred cCcchhhHHHHHHHHHHHHHHHHhhhcccccccCccccCCChhhhcCCcEEeeeEEeCCCCCCcCccccceeeeeecCCC
Confidence 888999999999999999998764321 245789999999999999999999999999999999999998
Q ss_pred CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcc
Q 001242 342 RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRE 420 (1116)
Q Consensus 342 ~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~ 420 (1116)
.+|+++|+.++.+|.++|+++|.|+.|+ ++.+.++..|.++|++|+|||+||.++ ...|+++.|.||.+|||
T Consensus 162 ~~l~~~l~~~~~~e~~~~~~~~~C~~C~~~~~~~~~~~i~~~P~iL~i~l~Rf~~~----~~~Ki~~~v~f~~~L~l--- 234 (304)
T cd02661 162 DSLEDALEQFTKPEQLDGENKYKCERCKKKVKASKQLTIHRAPNVLTIHLKRFSNF----RGGKINKQISFPETLDL--- 234 (304)
T ss_pred CcHHHHHHHhcCceeeCCCCCeeCCCCCCccceEEEEEEecCCcEEEEEEeccccC----CccccCCeEecCCeech---
Confidence 9999999999999999999999999998 568899999999999999999999987 46799999999999999
Q ss_pred cCCCCCCCcCcCccccEEEEEEEEeecc-CCCceEEEEEecCCCCCEEEEeCceeeEechHhHH
Q 001242 421 NGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRAL 483 (1116)
Q Consensus 421 ~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl 483 (1116)
.+|+..+ ......|+|+|||+|.|+ .++|||+||+|.. +++||+|||+.|+++++++|+
T Consensus 235 -~~~~~~~--~~~~~~Y~L~~vi~H~G~~~~~GHY~~~~~~~-~~~W~~~nD~~V~~v~~~~v~ 294 (304)
T cd02661 235 -SPYMSQP--NDGPLKYKLYAVLVHSGFSPHSGHYYCYVKSS-NGKWYNMDDSKVSPVSIETVL 294 (304)
T ss_pred -hhccccC--CCCCceeeEEEEEEECCCCCCCcCCEEEEECC-CCCEEEEeCCeeEECCHHHhc
Confidence 7777653 235688999999999996 4999999999985 789999999999999999986
No 16
>KOG1866 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.2e-52 Score=475.07 Aligned_cols=328 Identities=34% Similarity=0.579 Sum_probs=282.8
Q ss_pred ccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCC----HHHHHHHHHHHHhcCC-cccccc
Q 001242 187 SYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGS----IPLALQSLFYKLQYND-TSVATK 261 (1116)
Q Consensus 187 ~~~s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~----~~~~Lq~Lf~~l~~s~-~~v~~~ 261 (1116)
+-.++..-|+|||+|-|+|||||+++|-|+++|.+|..+..+... .+.+.-+ +++.+|++|.+|..+. .++-|.
T Consensus 86 pVgsRpp~gfVGLKNagatcyMNav~QQlymIP~Lrh~ll~~~~~-td~pd~s~~e~vl~~lQ~iF~hL~~s~lQyyVPe 164 (944)
T KOG1866|consen 86 PVGSRPPEGFVGLKNAGATCYMNAVIQQLYMIPGLRHLLLAFVGT-TDLPDMSGDEKVLRHLQVIFGHLAASQLQYYVPE 164 (944)
T ss_pred CcCCCCCcceeeecCCCchHHHhhhhhhhhhcccccchhhhhccc-ccchhhcchHHHHHHHHHHHHHHHHHhhhhhcch
Confidence 345677789999999999999999999999999999887655432 2223333 9999999999998875 678899
Q ss_pred hhhhhcc-c-CcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeecc
Q 001242 262 ELTKSFG-W-DTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVK 339 (1116)
Q Consensus 262 ~l~~s~~-~-~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~ 339 (1116)
.|++.|. | ......+||||-||+..|+|.+++.+|.-.....++..|+|.....-.|..|-+.-++.|+|..|+|.|.
T Consensus 165 g~Wk~Fr~~~~pln~reqhDA~eFf~sLld~~De~LKklg~p~lf~n~f~G~ysdqKIC~~CpHRY~~eE~F~~l~l~i~ 244 (944)
T KOG1866|consen 165 GFWKQFRLWGEPLNLREQHDALEFFNSLLDSLDEALKKLGHPQLFSNTFGGSYSDQKICQGCPHRYECEESFTTLNLDIR 244 (944)
T ss_pred hHHHHhhccCCccchHhhhhHHHHHHHHHHHHHHHHHHhCCcHHHHHHhcCccchhhhhccCCcccCccccceeeeeecc
Confidence 9999886 3 3456678999999999999999999998888888999999999999999999999999999999999999
Q ss_pred CCCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCC
Q 001242 340 GCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLD 418 (1116)
Q Consensus 340 ~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~ 418 (1116)
..+|+++|++|++.|.++|.|.|+|++|. +.+..|++.|++||+||.||||||.||..++..+|.|+.++||.+|||
T Consensus 245 -~~nLeesLeqfv~gevlEG~nAYhCeKCdeK~~TvkRt~ik~LPsvl~IqLkRF~yD~e~~~~iK~n~~frFP~~ldM- 322 (944)
T KOG1866|consen 245 -HQNLEESLEQFVKGEVLEGANAYHCEKCDEKVDTVKRTCIKKLPSVLAIQLKRFDYDWERECAIKFNDYFRFPRELDM- 322 (944)
T ss_pred -cchHHHHHHHHHHHHHhcCcchhhhhhhhhhhHhHHHHHHhhCChhheehhhhccchhhhccccccchhcccchhhcC-
Confidence 89999999999999999999999999997 778899999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCc---------------CcCccccEEEEEEEEeeccCCCceEEEEEecCC---CCCEEEEeCceeeEechH
Q 001242 419 RENGKYLSPDA---------------DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTL---SDQWYKFDDERVTKEDVK 480 (1116)
Q Consensus 419 ~~~~~~l~~~~---------------~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~---~~~W~~fnD~~Vt~v~~~ 480 (1116)
.||+.... ...++.+|+|+|||||+|.+++||||+||+... +++||+|||..|++++..
T Consensus 323 ---ePYtvsg~a~~e~~~~~~g~~~e~s~~t~~YeLvGVlvHSGqAsaGHYySfIk~rr~~~~~kWykfnD~~Vte~~~n 399 (944)
T KOG1866|consen 323 ---EPYTVSGVAKLEGENVESGQQLEQSAGTTKYELVGVLVHSGQASAGHYYSFIKQRRGEDGNKWYKFNDGDVTECKMN 399 (944)
T ss_pred ---CceeehhhhhhccccCCcCcccccccCcceeEEEEEEEecccccCcchhhhhhhhccCCCCceEeccCccccccchh
Confidence 55543211 123467999999999999999999999999653 469999999999999999
Q ss_pred hHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecCccc
Q 001242 481 RALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESDKDK 526 (1116)
Q Consensus 481 ~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~~~~~ 526 (1116)
+...+||||+.. ..++.+ .++ .++.|||||||+|.++.+.
T Consensus 400 ~me~~cfGGey~--q~~~~~---~~r-rR~WNAYmlFYer~~d~p~ 439 (944)
T KOG1866|consen 400 EMENECFGGEYM--QMMKRM---SYR-RRWWNAYMLFYERMDDIPT 439 (944)
T ss_pred hHHHHhhcchhh--hccccc---chH-HHhhhhHHHHHHHhcCCCc
Confidence 999999999753 112222 122 3788999999999987554
No 17
>cd02658 Peptidase_C19B 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=100.00 E-value=2.9e-49 Score=450.72 Aligned_cols=273 Identities=24% Similarity=0.345 Sum_probs=233.5
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcC---------------Ccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYN---------------DTSVA 259 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~---~~~~~~~~~~~~~Lq~Lf~~l~~s---------------~~~v~ 259 (1116)
||.|+||||||||+||+|+++|+||++++.... .....+..++.++|++||..|+.. ..+++
T Consensus 1 GL~NlGNTCY~NsvLQ~L~~~~~f~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~i~ 80 (311)
T cd02658 1 GLRNLGNSCYLNSVLQVLFSIPSFQWRYDDLENKFPSDVVDPANDLNCQLIKLADGLLSGRYSKPASLKSENDPYQVGIK 80 (311)
T ss_pred CcccCCcchHHHHHHHHHHCCHHHHHHHhhhccccCCCcCCccccHHHHHHHHHHHhcCCCcCCCccccccccccccccC
Confidence 899999999999999999999999999975321 122235678999999999999763 23578
Q ss_pred cchhhhhcc--cCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeee
Q 001242 260 TKELTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLD 337 (1116)
Q Consensus 260 ~~~l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~ 337 (1116)
|..|...++ ++.|..+.||||+||++.||+.|+++++.. ....+.++|+|.+.+.++|.+|+..+.+.|+|++|+|+
T Consensus 81 p~~~~~~l~~~~~~f~~~~QqDa~Efl~~ll~~l~~~~~~~-~~~~~~~~f~~~~~~~i~C~~C~~~s~~~e~~~~lsL~ 159 (311)
T cd02658 81 PSMFKALIGKGHPEFSTMRQQDALEFLLHLIDKLDRESFKN-LGLNPNDLFKFMIEDRLECLSCKKVKYTSELSEILSLP 159 (311)
T ss_pred cHHHHHHHhccChhhcccccccHHHHHHHHHHHHHHhhccc-ccCCchhheEEEeeEEEEcCCCCCEEEeecceeEEeee
Confidence 999998886 367888999999999999999999998642 23467899999999999999999999999999999999
Q ss_pred ccCC--------------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCee
Q 001242 338 VKGC--------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAM 402 (1116)
Q Consensus 338 v~~~--------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~ 402 (1116)
++.. .+|+++|+.|+.+|.++ +.|+.|+ ++.|.|+..|.++|++|+|||+||.++. ....
T Consensus 160 l~~~~~~~~~~~~~~~~~~sl~~~L~~~~~~e~i~----~~C~~C~~~~~a~k~~~i~~lP~vLii~LkRF~~~~-~~~~ 234 (311)
T cd02658 160 VPKDEATEKEEGELVYEPVPLEDCLKAYFAPETIE----DFCSTCKEKTTATKTTGFKTFPDYLVINMKRFQLLE-NWVP 234 (311)
T ss_pred cccccccccccccccCCCCCHHHHHHHHcCccccc----ccccCCCCcccEEEEEEeecCCceEEEEeEEEEecC-CCce
Confidence 8754 38999999999999997 5687787 6889999999999999999999999963 3457
Q ss_pred eeccceEecCccccCCcccCCCCCCCcCcCccccEEEEEEEEeecc-CCCceEEEEEecC--CCCCEEEEeCceeeEech
Q 001242 403 VKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPT--LSDQWYKFDDERVTKEDV 479 (1116)
Q Consensus 403 ~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~--~~~~W~~fnD~~Vt~v~~ 479 (1116)
.|++..|.||..+ .+..|+|+|||+|.|+ .++|||+||+|.. .+++||+|||+.|++++.
T Consensus 235 ~Ki~~~v~~p~~l-----------------~~~~Y~L~~vI~H~G~~~~~GHY~~~vk~~~~~~~~W~~fnD~~V~~~~~ 297 (311)
T cd02658 235 KKLDVPIDVPEEL-----------------GPGKYELIAFISHKGTSVHSGHYVAHIKKEIDGEGKWVLFNDEKVVASQD 297 (311)
T ss_pred EeeccccccCCcC-----------------CCCcEEEEEEEEccCCCCCCcceEEEEeCCCCCCCCEEEecCceeEECCc
Confidence 8999999999766 1356999999999995 8999999999986 348999999999999988
Q ss_pred HhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 480 KRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 480 ~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
.+|+ ..+||||||+
T Consensus 298 ~~~~--------------------------~~~~YilfY~ 311 (311)
T cd02658 298 PPEM--------------------------KKLGYIYFYQ 311 (311)
T ss_pred cccc--------------------------CCcceEEEEC
Confidence 7763 2489999995
No 18
>cd02669 Peptidase_C19M 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=100.00 E-value=2.1e-49 Score=469.38 Aligned_cols=293 Identities=23% Similarity=0.303 Sum_probs=238.8
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC-CCCCCCHHHHHHHHHHHHhcC---Ccccccchhhhhc
Q 001242 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN-DLPSGSIPLALQSLFYKLQYN---DTSVATKELTKSF 267 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~-~~~~~~~~~~Lq~Lf~~l~~s---~~~v~~~~l~~s~ 267 (1116)
..+|++||.|+||||||||+||+|+++|+||++++....... .....++.++|+.++..|+.. ..+++|.+|++++
T Consensus 115 ~~~G~vGL~NlGnTCYmNsvLQ~L~~~p~lr~~~l~~~~~~~~~~~~~~l~~~l~~l~~kl~~~~~~~~~isP~~fl~~l 194 (440)
T cd02669 115 YLPGFVGLNNIKNNDYANVIIQALSHVKPIRNFFLLYENYENIKDRKSELVKRLSELIRKIWNPRNFKGHVSPHELLQAV 194 (440)
T ss_pred ccCCccCccCCCCchHHHHHHHHHHCCHHHHHHHhhccccccccCCCcHHHHHHHHHHHHHhccccCCCccCHHHHHHHH
Confidence 356999999999999999999999999999999987543211 123457899999999999875 4689999999888
Q ss_pred cc---CcccccccccHHHHHHHHHHHHHHhhcCC--ccccccccccceEEeeeEEeecee---------------eecce
Q 001242 268 GW---DTYDSFMQHDVQELNRVLCEKLEDKMKGT--VVEGTIQQLFEGHHMNYIECINVD---------------YKSTR 327 (1116)
Q Consensus 268 ~~---~~~~~~~QqDa~Efl~~Lld~Le~~~~~~--~~~~~i~~lF~g~~~~~i~C~~C~---------------~~s~~ 327 (1116)
.. ..+..++||||+||+.+|||.|++++++. ...++|.++|+|++++.++|..|. ..+.+
T Consensus 195 ~~~~~~~f~~~~QqDA~EFl~~LLd~L~~~l~~~~~~~~~ii~~~F~G~l~~~~~c~~~~~~~~~~~~~~~~c~~~~s~~ 274 (440)
T cd02669 195 SKVSKKKFSITEQSDPVEFLSWLLNTLHKDLGGSKKPNSSIIHDCFQGKVQIETQKIKPHAEEEGSKDKFFKDSRVKKTS 274 (440)
T ss_pred HhhcccccCCcccCCHHHHHHHHHHHHHHHhccCCCCCCCcceeccCceEEEEEEeecccccccccccccccccccceee
Confidence 53 35778899999999999999999999863 456789999999999999987654 24567
Q ss_pred eeeeeeeeeeccCCCCHH-----HHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCe
Q 001242 328 KESFYDLQLDVKGCRDVY-----ASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDA 401 (1116)
Q Consensus 328 ~e~f~~L~L~v~~~~sL~-----e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~ 401 (1116)
.++|++|+|+|++..... .++..+...|.|+ +|.|+.|. .+++.|+..|.++|+||+||||||.++. ..
T Consensus 275 ~~pF~~LsLdip~~~~~~~~~~~~~l~~~~l~e~L~---ky~~~~c~~~~~a~k~~~I~~LP~vLiihLKRF~~~~--~~ 349 (440)
T cd02669 275 VSPFLLLTLDLPPPPLFKDGNEENIIPQVPLKQLLK---KYDGKTETELKDSLKRYLISRLPKYLIFHIKRFSKNN--FF 349 (440)
T ss_pred eccceEEEecCCCCccccccccccccCcccHHHHHH---hcCCccceecccceEEEEEeeCCcEEEEEEecccCCC--Cc
Confidence 899999999998752211 1122222222232 37777775 5788999999999999999999999874 56
Q ss_pred eeeccceEecCcc-ccCCcccCCCCCCCc-CcCccccEEEEEEEEeeccC-CCceEEEEEecCCCCCEEEEeCceeeEec
Q 001242 402 MVKINDRYEFPLQ-LDLDRENGKYLSPDA-DRSVRNLYTLHSVLVHSGGV-HGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1116)
Q Consensus 402 ~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~-~~~~~~~Y~L~gVVvH~Gs~-~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1116)
..|+++.|+||.. ||| ++|+.++. ....+..|+|+|||+|.|+. ++|||+||+|...+|+||+|||+.|++++
T Consensus 350 ~~K~~t~V~FP~~~LDm----~~y~~~~~~~~~~~~~Y~L~avI~H~G~~~~sGHY~a~v~~~~~~~W~~fdD~~V~~v~ 425 (440)
T cd02669 350 KEKNPTIVNFPIKNLDL----SDYVHFDKPSLNLSTKYNLVANIVHEGTPQEDGTWRVQLRHKSTNKWFEIQDLNVKEVL 425 (440)
T ss_pred cccCCCEEECCCCccch----hhhhCccccccCCCceEEEEEEEEEeccCCCCeeEEEEEEcCCCCeEEEEECCeeeEcC
Confidence 7899999999997 899 88876433 22456899999999999987 99999999998768999999999999999
Q ss_pred hHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 479 VKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 479 ~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
+++|+. +.||||||+
T Consensus 426 ~~~v~~--------------------------~eaYll~Y~ 440 (440)
T cd02669 426 PQLIFL--------------------------SESYIQIWE 440 (440)
T ss_pred HHHhcc--------------------------CCceEEEeC
Confidence 998853 489999995
No 19
>cd02662 Peptidase_C19F 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=100.00 E-value=3.9e-47 Score=416.29 Aligned_cols=203 Identities=31% Similarity=0.511 Sum_probs=185.9
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCccccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1116)
||+|.||||||||+||+|+++|+||++++... .|
T Consensus 1 Gl~N~g~tCy~ns~lQ~L~~~~~f~~~~~~~~----------------------------------------------~Q 34 (240)
T cd02662 1 GLVNLGNTCFMNSVLQALASLPSLIEYLEEFL----------------------------------------------EQ 34 (240)
T ss_pred CCcCCCCccHHHHHHHHHHCCHHHHHHHHHHH----------------------------------------------hh
Confidence 89999999999999999999999999987522 79
Q ss_pred ccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecc-eeeeeeeeeeeccCC-----CCHHHHHhhc
Q 001242 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKST-RKESFYDLQLDVKGC-----RDVYASFDKY 351 (1116)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~-~~e~f~~L~L~v~~~-----~sL~e~L~~~ 351 (1116)
|||+||+..|++.|+. .+.++|.|++.+.++|..|++.+. +.|+|++|+|+++.. .+|+++|+.|
T Consensus 35 qDa~EFl~~ll~~l~~---------~i~~~F~g~~~~~i~C~~C~~~s~~~~e~f~~LsL~ip~~~~~~~~sl~~~L~~~ 105 (240)
T cd02662 35 QDAHELFQVLLETLEQ---------LLKFPFDGLLASRIVCLQCGESSKVRYESFTMLSLPVPNQSSGSGTTLEHCLDDF 105 (240)
T ss_pred cCHHHHHHHHHHHHHH---------hccCccccEEEEEEEeCCCCCccCcceeeeeeeEecccccCCCCCCCHHHHHHHh
Confidence 9999999999999983 577899999999999999999876 599999999999875 5899999999
Q ss_pred ceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCcCc
Q 001242 352 VEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADR 431 (1116)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~ 431 (1116)
+.+|.++| |.|+.| +..|.++|++|+|||+||.||.. +...|++..|+||..|
T Consensus 106 ~~~E~l~~---~~C~~C-------~~~i~~lP~vLii~LkRF~~~~~-~~~~K~~~~v~fp~~l---------------- 158 (240)
T cd02662 106 LSTEIIDD---YKCDRC-------QTVIVRLPQILCIHLSRSVFDGR-GTSTKNSCKVSFPERL---------------- 158 (240)
T ss_pred cCcccccC---cCCCCC-------eEEeecCCcEEEEEEEEEEEcCC-CceeeeccEEECCCcc----------------
Confidence 99999987 889999 56799999999999999999876 7889999999999877
Q ss_pred CccccEEEEEEEEeeccCCCceEEEEEecC--------------------CCCCEEEEeCceeeEechHhHH
Q 001242 432 SVRNLYTLHSVLVHSGGVHGGHYYAFIRPT--------------------LSDQWYKFDDERVTKEDVKRAL 483 (1116)
Q Consensus 432 ~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~--------------------~~~~W~~fnD~~Vt~v~~~~vl 483 (1116)
....|+|+|||+|.|+.++|||+||+|.. ..+.||+|||+.|++++.++|+
T Consensus 159 -~~~~Y~L~avi~H~G~~~~GHY~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~v~~~~v~ 229 (240)
T cd02662 159 -PKVLYRLRAVVVHYGSHSSGHYVCYRRKPLFSKDKEPGSFVRMREGPSSTSHPWWRISDTTVKEVSESEVL 229 (240)
T ss_pred -CCceEEEEEEEEEeccCCCceEEEEEeCCCcccccccccccccccccCccCCCEEEEechheEEeCHHHHh
Confidence 24679999999999988999999999986 3489999999999999999995
No 20
>cd02665 Peptidase_C19I 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=100.00 E-value=2.6e-46 Score=400.10 Aligned_cols=220 Identities=31% Similarity=0.541 Sum_probs=195.6
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCccccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1116)
||.|.|||||+|++.|+|+. +|
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~----------------------------------------------------------~Q 22 (228)
T cd02665 1 GLKNVGNTCWFSAVIQSLFS----------------------------------------------------------QQ 22 (228)
T ss_pred CccccCcchhHHHHHHHHHH----------------------------------------------------------HH
Confidence 89999999999999999987 59
Q ss_pred ccHHHHHHHHHHHHHHhhcCC--------ccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCCCHHHHHh
Q 001242 278 HDVQELNRVLCEKLEDKMKGT--------VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFD 349 (1116)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~--------~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~ 349 (1116)
|||+||++.||+.|+++++.. ...+.|.++|+|++.+.+.| |+..+.+.|+|++|+|+|++..+|++||+
T Consensus 23 QDa~Ef~~~Lld~Le~~l~~~~~~~~~~~~~~~~i~~lF~G~~~~~~~~--~~~~s~~~E~F~~L~l~i~~~~~L~e~L~ 100 (228)
T cd02665 23 QDVSEFTHLLLDWLEDAFQAAAEAISPGEKSKNPMVQLFYGTFLTEGVL--EGKPFCNCETFGQYPLQVNGYGNLHECLE 100 (228)
T ss_pred HHHHHHHHHHHHHHHHHhccccccccccccccchHhhceEEEEEEEEEE--CCCcccccCccEEEEEEECCCCCHHHHHH
Confidence 999999999999999999743 34568999999999976666 78889999999999999999999999999
Q ss_pred hcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCc
Q 001242 350 KYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA 429 (1116)
Q Consensus 350 ~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~ 429 (1116)
.++.+|.+++++.+. ...+.++..|.++|+||+||||||.|+. +...|++++|+||.+|.
T Consensus 101 ~~~~ee~l~~~~~~~-----~~~~~~~~~i~~lP~vL~i~LkRF~~~~--~~~~Ki~~~v~FP~~l~------------- 160 (228)
T cd02665 101 AAMFEGEVELLPSDH-----SVKSGQERWFTELPPVLTFELSRFEFNQ--GRPEKIHDKLEFPQIIQ------------- 160 (228)
T ss_pred Hhhhhcccccccccc-----hhhhhhhhhhhhCChhhEEEeEeeEEcC--CccEECCEEEEeeCccC-------------
Confidence 999999998865432 2346677789999999999999999975 56799999999998862
Q ss_pred CcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCC
Q 001242 430 DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTK 509 (1116)
Q Consensus 430 ~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~ 509 (1116)
...|+|+|||+|.|++++|||+||+|+..+++||+|||+.|++++.++|+.++|||..
T Consensus 161 ----~~~Y~L~aVi~H~G~~~~GHY~~~i~~~~~~~W~~fdD~~V~~~~~~~v~~~~fGg~~------------------ 218 (228)
T cd02665 161 ----QVPYELHAVLVHEGQANAGHYWAYIYKQSRQEWEKYNDISVTESSWEEVERDSFGGGR------------------ 218 (228)
T ss_pred ----CceeEEEEEEEecCCCCCCEEEEEEEcCCCCEEEEEECCeeEEcCHHHHhhhccCCCC------------------
Confidence 2479999999999999999999999987689999999999999999999999999864
Q ss_pred CCcEEEEEEE
Q 001242 510 YSNAYMLVYI 519 (1116)
Q Consensus 510 ~~~AYmL~Y~ 519 (1116)
+.+||||||+
T Consensus 219 ~~~AYiLfYv 228 (228)
T cd02665 219 NPSAYCLMYI 228 (228)
T ss_pred CCceEEEEEC
Confidence 2599999995
No 21
>cd02666 Peptidase_C19J 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=100.00 E-value=6.1e-47 Score=430.77 Aligned_cols=269 Identities=28% Similarity=0.421 Sum_probs=228.7
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC--------------CC-------CCCCHHHHHHHHHHHHhcC
Q 001242 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN--------------DL-------PSGSIPLALQSLFYKLQYN 254 (1116)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~--------------~~-------~~~~~~~~Lq~Lf~~l~~s 254 (1116)
.+||.|+||||||||+||+||++|+||++++.++.... .. ...+++.+|++||..|+.+
T Consensus 1 PvGL~NlGNTCYmNSlLQ~L~~i~~lR~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~LF~~l~~s 80 (343)
T cd02666 1 PAGLDNIGNTCYLNSLLQYFFTIKPLRDLVLNFDESKAELASDYPTERRIGGREVSRSELQRSNQFVYELRSLFNDLIHS 80 (343)
T ss_pred CCCcccCCceeHHHHHHHHHHccHHHHHHHHcCCccccccccccccccccCccccchhhhhhHHHHHHHHHHHHHHHHhC
Confidence 38999999999999999999999999999998763210 00 1125889999999999987
Q ss_pred C-cccccchhhhhcccCcccccccccHHHHHHHHHHHHHHhhcCCcc-------------ccccccccceEEeeeEEeec
Q 001242 255 D-TSVATKELTKSFGWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV-------------EGTIQQLFEGHHMNYIECIN 320 (1116)
Q Consensus 255 ~-~~v~~~~l~~s~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~-------------~~~i~~lF~g~~~~~i~C~~ 320 (1116)
+ .++.|..++..+.+ .||||+||++.||+.|+.+++.... .+.|.++|.|++++.+.|..
T Consensus 81 ~~~~v~P~~~l~~l~~------~QQDa~Ef~~~lld~Le~~lk~~~~~~~~~~~~~~~~~~~~I~~lF~G~~~~~i~c~~ 154 (343)
T cd02666 81 NTRSVTPSKELAYLAL------RQQDVTECIDNVLFQLEVALEPISNAFAGPDTEDDKEQSDLIKRLFSGKTKQQLVPES 154 (343)
T ss_pred CCCccCcHHHHHhccc------cccchHHHHHHHHHHHHHHhcCccccccCcccccccchhhhhhHhceeeEEEEEEecc
Confidence 6 78899988876653 8999999999999999999986543 45799999999999999999
Q ss_pred ee---eecceeeeeeeeeeeccC----------CCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEE
Q 001242 321 VD---YKSTRKESFYDLQLDVKG----------CRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQ 387 (1116)
Q Consensus 321 C~---~~s~~~e~f~~L~L~v~~----------~~sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~ 387 (1116)
|+ +.+.+.|+|++|+|+|+. ..+|++||+.|++.|. |.++|+||.
T Consensus 155 ~~~~~~~s~~~E~F~~L~l~I~~~~~~~~~~~~~~~L~d~L~~~~~~e~----------------------~~~~P~vl~ 212 (343)
T cd02666 155 MGNQPSVRTKTERFLSLLVDVGKKGREIVVLLEPKDLYDALDRYFDYDS----------------------LTKLPQRSQ 212 (343)
T ss_pred cCCCCCCccccceeEEEEEecCcccccccccCCCCCHHHHHHHhcChhh----------------------hccCCHHHH
Confidence 97 789999999999999984 6899999999998775 889999999
Q ss_pred EEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCcC--------------------------cCccccEEEEE
Q 001242 388 LQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDAD--------------------------RSVRNLYTLHS 441 (1116)
Q Consensus 388 i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~--------------------------~~~~~~Y~L~g 441 (1116)
|||+ +|.......+.+++++||...|. .+++..+.. ......|+|+|
T Consensus 213 ~qlq---~~~~~~~~~~~~dry~~~~~~~~----~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~Y~L~a 285 (343)
T cd02666 213 VQAQ---LAQPLQRELISMDRYELPSSIDD----IDELIREAIQSESSLVRQAQNELAELKHEIEKQFDDLKSYGYRLHA 285 (343)
T ss_pred HHHh---hcccccchheeeccccccchHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCceEEEE
Confidence 9999 56666777888888888887777 444433221 12578899999
Q ss_pred EEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001242 442 VLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 442 VVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
||+|+|+.++|||++|+|+..++.||+|||+.|++++.++++..++|+. .+||||+|+
T Consensus 286 vv~H~G~~~~GHY~~~~~~~~~~~W~~~dD~~V~~v~~~ev~~~~~~~~--------------------~~pY~l~Yv 343 (343)
T cd02666 286 VFIHRGEASSGHYWVYIKDFEENVWRKYNDETVTVVPASEVFLFTLGNT--------------------ATPYFLVYV 343 (343)
T ss_pred EEEeecCCCCCeEEEEEEECCCCeEEEEECCeeEEecHHHHhhcccCCC--------------------CCCEEEEeC
Confidence 9999999999999999999777899999999999999999998877753 489999995
No 22
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.7e-46 Score=420.77 Aligned_cols=297 Identities=30% Similarity=0.445 Sum_probs=254.4
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCC------CCCCCCCCCHHHHHHHHHHHHhcC-Ccccccchhh
Q 001242 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT------TENDLPSGSIPLALQSLFYKLQYN-DTSVATKELT 264 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~------~~~~~~~~~~~~~Lq~Lf~~l~~s-~~~v~~~~l~ 264 (1116)
++.|.+||.|+||||||||.||||.||+.+|++++.-.. .+...-.+.++.+...|..++... ..++.|..+.
T Consensus 261 ke~GtcGL~NlGNTCyMNSaLQCL~ht~eLrdyFlsdeye~~iNe~Nplgmhg~vAsayadLik~ly~~~~haf~Ps~fK 340 (823)
T COG5560 261 KEAGTCGLRNLGNTCYMNSALQCLMHTWELRDYFLSDEYEESINEENPLGMHGSVASAYADLIKQLYDGNLHAFTPSGFK 340 (823)
T ss_pred hhccccceecCCcceecchHHHHHhccHHHHHHhhhhhhHhhhcccCccchhhhHHHHHHHHHHHHhCccccccChHHHH
Confidence 557999999999999999999999999999999974322 112222457788888888888765 4688999999
Q ss_pred hhcc--cCcccccccccHHHHHHHHHHHHHHhhcCC--------------------------------ccccccccccce
Q 001242 265 KSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGT--------------------------------VVEGTIQQLFEG 310 (1116)
Q Consensus 265 ~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~--------------------------------~~~~~i~~lF~g 310 (1116)
..+| ...|.++.|||.|||+.+|||.||+.++.- ...++|.+||.|
T Consensus 341 ~tIG~fn~~fsGy~QQDSqEFiaflLDgLHEdLnRI~~KpytskPdL~~~d~~~vKk~a~ecW~~H~kRNdSiItdLFqg 420 (823)
T COG5560 341 KTIGSFNEEFSGYDQQDSQEFIAFLLDGLHEDLNRIIKKPYTSKPDLSPGDDVVVKKKAKECWWEHLKRNDSIITDLFQG 420 (823)
T ss_pred HHHhhhHHHhcCccchhHHHHHHHHHHHHHHHHHHhhcCcccCCCCCCCcchHHHHHHHHHHHHHHHhcCcccHHHHHHH
Confidence 9988 357899999999999999999999988610 045789999999
Q ss_pred EEeeeEEeeceeeecceeeeeeeeeeeccCCC---------------C--------------------------------
Q 001242 311 HHMNYIECINVDYKSTRKESFYDLQLDVKGCR---------------D-------------------------------- 343 (1116)
Q Consensus 311 ~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~---------------s-------------------------------- 343 (1116)
-.++...|..|+.+|.+++||.+|+||+|-.. +
T Consensus 421 myKSTL~Cp~C~~vsitfDPfmdlTLPLPvs~vw~htiv~fp~~g~~~pl~iel~~sSt~~~lk~lv~~~~gk~gc~ei~ 500 (823)
T COG5560 421 MYKSTLTCPGCGSVSITFDPFMDLTLPLPVSMVWKHTIVVFPESGRRQPLKIELDASSTIRGLKKLVDAEYGKLGCFEIK 500 (823)
T ss_pred HhhceeeccCcCceeeeecchhhccccCchhhcccccEEEECCCCCCCceEEEEeccchHHHHHHHHHHHhccCCcccee
Confidence 99999999999999999999999999885210 0
Q ss_pred --------------------------------------------------------------------------------
Q 001242 344 -------------------------------------------------------------------------------- 343 (1116)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1116)
T Consensus 501 v~~iy~g~~y~~l~~~dk~ll~~I~~~d~vylYe~~~ngi~vpvvh~~~~~gYks~rlFg~pflqlnv~~~~~i~~kLvk 580 (823)
T COG5560 501 VMCIYYGGNYNMLEPADKVLLQDIPQTDFVYLYETNDNGIEVPVVHLRIEKGYKSKRLFGDPFLQLNVLIKASIYDKLVK 580 (823)
T ss_pred EEEEEeccchhhcchhhHHHHhhcCccceEEEeecCCCCeEEEEEeccccccccchhhhCCcceEEEeecchhhHHHHHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 001242 344 -------------------------------------------------------------------------------- 343 (1116)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1116)
T Consensus 581 E~~ell~~v~~k~tdvd~~~~q~~l~r~es~p~~wl~l~teid~kree~veeE~~~n~nd~vvi~cew~ek~y~~lFsy~ 660 (823)
T COG5560 581 EFEELLVLVEMKKTDVDLVSEQVRLLREESSPSSWLKLETEIDTKREEQVEEEGQMNFNDAVVISCEWEEKRYLSLFSYD 660 (823)
T ss_pred HHHHHHHHHhhcchhhhhhhhhccchhcccCcchhhhhhhhccchhhhhhhhhhccCCCcceEEeeeccccchhhhhcCC
Confidence
Q ss_pred ----------------HHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeecc
Q 001242 344 ----------------VYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKIN 406 (1116)
Q Consensus 344 ----------------L~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~ 406 (1116)
|++||..|.++|.|.-...|+|+.|+ .+.|.|++.++++|.+|+||||||+++ .....||.
T Consensus 661 ~lw~~~ei~~~~rtiTL~dCl~eFskpEqLgl~DswyCpgCkefrqasKqmelwrlP~iLiihLkRFss~--rsfrdKid 738 (823)
T COG5560 661 PLWTIREIGAAERTITLQDCLNEFSKPEQLGLSDSWYCPGCKEFRQASKQMELWRLPMILIIHLKRFSSV--RSFRDKID 738 (823)
T ss_pred ccchhHHhhhccCCCcHHHHHHHhccHhhcCCcccccCCchHhhhhhhhhhhhhcCChheeeehhhhhhc--ccchhhhh
Confidence 89999999999999999999999997 788999999999999999999999974 55678999
Q ss_pred ceEecCcc-ccCCcccCCCCCCCcCcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHH
Q 001242 407 DRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEE 485 (1116)
Q Consensus 407 ~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~ 485 (1116)
+-|+||.. |||+.+...+. +....|+|+||=.|.|...+|||+||+|+..+++||+|||++|+++.+++.+
T Consensus 739 dlVeyPiddldLs~~~~~~~------~p~liydlyavDNHygglsgGHYtAyarn~~n~~wy~fdDsritevdped~v-- 810 (823)
T COG5560 739 DLVEYPIDDLDLSGVEYMVD------DPRLIYDLYAVDNHYGGLSGGHYTAYARNFANNGWYLFDDSRITEVDPEDSV-- 810 (823)
T ss_pred hhhccccccccccceEEeec------CcceEEEeeeccccccccCCcceeeeeecccCCceEEecCccccccCccccc--
Confidence 99999987 99955444442 1237899999999999999999999999998999999999999999887753
Q ss_pred hcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001242 486 QYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1116)
Q Consensus 486 ~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~ 522 (1116)
.++||+|||+|++
T Consensus 811 ------------------------tssaYvLFyrrk~ 823 (823)
T COG5560 811 ------------------------TSSAYVLFYRRKS 823 (823)
T ss_pred ------------------------cceeEEEEEEecC
Confidence 2489999999974
No 23
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9.7e-45 Score=379.53 Aligned_cols=284 Identities=23% Similarity=0.393 Sum_probs=222.6
Q ss_pred cccccccCCcccchhhHHHHHhcchhHHHHHc------cCCCCCCCCCCCCHH-HHHHHHHHHHh-cCCcccccchhhhh
Q 001242 195 GYVGLKNQGATCYMNSLLQTLYHIPYFRKAVY------HMPTTENDLPSGSIP-LALQSLFYKLQ-YNDTSVATKELTKS 266 (1116)
Q Consensus 195 g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~------~~~~~~~~~~~~~~~-~~Lq~Lf~~l~-~s~~~v~~~~l~~s 266 (1116)
..+||.|.|||||||++||||+.+..+...+. .+.+.......++++ ..+.-|...|. .+..+|+|..+.+.
T Consensus 70 ~p~GL~N~GNtCymNc~lQCl~~~~dL~~M~~~~~ylq~INtd~prg~~g~~~~k~F~~l~~~~~~Hg~~sis~~nF~~i 149 (415)
T COG5533 70 PPNGLRNKGNTCYMNCALQCLLSIGDLNTMLQGRFYLQNINTDFPRGKPGSNAFKQFIALYETPGCHGPKSISPRNFIDI 149 (415)
T ss_pred CCccccccCceehHHHHHHHHHhhhHHHHHhhhhhhhhhccCCCCCCCcchhHHHHHHHHHhccccCCCcccchHHHHHH
Confidence 35999999999999999999999999987442 344432222223222 22222222222 24567899999888
Q ss_pred cc--cCcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------------cccccccccc
Q 001242 267 FG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------------VEGTIQQLFE 309 (1116)
Q Consensus 267 ~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------------~~~~i~~lF~ 309 (1116)
++ .+.|.+.+|||+|||+.+++|.|++++++.. ..+.+.+.|.
T Consensus 150 ~~~~n~~fs~dmQqD~qEFl~fflD~LHedln~N~Srs~i~~l~de~e~~Reel~l~~~S~~EWn~~L~sn~S~v~~~f~ 229 (415)
T COG5533 150 LSGRNKLFSGDMQQDSQEFLIFFLDLLHEDLNGNKSRSPILELKDEFEEVREELPLSHFSHHEWNLHLRSNKSLVAKTFF 229 (415)
T ss_pred HccccccccccchhhHHHHHHHHHHHHHhhhcCCcccccccccchHHHHHHhhcCcchhhhhhhHHhhccchHHHHHHHh
Confidence 76 3567788999999999999999999986533 2356788999
Q ss_pred eEEeeeEEeeceeeecceeeeeeeeeeeccCCC--CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeE
Q 001242 310 GHHMNYIECINVDYKSTRKESFYDLQLDVKGCR--DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVL 386 (1116)
Q Consensus 310 g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~--sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL 386 (1116)
|+..+...|..|+++|++..+|..|.+++.... .|+|||++|.++|.|+|+..|.|++|+ ++.++|++.|.++|++|
T Consensus 230 gq~~srlqC~~C~~TStT~a~fs~l~vp~~~v~~~~l~eC~~~f~~~e~L~g~d~W~CpkC~~k~ss~K~~~I~~lP~~L 309 (415)
T COG5533 230 GQDKSRLQCEACNYTSTTIAMFSTLLVPPYEVVQLGLQECIDRFYEEEKLEGKDAWRCPKCGRKESSRKRMEILVLPDVL 309 (415)
T ss_pred hhhhhhhhhhhcCCceeEEeccceeeeccchheeecHHHHHHHhhhHHhhcCcccccCchhcccccchheEEEEecCceE
Confidence 999999999999999999999999999997644 599999999999999999999999998 67899999999999999
Q ss_pred EEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCC-------------cCcCccccEEEEEEEEeeccCCCce
Q 001242 387 QLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPD-------------ADRSVRNLYTLHSVLVHSGGVHGGH 453 (1116)
Q Consensus 387 ~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~-------------~~~~~~~~Y~L~gVVvH~Gs~~~GH 453 (1116)
+|||+||.. .|..|..||+ .++.... ...-.+..|.|+|||||.|+.++||
T Consensus 310 II~i~RF~i------------~V~~~~kiD~----p~gw~~~~~~e~~v~~~f~~~~~~~P~~Y~L~gv~Ch~G~L~gGH 373 (415)
T COG5533 310 IIHISRFHI------------SVMGRKKIDT----PQGWKNTASVEVNVTLLFNNGIGYIPRKYSLLGVVCHNGTLNGGH 373 (415)
T ss_pred EEEeeeeeE------------EeecccccCC----CcchhccCCceecccccccCCCCCCccceeEEEEEeecceecCce
Confidence 999999973 2334444444 2222211 1123467899999999999999999
Q ss_pred EEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001242 454 YYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1116)
Q Consensus 454 Y~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~ 521 (1116)
|+++|+. ++.|+.|||+.|++++...-+ ...+||+|||.|.
T Consensus 374 Y~s~v~~--~~~W~~~dDs~vr~~~~~t~~-------------------------~~pSsYilFY~r~ 414 (415)
T COG5533 374 YFSEVKR--SGTWNVYDDSQVRKGSRTTSG-------------------------SHPSSYILFYTRS 414 (415)
T ss_pred eEEeeee--cCceEEechhheeeccceecc-------------------------cCCcceEEEEEec
Confidence 9999998 699999999999998643221 1248999999985
No 24
>cd02674 Peptidase_C19R 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=100.00 E-value=2.8e-43 Score=383.75 Aligned_cols=211 Identities=34% Similarity=0.563 Sum_probs=192.9
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCccccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1116)
||.|.|||||+||+||+|++ .|
T Consensus 1 gl~n~~~~cy~n~~~Q~l~~----------------------------------------------------------~Q 22 (230)
T cd02674 1 GLRNLGNTCYMNSILQCLSA----------------------------------------------------------DQ 22 (230)
T ss_pred CccccCcchhhhHHHHHHHH----------------------------------------------------------hh
Confidence 89999999999999999998 69
Q ss_pred ccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCCC------CHHHHHhhc
Q 001242 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCR------DVYASFDKY 351 (1116)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~------sL~e~L~~~ 351 (1116)
|||+||++.|++.|+ +.+.++|+|.+.+.++|..|++.+.+.|+|+.|+|+++... +|+++|+.|
T Consensus 23 qDa~Ef~~~ll~~l~---------~~i~~~F~~~~~~~~~C~~C~~~~~~~e~~~~l~l~ip~~~~~~~~~sl~~~L~~~ 93 (230)
T cd02674 23 QDAQEFLLFLLDGLH---------SIIVDLFQGQLKSRLTCLTCGKTSTTFEPFTYLSLPIPSGSGDAPKVTLEDCLRLF 93 (230)
T ss_pred hhHHHHHHHHHHHHh---------hhHHheeCCEEeCcEEcCCCcCCcceecceeEEEEecccccCCCCCCCHHHHHHHh
Confidence 999999999999998 36889999999999999999999999999999999998654 999999999
Q ss_pred ceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCc-cccCCcccCCCCCCCc
Q 001242 352 VEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPL-QLDLDRENGKYLSPDA 429 (1116)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~-~Ldl~~~~~~~l~~~~ 429 (1116)
+.+|.++|.+++.|++|+ .+.+.++..|.++|++|+|||+||.++. +...|++..|+||. .+|+ .+|+.. .
T Consensus 94 ~~~e~~~~~~~~~C~~C~~~~~~~~~~~i~~lP~iLii~l~R~~~~~--~~~~K~~~~v~~~~~~l~l----~~~~~~-~ 166 (230)
T cd02674 94 TKEETLDGDNAWKCPKCKKKRKATKKLTISRLPKVLIIHLKRFSFSR--GSTRKLTTPVTFPLNDLDL----TPYVDT-R 166 (230)
T ss_pred cCccccCCCCceeCCCCCCccceEEEEEEecCChhhEeEhhheecCC--CCcccCCceEecccccccc----ccccCc-c
Confidence 999999999999999997 6789999999999999999999999975 56889999999996 5899 677532 2
Q ss_pred CcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhH
Q 001242 430 DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRA 482 (1116)
Q Consensus 430 ~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~v 482 (1116)
.......|+|+|||+|.|+.++|||+||+|...+++|++|||+.|++++.+++
T Consensus 167 ~~~~~~~Y~L~~vI~H~G~~~~GHY~~~~~~~~~~~W~~fnD~~V~~i~~~~~ 219 (230)
T cd02674 167 SFTGPFKYDLYAVVNHYGSLNGGHYTAYCKNNETNDWYKFDDSRVTKVSESSV 219 (230)
T ss_pred cCCCCceEEEEEEEEeeCCCCCcEEEEEEECCCCCceEEEcCCeEEEcCHHHc
Confidence 23456889999999999977999999999997669999999999999998887
No 25
>PF00443 UCH: Ubiquitin carboxyl-terminal hydrolase; InterPro: IPR001394 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C19 (ubiquitin-specific protease family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. Predicted active site residues for members of this family and family C1 occur in the same order in the sequence: N/Q, C, H. The type example is human ubiquitin-specific protease 14. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa, IPR001578 from INTERPRO, and 100-200 kDa) []: this family are the 100-200 kDa peptides which includes the Ubp1 ubiquitin peptidase from yeast. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process; PDB: 2LBC_A 3MHH_A 3MHS_A 3M99_A 2Y6E_D 2VHF_A 2HD5_A 3NHE_A 2IBI_A 1NBF_B ....
Probab=100.00 E-value=3.3e-40 Score=365.41 Aligned_cols=245 Identities=33% Similarity=0.584 Sum_probs=201.9
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccC------CCCCCCCCCCCHHHHHHHHHHHHhcC---Ccccccchhhhh
Q 001242 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHM------PTTENDLPSGSIPLALQSLFYKLQYN---DTSVATKELTKS 266 (1116)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~------~~~~~~~~~~~~~~~Lq~Lf~~l~~s---~~~v~~~~l~~s 266 (1116)
++||.|.||||||||+||+|+++|+||+++.+. ..........++.++|+++|..|+.+ ...+.+..+...
T Consensus 1 ~~Gl~N~gntCylNs~lQ~L~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~i~~~~~~~~ 80 (269)
T PF00443_consen 1 PVGLQNIGNTCYLNSVLQCLFHIPPFRNYLLSYNSEKENNESNPSKKIKEFLQQLQNLFRSLWSSNSSDSSISPSDFINA 80 (269)
T ss_dssp --EESBSSSTHHHHHHHHHHHTSHHHHHHHHTTCHHHHHHCSSTTSCTCHHHHHHHHHHHHHHSSCSSSSEEHCHHHHHH
T ss_pred CCCcEeCCCchHHhHHHHhhhhhhhhhhhhhhcccchhhccccccccccchhhhhhhhhhhhhhhcccccceeecccccc
Confidence 589999999999999999999999999999976 22223333457999999999999986 567889888888
Q ss_pred ccc--CcccccccccHHHHHHHHHHHHHHhhcCCc-----------cccccccccceEEeeeEEeeceeeecceeeeeee
Q 001242 267 FGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYD 333 (1116)
Q Consensus 267 ~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~ 333 (1116)
++. ..+..+.||||+||+..|++.|++++.... ..+.+.++|.+++.+.+.|..|+..
T Consensus 81 l~~~~~~~~~~~qqDa~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~c~~c~~~--------- 151 (269)
T PF00443_consen 81 LSSINPSFSNGEQQDAHEFLSFLLDWLDEEFNSSFKRKSWKNTNSSEDSLISDLFGGQFESSIKCSSCKNS--------- 151 (269)
T ss_dssp HHHHCGGGGSSSTEEHHHHHHHHHHHHHHHHTSCSSHHHHHHHHCCEESHHHHHH-EEEEEEEEETTTTCE---------
T ss_pred ccccccccccccccchhhhhcccccccchhhcccccccccccccccccccccccccccccccccccccccc---------
Confidence 863 447788999999999999999999987632 4567889999999999999999765
Q ss_pred eeeeccCCCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecC-
Q 001242 334 LQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFP- 412 (1116)
Q Consensus 334 L~L~v~~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP- 412 (1116)
...|.++|++|+|+|+||.|+..++...|+.+.+.||
T Consensus 152 ------------------------------------------~~~~~~~P~~L~i~l~R~~~~~~~~~~~K~~~~v~~~~ 189 (269)
T PF00443_consen 152 ------------------------------------------QSSISSLPPILIIQLKRFEFDQETGRSKKINNPVEFPL 189 (269)
T ss_dssp ------------------------------------------EEEEEEBBSEEEEEEE-EEEESTSSEEEE--CEEB--S
T ss_pred ------------------------------------------ccccccccceeeeccccceeccccccccccccccccCc
Confidence 4568899999999999999998888899999999999
Q ss_pred ccccCCcccCCCCCCCcC-cCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCC
Q 001242 413 LQLDLDRENGKYLSPDAD-RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEE 491 (1116)
Q Consensus 413 ~~Ldl~~~~~~~l~~~~~-~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~ 491 (1116)
.+||| .+++..+.. ......|+|+|||+|.|+.++|||+||+|...+++|++|||+.|+++++++|+..+
T Consensus 190 ~~l~l----~~~~~~~~~~~~~~~~Y~L~avi~H~G~~~~GHY~a~v~~~~~~~W~~~dD~~v~~~~~~~v~~~~----- 260 (269)
T PF00443_consen 190 EELDL----SPYLEKNNSECQSNVKYRLVAVIVHYGSADSGHYVAYVRDSDDGKWYKFDDSRVTEVSWEEVIKSS----- 260 (269)
T ss_dssp SEEEG----GGGBSSCCCTHTSSSEEEEEEEEEEESSTTSEEEEEEEEETTTTEEEEEETTEEEEESHHHHCCGG-----
T ss_pred hhhhh----hhhhccccccccccceeeehhhhccccccccceEEEeeccccCCeEEEeeCCceEECCHHHHhhcc-----
Confidence 79999 777665432 12467999999999999999999999999976667999999999999999996432
Q ss_pred CCCCCCCCCCCCCcccCCCCcEEEEEE
Q 001242 492 ELPPTNPGFNNTPFKFTKYSNAYMLVY 518 (1116)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~AYmL~Y 518 (1116)
..+||||||
T Consensus 261 ------------------~~~~yll~Y 269 (269)
T PF00443_consen 261 ------------------NSTAYLLFY 269 (269)
T ss_dssp ------------------STCEEEEEE
T ss_pred ------------------CCceEEEeC
Confidence 259999999
No 26
>cd02673 Peptidase_C19Q 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=100.00 E-value=8.6e-40 Score=356.73 Aligned_cols=230 Identities=21% Similarity=0.308 Sum_probs=185.6
Q ss_pred cccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCcccccccc
Q 001242 199 LKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQH 278 (1116)
Q Consensus 199 L~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Qq 278 (1116)
|.|.||.||+||.+|+|..+... .+.|..+.||
T Consensus 2 ~~~~~~~~~~~~~~~~~~~i~~~-----------------------------------------------~~~F~~~~QQ 34 (245)
T cd02673 2 LVNTGNSCYFNSTMQALSSIGKI-----------------------------------------------NTEFDNDDQQ 34 (245)
T ss_pred ceecCCeeeehhHHHHHHHHhhh-----------------------------------------------hhhcCCCchh
Confidence 78999999999999998543211 1356778999
Q ss_pred cHHHHHHHHHHHHHHhhcCCc----------cccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC--CCHHH
Q 001242 279 DVQELNRVLCEKLEDKMKGTV----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC--RDVYA 346 (1116)
Q Consensus 279 Da~Efl~~Lld~Le~~~~~~~----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~--~sL~e 346 (1116)
||||||+.|||.|++++.... ......++|+|++.+.++|.+|++++.+.|+|++|+|+++.. ..+++
T Consensus 35 DAhEFL~~LLd~l~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~l~s~i~C~~C~~~s~~~e~~~~L~L~i~~~~~~~le~ 114 (245)
T cd02673 35 DAHEFLLTLLEAIDDIMQVNRTNVPPSNIEIKRLNPLEAFKYTIESSYVCIGCSFEENVSDVGNFLDVSMIDNKLDIDEL 114 (245)
T ss_pred hHHHHHHHHHHHHHHHHHhhcccCCCCcccccccCHhHheeeEEEeEEEecCCCCeeeeccccceeccccccCCcchHHH
Confidence 999999999999998774321 111234789999999999999999999999999999999874 56788
Q ss_pred HHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCC
Q 001242 347 SFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLS 426 (1116)
Q Consensus 347 ~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~ 426 (1116)
++..+...+.++ |.|+.|+.+.|.|+..|.++|+||+||||||.++.......|++ .+++ .+|..
T Consensus 115 l~~~~~~~~~~e----~~C~~C~~~~a~k~~~i~~~P~vL~i~lkRf~~~~~~~~~~~~~-------~~~~----~~~~~ 179 (245)
T cd02673 115 LISNFKTWSPIE----KDCSSCKCESAISSERIMTFPECLSINLKRYKLRIATSDYLKKN-------EEIM----KKYCG 179 (245)
T ss_pred HHHHhhcccccC----ccCCCCCCccceeechhhhCChhhEEeeEeeeeccccccccccc-------cccc----ccccC
Confidence 888888776664 89999998889999999999999999999998754322222222 3456 56653
Q ss_pred CCcCcCccccEEEEEEEEeecc-CCCceEEEEEecCC-CCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCC
Q 001242 427 PDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTL-SDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTP 504 (1116)
Q Consensus 427 ~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~-~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~ 504 (1116)
....|+|+|||+|.|+ .++|||+||+|... +++||+|||+.|+++++++|++.
T Consensus 180 ------~~~~Y~L~~VV~H~G~~~~~GHY~a~vk~~~~~~~Wy~fnD~~V~~v~~~~v~~~------------------- 234 (245)
T cd02673 180 ------TDAKYSLVAVICHLGESPYDGHYIAYTKELYNGSSWLYCSDDEIRPVSKNDVSTN------------------- 234 (245)
T ss_pred ------CCceEEEEEEEEECCCCCCCceEEEEEEcCCCCCeEEEeeCceeeEcCHHHHhhc-------------------
Confidence 3467999999999994 89999999999875 68999999999999999999732
Q ss_pred cccCCCCcEEEEEEE
Q 001242 505 FKFTKYSNAYMLVYI 519 (1116)
Q Consensus 505 ~~~~~~~~AYmL~Y~ 519 (1116)
..++||||||+
T Consensus 235 ----~~~~aYiLFY~ 245 (245)
T cd02673 235 ----ARSSGYLIFYD 245 (245)
T ss_pred ----cCCceEEEEEC
Confidence 12599999995
No 27
>KOG1868 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.6e-41 Score=398.15 Aligned_cols=303 Identities=27% Similarity=0.464 Sum_probs=246.4
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCC-----CCCCCCCCHHHHHHHHHHHHhcC--Ccccccch
Q 001242 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT-----ENDLPSGSIPLALQSLFYKLQYN--DTSVATKE 262 (1116)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~-----~~~~~~~~~~~~Lq~Lf~~l~~s--~~~v~~~~ 262 (1116)
.....|.+||.|+|||||||++||||+.++.||..++..... ........+..+...++..++.. ..++.|..
T Consensus 295 ~~~~~~~~GL~NlGntC~mn~ilQCl~~t~~lr~~~L~~~~~~~i~~~~~~~~~~l~~~~~~~l~~~~~~~~~~s~~P~~ 374 (653)
T KOG1868|consen 295 STDVFGCPGLRNLGNTCFMNSILQCLFSTGELRDNFLSIKLPQFINLDLFFGAEELESACAKLLQKLWHGHGQFSVLPRR 374 (653)
T ss_pred cccccCCceeccCCcchHHHHHHHHHhhccccchhhhhHHHHHHcccCCcccchhHHHHHHHhhhhhccCCCceecCcHH
Confidence 345677899999999999999999999999999655543110 12223345667777777777765 45678999
Q ss_pred hhhhcc--cCcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------------cccccc
Q 001242 263 LTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------------VEGTIQ 305 (1116)
Q Consensus 263 l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------------~~~~i~ 305 (1116)
|...++ ...+.+..|||+|||+..+++.|++++.... ..+.|.
T Consensus 375 f~~~~~~y~~~~~~~~Qqd~qEfl~~lld~Lhe~ln~~~~~~~~~p~~~~~~~~~~~~~~s~~s~~~w~~~~~~~d~~i~ 454 (653)
T KOG1868|consen 375 FIRVLKRYSPNFSGYSQQDAQEFLIFLLDRLHEELNENTRPLKLSPLMGSYLLSELELSDSKKSLAEWLRYLEEEDSKIG 454 (653)
T ss_pred HHHHHhhcccccccccccchHHHHHHHHHhhhHhhhccCCCCccCccccccccccccccccchhHHHHHhhccccchHHH
Confidence 998887 3566667899999999999999999886421 123478
Q ss_pred cccceEEeeeEEeeceeeecceeeeeeeeeeeccCC------CCHHHHHhhcceeEEecCCCcccccccCceeee---ee
Q 001242 306 QLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC------RDVYASFDKYVEVERLEGDNKYHAEEHGLQDAK---KG 376 (1116)
Q Consensus 306 ~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~------~sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~---k~ 376 (1116)
++|.|++++.++|..|++.+.++++|++++|+|+.. .+|++|+..|+..|.++|++.|.|+.|++..+. |+
T Consensus 455 ~lf~gQ~ks~Lkc~~cg~~s~t~~~f~~lslpIp~~~~~~~~~~L~~C~~~ft~~ekle~~~~w~Cp~c~~~~~~~~lK~ 534 (653)
T KOG1868|consen 455 DLFVGQLKSYLKCQACGYTSTTFETFTDLSLPIPKKGFAGGKVSLEDCLSLFTKEEKLEGDEAWLCPRCKHKESSKTLKK 534 (653)
T ss_pred HHHHHHHHhheehhhcCCcceeeecceeeEEecccccccccccchHhhhccccchhhcccccccCCccccCcccccccce
Confidence 999999999999999999999999999999999642 349999999999999999999999999865544 89
Q ss_pred eEeecCCCeEEEEEeeEEeecccCeeeeccceEecCcc-ccCCcccCCCCCCCcCcCccccEEEEEEEEeeccCCCceEE
Q 001242 377 VLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYY 455 (1116)
Q Consensus 377 ~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ 455 (1116)
..|.+||++|++||+||.+|. +...|...-++||.. .++ .++..... .....|+|+|||+|.|+.++|||+
T Consensus 535 ~~i~~lp~iLiihL~Rf~~~~--~~~~k~~~~v~~~~~~~~~----~~~~~~~~--~~~~~Y~L~aVv~H~Gtl~sGHYt 606 (653)
T KOG1868|consen 535 LTILRLPKILIIHLKRFSSDG--NSFNKLSTGVDFPLREADL----SPRFAEKG--NNPKSYRLYAVVNHSGTLNSGHYT 606 (653)
T ss_pred eeeecCCHHHHHHHHHhccCc--ccccccceeeccchHhhhh----chhccccC--CCccceeeEEEEeccCcccCCceE
Confidence 999999999999999999874 567899999999986 555 44444332 234569999999999999999999
Q ss_pred EEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecCccc
Q 001242 456 AFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESDKDK 526 (1116)
Q Consensus 456 ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~~~~~ 526 (1116)
||++....+.|+.|||+.|+.++..++ .++.||||||.|.+..++
T Consensus 607 a~~~~~~~~~W~~fdDs~Vs~~~~~~~--------------------------~~s~aYIlFY~~~~~~~~ 651 (653)
T KOG1868|consen 607 AYVYKNEKQRWFTFDDSEVSPISETDV--------------------------GSSSAYILFYERLGIFEE 651 (653)
T ss_pred EEEeecCCCceEEecCeeeeccccccc--------------------------cCCCceEEEeecCCcccc
Confidence 999987788999999999997765444 135899999999876544
No 28
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-39 Score=369.28 Aligned_cols=221 Identities=24% Similarity=0.368 Sum_probs=190.0
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcCC-----------c
Q 001242 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYND-----------T 256 (1116)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~---~~~~~~~~~~~~~Lq~Lf~~l~~s~-----------~ 256 (1116)
...+||+||+|+||+||||||+|+|+.+|.|......... .....|.+++-++|.+|...|..+. .
T Consensus 302 ~~gpgytGl~NlGNSCYlnSVmQ~Lf~i~~fq~~~~~~~~~f~~~~~~P~ndf~cQ~~Kl~~gm~sgkys~p~~~~~~qn 381 (763)
T KOG0944|consen 302 LFGPGYTGLINLGNSCYLNSVMQSLFSIPSFQRRYLEQERIFNCYPKDPTNDFNCQLAKLLHGMLSGKYSKPLMDPSNQN 381 (763)
T ss_pred ccCCCccceeecCcchhHHHHHHHheecccHHHhhccccceeecCCCCcchhHHHHHHHHHHHhhcCcccCccCCccccC
Confidence 3467899999999999999999999999999877654422 1235567899999999999998742 2
Q ss_pred ccccchhhhhcc--cCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeee
Q 001242 257 SVATKELTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDL 334 (1116)
Q Consensus 257 ~v~~~~l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L 334 (1116)
.|+|..|...++ .+.|..+.||||+||+++||+.|++...... ..+.++|...+...+.|..|...+.+.++-+.|
T Consensus 382 gIsP~mFK~~igknHpeFst~~QQDA~EFllfLl~ki~~n~rs~~--~nptd~frF~ve~Rv~C~~c~kVrYs~~~~~~i 459 (763)
T KOG0944|consen 382 GISPLMFKALIGKNHPEFSTNRQQDAQEFLLFLLEKIRENSRSSL--PNPTDLFRFEVEDRVSCLGCRKVRYSYESEYLI 459 (763)
T ss_pred CcCHHHHHHHHcCCCccccchhhhhHHHHHHHHHHHHhhcccccC--CCHHHHHHhhhhhhhhhhccccccccchhheee
Confidence 567777777775 4679999999999999999999998665442 578899999999999999999999999999999
Q ss_pred eeeccCC------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccc
Q 001242 335 QLDVKGC------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKIND 407 (1116)
Q Consensus 335 ~L~v~~~------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~ 407 (1116)
+|+|+.. .++.+||+.|+.+.+.+ |.|..|| +..|.|+..|.+||++|+||.+||.| .....+|+..
T Consensus 460 ~lpv~~~~~v~~~v~~~~cleaff~pq~~d----f~s~ac~~K~~a~kt~~~ksfP~yLiiqv~rf~~--~dw~pkKld~ 533 (763)
T KOG0944|consen 460 QLPVPMTNEVREKVPISACLEAFFEPQVDD----FWSTACGEKKGATKTTRFKSFPDYLIIQVGRFTL--QDWVPKKLDV 533 (763)
T ss_pred EeeccccccccccCCHHHHHHHhcCCcchh----hhhHhhcCccccccccccccCCceEEEEeeEEEe--cCceeeeecc
Confidence 9999853 38999999999995444 8888887 88999999999999999999999999 5778999999
Q ss_pred eEecCccccCCc
Q 001242 408 RYEFPLQLDLDR 419 (1116)
Q Consensus 408 ~v~fP~~Ldl~~ 419 (1116)
.++.|++||++.
T Consensus 534 ~iempe~ldls~ 545 (763)
T KOG0944|consen 534 SIEMPEELDLSS 545 (763)
T ss_pred ceecchhhchhh
Confidence 999999999964
No 29
>cd02257 Peptidase_C19 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse 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=100.00 E-value=2.7e-37 Score=337.57 Aligned_cols=235 Identities=35% Similarity=0.590 Sum_probs=200.9
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCccccccc
Q 001242 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1116)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1116)
||.|.|||||+||+||+|++ .|
T Consensus 1 Gl~N~~n~Cy~ns~lq~l~~----------------------------------------------------------~q 22 (255)
T cd02257 1 GLNNLGNTCYLNSVLQALFS----------------------------------------------------------EQ 22 (255)
T ss_pred CccccCcchHHhHHHHHHHH----------------------------------------------------------HH
Confidence 89999999999999999999 69
Q ss_pred ccHHHHHHHHHHHHHHhhcC--------CccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccC----CCCHH
Q 001242 278 HDVQELNRVLCEKLEDKMKG--------TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKG----CRDVY 345 (1116)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~--------~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~----~~sL~ 345 (1116)
|||+||+..+++.|+.++.. ....+.+.++|.|.+.+.+.|..|+..+.....+..++|+++. ..+|+
T Consensus 23 ~Da~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~~~~~~~~~c~~c~~~~~~~~~~~~l~l~~~~~~~~~~~l~ 102 (255)
T cd02257 23 QDAHEFLLFLLDKLHEELKKSSKRTSDSSSLKSLIHDLFGGKLESTIVCLECGHESVSTEPELFLSLPLPVKGLPQVSLE 102 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccCCchhhhhcccEEeeEEECCCCCCCccCcccceeEEeeccCCCCCCCcHH
Confidence 99999999999999998876 3346789999999999999999998887777777777777765 47999
Q ss_pred HHHhhcceeEEecCCCcccccccC---ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccC
Q 001242 346 ASFDKYVEVERLEGDNKYHAEEHG---LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENG 422 (1116)
Q Consensus 346 e~L~~~~~~E~l~g~n~y~C~~c~---~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~ 422 (1116)
++|+.++..|.+++. .|..|+ .+.+.++..|.++|++|+|+|+||.++.. ....|++..+.||.++++ .
T Consensus 103 ~~l~~~~~~e~~~~~---~~~~c~~~~~~~~~~~~~i~~lP~~L~i~l~R~~~~~~-~~~~k~~~~v~~~~~l~~----~ 174 (255)
T cd02257 103 DCLEKFFKEEILEGD---NCYKCEKKKKQEATKRLKIKKLPPVLIIHLKRFSFNED-GTKEKLNTKVSFPLELDL----S 174 (255)
T ss_pred HHHHHhhhhhccCCC---CcccCCCCcccceeEEEecccCCceeEEEeeceeeccc-cccccCCCeEeCCCcccC----c
Confidence 999999999999884 455554 78899999999999999999999998753 567899999999999999 5
Q ss_pred CCCCC----CcCcCccccEEEEEEEEeeccC-CCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCC
Q 001242 423 KYLSP----DADRSVRNLYTLHSVLVHSGGV-HGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTN 497 (1116)
Q Consensus 423 ~~l~~----~~~~~~~~~Y~L~gVVvH~Gs~-~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~ 497 (1116)
.++.. .........|+|+|||+|.|+. ++|||+||+|...+++||+|||+.|++++.++++.. +
T Consensus 175 ~~~~~~~~~~~~~~~~~~Y~L~~vi~h~G~~~~~GHY~~~~~~~~~~~W~~~nD~~V~~v~~~~~~~~--~--------- 243 (255)
T cd02257 175 PYLSEGEKDSDSDNGSYKYELVAVVVHSGTSADSGHYVAYVKDPSDGKWYKFNDDKVTEVSEEEVLEF--G--------- 243 (255)
T ss_pred cccccccccccccCCCccEEEEEEEEEecCCCCCcCeEEEEeCCCCCceEEEeccccEEcCHHHhhhc--c---------
Confidence 66532 2334457899999999999965 999999999997569999999999999999998642 1
Q ss_pred CCCCCCCcccCCCCcEEEEEEE
Q 001242 498 PGFNNTPFKFTKYSNAYMLVYI 519 (1116)
Q Consensus 498 ~~~~~~~~~~~~~~~AYmL~Y~ 519 (1116)
....+||||||+
T Consensus 244 ----------~~~~~~yll~Y~ 255 (255)
T cd02257 244 ----------SLSSSAYILFYE 255 (255)
T ss_pred ----------CCCCceEEEEEC
Confidence 123599999995
No 30
>KOG1867 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1e-37 Score=366.34 Aligned_cols=298 Identities=31% Similarity=0.482 Sum_probs=253.3
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCC-CCCCC-CCCHHHHHHHHHHHHhcCC--cccccchhhhhc
Q 001242 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT-ENDLP-SGSIPLALQSLFYKLQYND--TSVATKELTKSF 267 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~-~~~~~-~~~~~~~Lq~Lf~~l~~s~--~~v~~~~l~~s~ 267 (1116)
-..+++||.|+|+||+||++||+|.+.+..+...+..... +...+ ..++.+++.++|..++... .+++|..+....
T Consensus 157 ~~~~l~g~~n~g~tcfmn~ilqsl~~~~~~~~~~l~~~h~~~~~~~~~~~l~~~~~~~~~~~~s~~~~~~~sp~~~l~~~ 236 (492)
T KOG1867|consen 157 TALGLRGLRNLGSTCFMNVILQSLLHDPLSRSSFLSGIHSKEPSSSGSSCLVCDLDRLFQALYSGHNRTPYSPFELLNLV 236 (492)
T ss_pred eeecccccccccHHHHHHHHHHHhhccchhhccchhhhcccCCCCCCCcchhhhhhhhhhHhhcCCCCCCcChHHHHHHH
Confidence 4567899999999999999999999988887766543322 23333 5789999999999999854 667777766554
Q ss_pred c--cCcccccccccHHHHHHHHHHHHHHhhc--------CC---ccccccccccceEEeeeEEeeceeeecceeeeeeee
Q 001242 268 G--WDTYDSFMQHDVQELNRVLCEKLEDKMK--------GT---VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDL 334 (1116)
Q Consensus 268 ~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~--------~~---~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L 334 (1116)
- -+.+.++.|||++||+..+++.++...+ .. ...+++...|.|.+.+.+.|..|+..|...++|++|
T Consensus 237 ~k~~~~~~g~~Qqda~eF~~~~~~~~~~~~~~~~k~~~~~~~~~~c~~iv~~~F~G~L~~~v~c~~c~~~S~~~dpf~di 316 (492)
T KOG1867|consen 237 WKHSPNLAGYEQQDAHEFLIALLDRLHREKDDCGKSLIASQSNKQCPCIVHTIFSGTLQSDVTCQTCGSKSTTYDPFMDI 316 (492)
T ss_pred HHhCcccccccccchHHHHHHhcccccccccccccccccccCCcccccccceeecceeccceeehhhcceeeeccCccce
Confidence 2 2456679999999999999999998871 11 126789999999999999999999999999999999
Q ss_pred eeeccCC----------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeee
Q 001242 335 QLDVKGC----------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMV 403 (1116)
Q Consensus 335 ~L~v~~~----------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~ 403 (1116)
+|+++.. .++.+++..+...+.+....++.|..|+ ++.+.|+..+.++|.+|.+||+||++.......
T Consensus 317 sL~i~~~~~~~~~~~~~~~~~~cl~~~~~~~~~~~~~~~~c~~c~~~~~~~kql~~~~lP~~l~~~lkRfe~~~~~~~~- 395 (492)
T KOG1867|consen 317 SLDIPDQFTSSSVRSPELTLLDCLDRFTRSEQLGKDSKYKCSSCKSKQESTKQLTIRKLPAVLCLHLKRFEHSATGARE- 395 (492)
T ss_pred eeecchhccCcccccchhhhhhhhhhhhhhhhcCcccccccCCcccccccccccccccCCceeeeeecccccccccccc-
Confidence 9999743 4699999999999998889999999998 789999999999999999999999987655444
Q ss_pred eccceEecCccccCCcccCCCCCCCcC---cCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechH
Q 001242 404 KINDRYEFPLQLDLDRENGKYLSPDAD---RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVK 480 (1116)
Q Consensus 404 Ki~~~v~fP~~Ldl~~~~~~~l~~~~~---~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~ 480 (1116)
|+++.+.||..|+| .+|+..+.. ...+..|+|.|||+|+|+.++|||+||.|. .+.|++|||+.|+.++.+
T Consensus 396 ki~~~v~fp~~l~m----~p~~~~~~~~~~~~~~~~Y~L~AVV~H~G~~~SGHY~aY~r~--~~~~~~~dDs~v~~~s~~ 469 (492)
T KOG1867|consen 396 KIDSYVSFPVLLNM----KPYCSSEKLKSQDNPDHLYELRAVVVHHGTVGSGHYVAYRRQ--SGGWFKCDDSTVTKVSEE 469 (492)
T ss_pred ccCcccccchhhcC----CccccccccccCCCCCceEEEEEEEEeccCCCCCceEEEEEe--CCCcEEEcCeEEEEeeHH
Confidence 99999999999999 788775322 235689999999999999999999999999 699999999999999999
Q ss_pred hHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001242 481 RALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1116)
Q Consensus 481 ~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~ 522 (1116)
+|+. ..||+|||.+..
T Consensus 470 eVl~--------------------------~~aylLFY~~~~ 485 (492)
T KOG1867|consen 470 EVLS--------------------------SQAYLLFYTQEQ 485 (492)
T ss_pred Hhhh--------------------------chhhheehhHHh
Confidence 9974 489999998764
No 31
>cd02672 Peptidase_C19P 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=100.00 E-value=8.2e-36 Score=329.75 Aligned_cols=236 Identities=20% Similarity=0.263 Sum_probs=193.0
Q ss_pred cccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhh
Q 001242 186 WSYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTK 265 (1116)
Q Consensus 186 ~~~~s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~ 265 (1116)
+.++....|+++||.|.|.|||+||+||+|+++|+||+++.+.. ..+....|++++|+.||..
T Consensus 5 fdf~~~n~t~~~gl~~~~~~~y~n~~lq~~~~~~~~~~~~~~~~--~~~~~~~~l~~el~~lfs~--------------- 67 (268)
T cd02672 5 FDFEFYNKTNYAGLENHITNSYCNSLLQLLYFIPPFRNFTAIIL--VACPKESCLLCELGYLFST--------------- 67 (268)
T ss_pred ccccccccccccccccCCccchHHHHHHHHHhcHHHHHHHHhhc--ccCCcCccHHHHHHHHHHH---------------
Confidence 45666778999999999999999999999999999999855544 3455568999999999910
Q ss_pred hcccCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccC-----
Q 001242 266 SFGWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKG----- 340 (1116)
Q Consensus 266 s~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~----- 340 (1116)
=+|-|.++|++.+..+..++. ..|++.+.+.++|++|+|+++.
T Consensus 68 -------------~iq~F~~fll~~i~~~~~~~~-------------------~~C~~~s~~~~~~~~LsLpip~~~~~~ 115 (268)
T cd02672 68 -------------LIQNFTRFLLETISQDQLGTP-------------------FSCGTSRNSVSLLYTLSLPLGSTKTSK 115 (268)
T ss_pred -------------HHHHHHHHHHHHHHHHhcccC-------------------CCCCceeeccccceeeeeecCcccccc
Confidence 135588889998876543321 5789999999999999999985
Q ss_pred CCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCC----eEEEEEeeEEeeccc-----CeeeeccceEe
Q 001242 341 CRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPP----VLQLQLKRFEYDFMR-----DAMVKINDRYE 410 (1116)
Q Consensus 341 ~~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~----vL~i~LkRF~~d~~~-----~~~~Ki~~~v~ 410 (1116)
..+|.++|+.+++.|.. +++.|+.|+ ++.|.|+..|.++|+ ||+||||||.++... ....|++..+.
T Consensus 116 ~~sl~~cL~~~~~~E~~---~~~~C~~C~~~~~a~k~~~i~~lP~~L~~VL~i~lkrf~~~~~~~~~~~~~~~~~~~~v~ 192 (268)
T cd02672 116 ESTFLQLLKRSLDLEKV---TKAWCDTCCKYQPLEQTTSIRHLPDILLLVLVINLSVTNGEFDDINVVLPSGKVMQNKVS 192 (268)
T ss_pred CCCHHHHHHHHhhhhhc---ccccccccCcccccEEEEEeecCCCcccceEEEEEeccChhhcccCcceeEEEecCCeec
Confidence 35999999999998854 568999997 789999999999999 999999999865422 23578889999
Q ss_pred cCccccCCcccCCCCCCCcCcCccccEEEEEEEEeecc-CCCceEEEEEecCC----CCCEEEEeCceeeEech
Q 001242 411 FPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTL----SDQWYKFDDERVTKEDV 479 (1116)
Q Consensus 411 fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~----~~~W~~fnD~~Vt~v~~ 479 (1116)
||..+++ ..+.... ......|+|+|||+|.|+ .++|||+||||... +++||.|||..|++++.
T Consensus 193 f~~~~~~----~~~~~~~--~~~~~~Y~L~gvV~hig~~~~~GHyva~vk~~~~~~~~~~WylFND~~V~~vs~ 260 (268)
T cd02672 193 PKAIDHD----KLVKNRG--QESIYKYELVGYVCEINDSSRGQHNVVFVIKVNEESTHGRWYLFNDFLVTPVSE 260 (268)
T ss_pred ccccccc----hhhhccC--CCCCceEEEEEEEEEecCCCCCCcEEEEEEccCCCCCCCcEEEecCeEEEEcCc
Confidence 9998877 4444332 234578999999999996 48999999999854 57999999999999864
No 32
>KOG1873 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3e-36 Score=347.11 Aligned_cols=147 Identities=37% Similarity=0.565 Sum_probs=124.5
Q ss_pred HHHHHhhcceeEEecCCCcccccccCc------e----------------------eeeeeeEeecCCCeEEEEEeeEEe
Q 001242 344 VYASFDKYVEVERLEGDNKYHAEEHGL------Q----------------------DAKKGVLFIDFPPVLQLQLKRFEY 395 (1116)
Q Consensus 344 L~e~L~~~~~~E~l~g~n~y~C~~c~~------~----------------------~a~k~~~i~~lP~vL~i~LkRF~~ 395 (1116)
++.||.+|+..|.|.|+|+|.|+.|.+ . -|+|.+.|..+||||+||||||.-
T Consensus 680 vq~CL~nFT~~E~Ls~~N~~~CEnCtk~~n~~~r~k~~~n~~~sk~s~~es~~~~t~akk~~li~~aPpVltihlKrf~q 759 (877)
T KOG1873|consen 680 VQRCLKNFTKVEILSGDNKWACENCTKNLNLQRREKRGLNEDNSKYSFNESEYRNTYAKKKVLINKAPPVLTIHLKRFFQ 759 (877)
T ss_pred HHHHHHhhhhhhhcccccchhhhhhhccccccchhhccCCCCcccccccchhhhhhhhheeeecccCCceeeehHhhhhh
Confidence 889999999999999999999999854 1 146778899999999999999987
Q ss_pred ecccCeeeeccceEecCccccCCcccCCCCCCC---cCcCccccEEEEEEEEeeccCCCceEEEEEecC-----------
Q 001242 396 DFMRDAMVKINDRYEFPLQLDLDRENGKYLSPD---ADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPT----------- 461 (1116)
Q Consensus 396 d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~---~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~----------- 461 (1116)
+. .+...|.++.+.|++.+|| .+|+... .+......|+|+|||.|+|++++|||+||+|..
T Consensus 760 ~~-~~~~~k~~~h~~f~E~~dL----~~~~~~rc~~l~~~~s~~Yrl~gvvehsgtm~~ghyvayv~~~t~~~~~~~~~~ 834 (877)
T KOG1873|consen 760 DI-RGRLSKLNKHVDFKEFEDL----LDYMDFRCSHLDEPSSFVYRLAGVVEHSGTMSYGHYVAYVRGGTFLDLSAPSNS 834 (877)
T ss_pred hh-hchhhcccccchHHHHHHH----HHHhhhhccccCCcchhhhhhccceeccccccCCcchhhhhccchhhccCcccc
Confidence 64 4558999999999999999 5554422 122246799999999999999999999999932
Q ss_pred ---------CCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001242 462 ---------LSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1116)
Q Consensus 462 ---------~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~ 521 (1116)
..++||...|..|.++++++|+. ..||||||+|.
T Consensus 835 ~~~~sd~~~~~~~Wy~iSDs~VrevS~d~vLk--------------------------seAYlLFYERI 877 (877)
T KOG1873|consen 835 KDFESDAGIPSGRWYYISDSIVREVSLDEVLK--------------------------SEAYLLFYERI 877 (877)
T ss_pred ccchhccCCCCcceEEecchheecccHHHHhh--------------------------hhhhhhheecC
Confidence 25699999999999999999985 38999999983
No 33
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.2e-34 Score=315.53 Aligned_cols=217 Identities=21% Similarity=0.321 Sum_probs=180.2
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcCC-----cccccchhhhhc
Q 001242 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYND-----TSVATKELTKSF 267 (1116)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~---~~~~~~~~~~~~~Lq~Lf~~l~~s~-----~~v~~~~l~~s~ 267 (1116)
++||.|+||+||+||++|+|+....+...+..+.. .....|..++.|+|.+|...|.... ..++|..|...+
T Consensus 303 ~~GliNlGNsCYl~SviqSlv~~~v~~~~~d~l~~~~~~~~~~P~~~l~CQl~kll~~mk~~p~~~y~ngi~p~~fk~~i 382 (749)
T COG5207 303 YVGLINLGNSCYLSSVIQSLVGYAVSKEEFDLLQHFEICYMKNPLECLFCQLMKLLSKMKETPDNEYVNGISPLDFKMLI 382 (749)
T ss_pred ccceEecCCeeeHHHHHHHHhccccchhhhhhhccceeeeecCCchhHHHHHHHHHhhccCCCCccccCCcChhhHHHHH
Confidence 79999999999999999999998877654432221 1234566899999999999887643 357788888888
Q ss_pred c--cCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeeeeccCC---C
Q 001242 268 G--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC---R 342 (1116)
Q Consensus 268 ~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~---~ 342 (1116)
| ...|..+.||||+||+.+||+.|.+.... .....|.++|...+...+.|..|+..+...++...+++...+. .
T Consensus 383 gq~h~eFg~~~QQDA~EFLlfLL~kirk~~~S-~~~~~It~lf~Fe~e~rlsC~~C~~v~ySye~~~~i~i~le~n~E~~ 461 (749)
T COG5207 383 GQDHPEFGKFAQQDAHEFLLFLLEKIRKGERS-YLIPPITSLFEFEVERRLSCSGCMDVSYSYESMLMICIFLEGNDEPQ 461 (749)
T ss_pred cCCchhhhhhhhhhHHHHHHHHHHHHhhccch-hcCCCcchhhhhhhcceecccccccccccccceEEEEeecccCcchh
Confidence 6 45789999999999999999999875443 3456788999999999999999999999999999999998765 4
Q ss_pred CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCcc--ccCCc
Q 001242 343 DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ--LDLDR 419 (1116)
Q Consensus 343 sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~--Ldl~~ 419 (1116)
++.++++.|+.+.+++ |.|+.|+ +..|.+..-|++||++|++|..||.+ +.....|+...+..... +++++
T Consensus 462 di~~~v~a~f~pdtiE----~~CenCk~K~~a~~k~~~kslPk~LIlq~~R~~l--qny~v~kls~pi~~~~D~m~~~~s 535 (749)
T COG5207 462 DIRKSVEAFFLPDTIE----WSCENCKGKKKASRKPFIKSLPKYLILQVGRYSL--QNYKVEKLSDPIEMRSDDMIKLGS 535 (749)
T ss_pred hHHHHHHheECcccee----eehhhhcCcccccccchhhccCceeEEecceeec--cceeehhccCceEEccccccchhh
Confidence 7999999999999998 9999996 88899999999999999999999986 45567788777776653 56543
No 34
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=6e-32 Score=339.56 Aligned_cols=297 Identities=29% Similarity=0.465 Sum_probs=253.1
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccC------CCCCCCCCCCCHHHHHHHHHHHHhcCCc-ccccch
Q 001242 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHM------PTTENDLPSGSIPLALQSLFYKLQYNDT-SVATKE 262 (1116)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~------~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~-~v~~~~ 262 (1116)
.....|.+||.|+||||||||.+|+|.+++.++++++.. ...........+..+...+..+++.... ++.+..
T Consensus 240 ~~~~~g~~Gl~nlGntcfmns~~q~l~~~~~l~e~f~~~~~~~ein~~n~~~~~~~~~~~~~~l~~~~~s~~~~~v~~~~ 319 (842)
T KOG1870|consen 240 SPSERGETGLSNLGNTCFMNSALQCLSNTPELLEYFLSDLYDREINESNPLGSAGEVASSFADLIKQLWSGNKSAVAPTS 319 (842)
T ss_pred CCCcccccccccCCccccchhhhhhhccCcchhHHHHhHhhHhhhcccCCCcccceechhhhhHHHHhccCCccccCchh
Confidence 456789999999999999999999999999999888632 2222333446778888889999988765 577776
Q ss_pred hhhhccc--CcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------cccccccccceE
Q 001242 263 LTKSFGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------VEGTIQQLFEGH 311 (1116)
Q Consensus 263 l~~s~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------~~~~i~~lF~g~ 311 (1116)
+...++. ..+.++.|||.+||+-+|+|.|++.+.... ..+.|.++|.|.
T Consensus 320 ~~~~~~~~a~~~~g~~q~d~~E~lafllDglhedl~~~~~kpy~~~~d~~~rp~~~~~~~~~~~~~~~~~s~i~d~~~~~ 399 (842)
T KOG1870|consen 320 FRTSLASFASEFSGYGQQDSQELLAFLLDGLHEDLNRVSSKPYVEGKDSDLRPDQEVAAEVWDYHLKRNRSVIVDLFDGT 399 (842)
T ss_pred hhhhhhhccccccCcccccchhhhhHHhhhhhHHhhccCCcCcccccccccchhhhhhHHHHHhhhhhccceeeeeecce
Confidence 6666653 358899999999999999999999875321 235799999999
Q ss_pred EeeeEEeeceeeecceeeeeeeeeeeccCCCC------------------------------------------------
Q 001242 312 HMNYIECINVDYKSTRKESFYDLQLDVKGCRD------------------------------------------------ 343 (1116)
Q Consensus 312 ~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~s------------------------------------------------ 343 (1116)
.++...|..|+..+.++++|..|+|+++....
T Consensus 400 ~~S~~~c~~C~~~svt~d~f~~Lslp~p~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~l~ 479 (842)
T KOG1870|consen 400 YKSTLQCPTCGKVSVTFDPFGYLSLPLPGKEIQKLEVTVPHGDGFRKPGALGVSVAKNGRIRDLLEYLSRTVGLLSWELK 479 (842)
T ss_pred ecccccCccCCCceEEeeccccccccCCCCcccceeEEEecCCCCCChhheeeeccccchHHHHHHHHHHHhccchhhcc
Confidence 99999999999999999999999988863211
Q ss_pred --------------------------------------------------------------------------------
Q 001242 344 -------------------------------------------------------------------------------- 343 (1116)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1116)
T Consensus 480 ~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~p~~~~~~~ 559 (842)
T KOG1870|consen 480 PVEILFDCFNKIFAADELKLDSIYSDEELFDYELGVLKVQGSIYAIIVVRFRSRLPRSKGIRSHVSSKLFGLPLLVSVLS 559 (842)
T ss_pred cceeccchhhhhhccCccccccccCCcceEEeecccccccccceEEEEEeeccccccccCcccCCCccccCCcceeeccC
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 001242 344 -------------------------------------------------------------------------------- 343 (1116)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1116)
T Consensus 560 ~~~~t~~~l~~~~~~~~s~~~~~~~~~v~~~~~~~~~~~~~e~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 639 (842)
T KOG1870|consen 560 GAQSTEEDLLSVICHRTSRYSREPPLNVGYGVDDQSLKEVSEQSAESSSSVSRDPSEDDNSDQDLSLECLSEESALRFFQ 639 (842)
T ss_pred CCcccccchhhHHhhcccccCCcCccccccCCCcccccccccccccccccccCCChhHhccccccchhhccCcccccccc
Confidence
Q ss_pred ----------------------------------------------------------HHHHHhhcceeEEecCCCcccc
Q 001242 344 ----------------------------------------------------------VYASFDKYVEVERLEGDNKYHA 365 (1116)
Q Consensus 344 ----------------------------------------------------------L~e~L~~~~~~E~l~g~n~y~C 365 (1116)
|++|++.|+.+|.|..+++|.|
T Consensus 640 ~~~~~~~~~~~~~~~~~~~~~~w~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sL~~cl~~F~~~E~L~~~~~w~C 719 (842)
T KOG1870|consen 640 SLESRNKSDSEFEPGSTSIAVDWSPSAKYKYSSSLVSQPPEVEPRGASRSKGSPAPNSLESCLELFSEPETLGKDDRWYC 719 (842)
T ss_pred cccccccccccccCCCceeecccChhhccccccccccccccccccccccccCCCCcccHHHHHHhhcchhcCCccccccC
Confidence 9999999999999999999999
Q ss_pred cccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCcc-ccCCcccCCCCCCCcCcCccccEEEEEEE
Q 001242 366 EEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVL 443 (1116)
Q Consensus 366 ~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVV 443 (1116)
+.|. ++.|.|+..++++|++|+||||||.|. +....|+.+.++||.. ||+ ++|+.... ...|+|+||.
T Consensus 720 ~~Cke~~~A~Kk~~lwrlPeiLiihLKrF~~~--r~~~~k~~~~v~fPi~~ld~----s~~~~~~~----~~~Y~l~av~ 789 (842)
T KOG1870|consen 720 PQCKELRQATKKLDLWRLPEILIIHLKRFQYS--RESSSKVKTKVEFPLGSLDL----SEFVVNKE----QVLYDLYAVG 789 (842)
T ss_pred hHHHHHHHHhhhhhhhhCCceEEEEeecceee--chhhhhhCccccCCCcCCCc----chhhccCc----cceeeeeeee
Confidence 9996 789999999999999999999999996 4456899999999998 999 78876543 2899999999
Q ss_pred EeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001242 444 VHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1116)
Q Consensus 444 vH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~~ 522 (1116)
+|+|.+.+|||+||.|...+++||.|||+.|++++++++. +..||+|||+|++
T Consensus 790 nHyG~l~~GHYta~~k~~~~~~w~~fdDs~v~~~~~~~i~--------------------------t~~aY~Lfy~r~~ 842 (842)
T KOG1870|consen 790 NHYGQLSGGHYTAYAKNVGDGKWYLFDDSSVSEVDEDEID--------------------------TEAAYVLFYRRLD 842 (842)
T ss_pred cccCCcCCcchhhhhhcCCCCceEEeccccCCCCChhhcc--------------------------cccceEEEEEecC
Confidence 9999999999999999987999999999999999887763 2589999999974
No 35
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=99.97 E-value=4.2e-30 Score=290.57 Aligned_cols=266 Identities=25% Similarity=0.341 Sum_probs=226.8
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHh-cC-CcccccchhhhhcccC--cc
Q 001242 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQ-YN-DTSVATKELTKSFGWD--TY 272 (1116)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~-~s-~~~v~~~~l~~s~~~~--~~ 272 (1116)
+||.|.+++||+||+||+||++|++|+.+++.. ++....|++|+|.-||.+|. .+ ...+.+..+.++|++. ..
T Consensus 1 ~GlEn~~~nsY~NslLQ~l~f~~~~r~~~l~h~---~c~~e~cL~cELgfLf~ml~~~~~g~~cq~sNflr~l~~~~~a~ 77 (295)
T PF13423_consen 1 SGLENHIPNSYCNSLLQVLYFIPPLRNFLLSHL---ECPKEFCLLCELGFLFDMLDSKAKGINCQASNFLRALSWIPEAA 77 (295)
T ss_pred CCCcCCCCcchHHHHHHHHHhCHHHHHHHHhCc---CCCccccHHHHHHHHHHHhhhhcCCCcChHHHHHHHHhcCHHHH
Confidence 599999999999999999999999999998766 25667899999999999999 65 4567788899999865 34
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCCcc-------------ccccccccceEEeeeEEeeceeeecceeeeeeeeeeecc
Q 001242 273 DSFMQHDVQELNRVLCEKLEDKMKGTVV-------------EGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVK 339 (1116)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~~~-------------~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~ 339 (1116)
..+.|+|+++|+++|++.|+.++..... ...|.++|+......++|..|+.++.+.+....+.|..+
T Consensus 78 ~l~~~~~iq~~~~Fll~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~c~~c~~~~~~~~~~~~~~l~yp 157 (295)
T PF13423_consen 78 ALGLQQDIQSLNRFLLEQLSMELLTFKPDIFHTSENSSSSPESSISQLFGTSFETTIRCTSCGHESVKESSTLVLDLPYP 157 (295)
T ss_pred hcchhHHHHHHHHHHHHHHhHHHHhcCcccccccccccCCCcchHHHHhCcceeeeecccccCCeEEeecceeeeeccCC
Confidence 4556999999999999999998865443 567899999999999999999999999999988888886
Q ss_pred C---CCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccc
Q 001242 340 G---CRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQL 415 (1116)
Q Consensus 340 ~---~~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~L 415 (1116)
. ..++.+.|+.++..|...+ ..|+.|+ .+.+..+..|.++|+||.|.++|...+ .....|....+.+|..+
T Consensus 158 ~~~~~~tf~~~Le~sl~~e~~~~---a~C~~C~~~~~~~~~r~i~~LPpVL~In~~~~~~~--~~w~~~~~~~~~ip~~i 232 (295)
T PF13423_consen 158 PSNSNVTFSQVLEHSLNREQQTR---AWCEKCNKYQPTEQRRTIRSLPPVLSINLNRYSEE--EFWPKKNWLKIWIPPSI 232 (295)
T ss_pred CCCccchHHHHHHHHHhhccccc---ccccccccccceeeeeeccCCCcEEEEEccCCCcc--cccccccCCceecceee
Confidence 5 4589999999999888875 7899997 467777888999999999999999987 33478899999999999
Q ss_pred cCCcccCCCCCCCc-----CcCccccEEEEEEEEeec-cCCCceEEEEEecCC--CCCEEEEeCcee
Q 001242 416 DLDRENGKYLSPDA-----DRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL--SDQWYKFDDERV 474 (1116)
Q Consensus 416 dl~~~~~~~l~~~~-----~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~--~~~W~~fnD~~V 474 (1116)
++ ..++..+. ......+|+|.|+|+|.| +.++|||+|+||... +++||.|||-.|
T Consensus 233 ~~----~~~~~~~~~~~~~~~~~~~~Y~L~~~V~~i~~~~~~~HlVs~vrv~~~~~~~W~lFNDflV 295 (295)
T PF13423_consen 233 NL----PHFIADDSQSDLEGESGIFKYELRSMVCHIGDSIESGHLVSLVRVGPSDDSQWYLFNDFLV 295 (295)
T ss_pred ec----cccccccccccccCCCCceEEEEEEEEEEecCCCCCCceEEEEEcCCCCCCcEEEECcEeC
Confidence 99 55554432 245678999999999999 589999999999863 369999999765
No 36
>cd02670 Peptidase_C19N 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=99.97 E-value=1.2e-30 Score=281.73 Aligned_cols=184 Identities=22% Similarity=0.370 Sum_probs=145.1
Q ss_pred ccccCCc-ccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcccCcccccc
Q 001242 198 GLKNQGA-TCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFM 276 (1116)
Q Consensus 198 GL~N~Gn-TCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~ 276 (1116)
|..|.+| +|||-|+|=+||. .
T Consensus 1 g~~~~~~~~cy~d~~~~~~f~----------------------------------------------------------~ 22 (241)
T cd02670 1 GAQNHCNVSCYLDALLFAMFA----------------------------------------------------------E 22 (241)
T ss_pred CCccccCceeehHHHHHHHHH----------------------------------------------------------H
Confidence 7899999 9999999999987 5
Q ss_pred cccHHHHHHHHHHHHHHhhcCCccccccccccce-EEeeeEEeeceeeecceeeeeeeeeeecc---CCCCHHHHHhhcc
Q 001242 277 QHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEG-HHMNYIECINVDYKSTRKESFYDLQLDVK---GCRDVYASFDKYV 352 (1116)
Q Consensus 277 QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g-~~~~~i~C~~C~~~s~~~e~f~~L~L~v~---~~~sL~e~L~~~~ 352 (1116)
|||+.||+.+|++.|+.-+-. ..-++|.| +...... +.-.|.|+.|.++.. +..+|++||+.|+
T Consensus 23 q~D~~e~~~~l~~~~~~~~~~-----~~~~~~~~g~~~~~~~-------~~~~e~~l~l~ip~~~~~~~~tLedcLe~~~ 90 (241)
T cd02670 23 QQDPEEFFNFITDKLLMPLLE-----PKVDIIHGGKKDQDDD-------KLVNERLLQIPVPDDDDGGGITLEQCLEQYF 90 (241)
T ss_pred hcCHHHHHHHHHHHHhhhhhh-----HHHHHHhcCccccccc-------cccccceEEeecccCCCCCcCCHHHHHHHHh
Confidence 999999999999999864422 23345544 2221111 223466777777664 3469999999999
Q ss_pred eeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCc---
Q 001242 353 EVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA--- 429 (1116)
Q Consensus 353 ~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~--- 429 (1116)
+.|. |.++|++|+||||||.|+. +...|+++.|.||..||| .+|+.+..
T Consensus 91 ~~e~----------------------i~~lP~vLiIhLKRF~~~~--~~~~Kl~~~I~fP~~Ldl----~~~~~~~~~~~ 142 (241)
T cd02670 91 NNSV----------------------FAKAPSCLIICLKRYGKTE--GKAQKMFKKILIPDEIDI----PDFVADDPRAC 142 (241)
T ss_pred chhh----------------------hhhCCCeEEEEEEccccCC--CcceeCCcEECCCCcCCc----hhhcccccccc
Confidence 9775 7899999999999999975 567899999999999999 66654431
Q ss_pred -----------------CcCccccEEEEEEEEeec-cCCCceEEEEEecCC-----------CCCEEEEeCceeeEech
Q 001242 430 -----------------DRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL-----------SDQWYKFDDERVTKEDV 479 (1116)
Q Consensus 430 -----------------~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~-----------~~~W~~fnD~~Vt~v~~ 479 (1116)
.......|+|+|||+|+| +.++|||+||+|... ++.||+|||..|+.+..
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~Y~L~aVi~H~G~s~~sGHYva~vr~~~~~~~~~~~~~~~~~W~~FDD~~v~~~~~ 221 (241)
T cd02670 143 SKCQLECRVCYDDKDFSPTCGKFKLSLCSAVCHRGTSLETGHYVAFVRYGSYSLTETDNEAYNAQWVFFDDMADRDGVS 221 (241)
T ss_pred cccccccccccccccccCCCCCeEEEEEEEEEeCCCCCCCcCeEEEEECCcccccccccCCCCCeEEEecCcccccccc
Confidence 123457899999999999 589999999999875 37999999999887753
No 37
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=9.1e-31 Score=312.03 Aligned_cols=285 Identities=27% Similarity=0.430 Sum_probs=227.9
Q ss_pred CcccccccccCCcccchh--hHHHHHhcchhHHHHHccCCCCCCCC--CCCCHHHHHHHHHHHHhcC---Ccccccchhh
Q 001242 192 KETGYVGLKNQGATCYMN--SLLQTLYHIPYFRKAVYHMPTTENDL--PSGSIPLALQSLFYKLQYN---DTSVATKELT 264 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~N--SvLQ~L~~~p~fr~~l~~~~~~~~~~--~~~~~~~~Lq~Lf~~l~~s---~~~v~~~~l~ 264 (1116)
....+-|..|.+++|+.| ++.|.++.+..+|+..+...+..... ....+...+..+|...... ...+.+..+.
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~i~p~~~~ 307 (587)
T KOG1864|consen 228 ANERVFGTNNFSNTCCCNFQSVEEALYFCRPFREAVLLYLTSLKRSYIIKEELLTCLLDLFSSISSRKKLVGRISPTRFI 307 (587)
T ss_pred ccccccCccccCccccccchhhHHHHHhhhhhcccccchhhcccchhhhhHHHHHHhhhhccchhhhcccccccCcchhh
Confidence 335568999999999999 99999999999997776544321110 1122333444444433332 2345555555
Q ss_pred hhcc--cCcccccccccHHHHHHHHHHHHHHhhcCCc--------------------------------cccccccccce
Q 001242 265 KSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV--------------------------------VEGTIQQLFEG 310 (1116)
Q Consensus 265 ~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~--------------------------------~~~~i~~lF~g 310 (1116)
.-+. ...|..++||||+||+..+++.+++-..... ....+..+|.|
T Consensus 308 ~~~~~~~~~f~~~~qQda~eF~~~l~~~~~e~~~~~~~~~~~~~~~~~~~gn~~~~~~~~~~~~~~~~~~~~~v~~lf~g 387 (587)
T KOG1864|consen 308 SDLIKENELFTNGMQQDAHEFLNFLLNEISETLERESSGTTTKVSPKESDGNSSTSAASWTNKGHHKSLRENWVSKLFQG 387 (587)
T ss_pred hhhhhcCCccCchhhccHHHHhhhhccchhhhhhhhccCCcccccccCCCCccccccccccccccccccchhHHHHhhcC
Confidence 4443 3568889999999999999999876542110 23568899999
Q ss_pred EEeeeEEeeceeeecceeeeeeeeeeecc--CCCCHHHHHhhcceeEEecCCCccccccc-CceeeeeeeEeecCCCeEE
Q 001242 311 HHMNYIECINVDYKSTRKESFYDLQLDVK--GCRDVYASFDKYVEVERLEGDNKYHAEEH-GLQDAKKGVLFIDFPPVLQ 387 (1116)
Q Consensus 311 ~~~~~i~C~~C~~~s~~~e~f~~L~L~v~--~~~sL~e~L~~~~~~E~l~g~n~y~C~~c-~~~~a~k~~~i~~lP~vL~ 387 (1116)
++...++|.+|+..+.+.+.|.|+++++. ...++..+++.|..+|.+.|+|+|.|++| +.|+|.+.+.++++|.+|+
T Consensus 388 ~l~~et~Clsc~t~T~~de~f~D~~~~v~~de~~si~~~l~~~~~~e~l~g~nky~c~~c~s~qeae~~l~~k~lp~~L~ 467 (587)
T KOG1864|consen 388 ILTNETRCLSCETITSRDEGFLDLSVAVEIDENTSITNLLKSFSSTETLSGENKYSCENCCSLQEAERRLKIKKLPYVLT 467 (587)
T ss_pred eeeeeeeeccccccccccccccccceeccccccccHHHHHHHhcchhhccCCCcccccccCchhhHHHhccccCCcceee
Confidence 99999999999999999999999999998 68999999999999999999999999887 5899999999999999999
Q ss_pred EEEeeEEeecccCeeeeccceEecCccccCCcccCCCCCCCcCcCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCE
Q 001242 388 LQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQW 466 (1116)
Q Consensus 388 i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W 466 (1116)
||||||.|+.......|+...+.+|.++.+ ...+.++ ......|.|+|||||.| +.+.|||+||+|.. +-.|
T Consensus 468 l~Lkrfk~~~~~~~~~kl~~~v~~plel~l----~~~~~~~--~~~~~~Y~L~avVvH~G~~p~~GHYia~~r~~-~~nW 540 (587)
T KOG1864|consen 468 LHLKRFKYSEQQNRYTKLLYRVVFPLELRL----KDTLKDD--NNPDRKYDLVAVVVHLGSTPNRGHYVAYVKSL-DFNW 540 (587)
T ss_pred eehhccccccccccccccccccccccceee----ccccccc--cCccceeeEEEEEEeccCCCCCcceEEEEeeC-CCCc
Confidence 999999999877778999999999999988 3333322 22247899999999999 79999999999995 3339
Q ss_pred EEEeCceeeEechHhHH
Q 001242 467 YKFDDERVTKEDVKRAL 483 (1116)
Q Consensus 467 ~~fnD~~Vt~v~~~~vl 483 (1116)
+.|||+.|..++.+.+.
T Consensus 541 l~fdD~~V~~~s~~~v~ 557 (587)
T KOG1864|consen 541 LLFDDDNVEPISEEPVS 557 (587)
T ss_pred eecccccccccCcchhh
Confidence 99999999999998884
No 38
>KOG1871 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.93 E-value=1.6e-26 Score=251.68 Aligned_cols=300 Identities=21% Similarity=0.326 Sum_probs=223.2
Q ss_pred cccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCC--CCCCCHHHHHHHHHHHHhcC--------------C---
Q 001242 195 GYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEND--LPSGSIPLALQSLFYKLQYN--------------D--- 255 (1116)
Q Consensus 195 g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~--~~~~~~~~~Lq~Lf~~l~~s--------------~--- 255 (1116)
-.+|+.|-||-|||||+||+|..|++|.+.+..++....- ..+..++.++..+......- .
T Consensus 27 ~Prg~ink~n~c~~ns~Lqal~~c~pfy~l~~~i~~~~~~~~~~stp~lda~~~~~~df~n~~~~k~~r~N~~~~~~~~~ 106 (420)
T KOG1871|consen 27 DPRGSINKCNICFMNSILQALLYCSPFYNLLELIKRADGTVKEGSTPLLDASRPASSDFNNDSDAKLPRKNSLRVPEHVV 106 (420)
T ss_pred CCccccccceeEeeHHHHHHHHhCccHHHHHHhhhhhcCceecccchhHHHHHHHHhhccccchhhhhhhccCCcccccc
Confidence 3489999999999999999999999999988776632111 11223444444443333210 0
Q ss_pred ------------cccccchhhhhc-c---cCcccccccccHHHHHHHHHHHHHHhhcCCc--------------------
Q 001242 256 ------------TSVATKELTKSF-G---WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV-------------------- 299 (1116)
Q Consensus 256 ------------~~v~~~~l~~s~-~---~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-------------------- 299 (1116)
.++-+..+...+ + ......+.|.||.||+..++|.|++++-...
T Consensus 107 ~~ses~~~d~~~dav~~d~~~~~l~t~~~~e~~~~g~qedAeefl~~~ld~lhee~~~v~~~~~~~n~e~t~~~~i~~~n 186 (420)
T KOG1871|consen 107 EKSESNKSDLQGDAVKPDPIYLDLLTMSRFESLQVGKQEDAEEFLLDNLDFLHEESSEVPTELVPPNDEFTPRGLINNGN 186 (420)
T ss_pred chhhhhhhcccCccccCCchhhhcccCCchhhccccccccHHHHHHHHHhhhhHHHHhhhhhhcCCcccccccccccccc
Confidence 111111111111 1 1234557899999999999999999873100
Q ss_pred -----------------------------------cccccccccceEEeeeEEeeceeeecceeeeeeeeeeec--cCCC
Q 001242 300 -----------------------------------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDV--KGCR 342 (1116)
Q Consensus 300 -----------------------------------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v--~~~~ 342 (1116)
..++|.++|+|++++...-.. .++|...+||..|+|++ .+..
T Consensus 187 ~~n~~s~~e~~~~~~~~~~~~gk~~k~~i~r~~~~~~spiS~ifgg~~rs~l~~~~-nkeS~tlqPF~tlqldiq~~~i~ 265 (420)
T KOG1871|consen 187 LCNLDSTEEAGLSESSGVQLLGKIQKTDIPRADSFVRSPISEIFGGQLRSVLYQPS-NKESATLQPFFTLQLDIQSEKIH 265 (420)
T ss_pred cccccchhhcccccCchhhhcCCcccCccCCCCCcccCcHHHhhccccccceeccc-cccccccCccceeeeeeeccccC
Confidence 235788999999999877654 45668899999999999 5677
Q ss_pred CHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccccCCccc-
Q 001242 343 DVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDREN- 421 (1116)
Q Consensus 343 sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~- 421 (1116)
+++++|+.+...|.+.+ |.-...+-..|.+++.+.+||++|++||+||.|-. ++...|+.+.+++|-.+.++..+
T Consensus 266 sv~~ales~~~re~lp~---~st~s~~eV~~s~q~~leklp~vlilhlkrF~ye~-tgg~~k~~K~i~~~~~l~i~~~~~ 341 (420)
T KOG1871|consen 266 SVQDALESLVARESLPG---YSTKSGQEVEASSQTTLEKLPPVLILHLKRFVYEK-TGGARKLGKKIEYPWTLKISKNCF 341 (420)
T ss_pred CHHHHhhccChhhcccc---eecCCCCeechhhhhhHhhcchhhhhhhhHHHHHh-ccchhhhchhhhccceeeechhhh
Confidence 99999999999999987 55444456789999999999999999999999853 67789999999999999885221
Q ss_pred CCCCCCCcCcCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCC
Q 001242 422 GKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGF 500 (1116)
Q Consensus 422 ~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~ 500 (1116)
.+.+.... ......|+|.||+.|.| ++.+|||.+-+-...-+.|+++||..|..+..++|++-
T Consensus 342 s~gvk~~~-~~~~~~yks~~vvyhtgtsatvghYl~dv~~s~~~gw~rIDD~~i~~v~q~dv~~~--------------- 405 (420)
T KOG1871|consen 342 SQGLKIRI-LIATRPYKSLAVVYHTGTSATVGHYLEDVSRSVPSGWQRIDDALILFVAQEDVEKV--------------- 405 (420)
T ss_pred ccccchhh-hccccccceEEEEEecccccccCceEEeeeecccCceeEeccceeeeccHhhhccc---------------
Confidence 12222111 23456799999999999 79999999999998888999999999999999999641
Q ss_pred CCCCcccCCCCcEEEEEEEeec
Q 001242 501 NNTPFKFTKYSNAYMLVYIRES 522 (1116)
Q Consensus 501 ~~~~~~~~~~~~AYmL~Y~R~~ 522 (1116)
..+.+||+|.|+|.+
T Consensus 406 -------t~~r~~yllyY~~~d 420 (420)
T KOG1871|consen 406 -------TGSRTPYLLYYIEAD 420 (420)
T ss_pred -------cCccchheeEeeecC
Confidence 123589999999853
No 39
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=3.4e-26 Score=255.86 Aligned_cols=296 Identities=25% Similarity=0.343 Sum_probs=218.4
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCCC----CCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcc---
Q 001242 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT----ENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFG--- 268 (1116)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~----~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~--- 268 (1116)
.+||.|+|||||||+.+|||...|+++..+-..... ........+..+++.+|..|+.+ .++.|..+...+.
T Consensus 105 p~gl~nlgNtcymnrtVq~lk~v~el~~~~s~~~~~~~~~~t~~~a~~i~~~mR~~f~~~~~~-~~v~pi~llqtl~~~~ 183 (473)
T KOG1872|consen 105 PVGLPNLGNTCYMNRTVQCLKGVPELPDALSLYKRKRGRGDTWERRRRISIETRTCFRPLCEK-GAVAPINLLQTLSSQY 183 (473)
T ss_pred CccccchhHHHHhhhhhhhhhcCccCcchhhccchhccCCchhhhhhhHHHHHHHHHHhhhcc-CCcchHHHHHHHHHHh
Confidence 379999999999999999999999988777543311 11111356778999999999998 8888877766552
Q ss_pred -----cCcccccccccHHHHHHHHHHHHHHhhcCCcc----ccccccccceEEeeeEEeeceeeecce--eeeeeeeeee
Q 001242 269 -----WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV----EGTIQQLFEGHHMNYIECINVDYKSTR--KESFYDLQLD 337 (1116)
Q Consensus 269 -----~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~----~~~i~~lF~g~~~~~i~C~~C~~~s~~--~e~f~~L~L~ 337 (1116)
|.....+.||||.|++..++..++........ ...+..+|++.+.....|.+-+..... .|.|..|+.-
T Consensus 184 Pqfa~~~~~g~~~qqda~ec~~~~m~~l~~~~~~~~~~~~~~~~~d~~f~~~~~~t~~~~e~e~~~~~~~~E~~~~L~c~ 263 (473)
T KOG1872|consen 184 PQFAEWVEYGIYMQQDAAECWMEEPGMLTEALTVATEAPCLEAEAAAGFGAEFSTTMSCSEGEDEGGGAGRELVDQLKCI 263 (473)
T ss_pred HHHHHHhhhhhHHHHHHhHhHHHhhhheeccccccccccchhHHHHHhhccccccceeeccCcccccccccccccccceE
Confidence 33344578999999999999999887764332 245778899999999999988766554 7889888888
Q ss_pred ccCC-CCHHHHHhhcceeEEecCCCcccccccCce-eeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCccc
Q 001242 338 VKGC-RDVYASFDKYVEVERLEGDNKYHAEEHGLQ-DAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQL 415 (1116)
Q Consensus 338 v~~~-~sL~e~L~~~~~~E~l~g~n~y~C~~c~~~-~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~L 415 (1116)
+... ..+...|+.=++.+.-. .-+.-|.. .-.|...|.++|.+|+|+..||.|-...+...|+-..|.||..|
T Consensus 264 i~~~~~~~k~Gl~~~~~e~~~K-----~s~~lgr~a~y~k~~~isrlP~ylTvq~vrf~~k~k~~~~akil~~V~fP~~l 338 (473)
T KOG1872|consen 264 INKTVHDMRFGLKSGLSEEIQK-----ISSILGRPAAYQKVMYISRLPEYLTVQEVRFFSKAKIMVVAKILNAVNFPKDL 338 (473)
T ss_pred Eeeeechhhhhhhhhhhhhhhc-----cCcccCCChHHHHHhHhhcCcccceEEEEEEEeccccchHHHHHHhccChhhh
Confidence 8543 23444444333222110 01111211 12466778999999999999999988888889999999999999
Q ss_pred cCCcccCCCCCCCc-----------------------------------------------CcCc-cccEEEEEEEEeec
Q 001242 416 DLDRENGKYLSPDA-----------------------------------------------DRSV-RNLYTLHSVLVHSG 447 (1116)
Q Consensus 416 dl~~~~~~~l~~~~-----------------------------------------------~~~~-~~~Y~L~gVVvH~G 447 (1116)
|. ...++++. ..+. ...|+|.|||.|.|
T Consensus 339 d~----~d~ct~el~~k~~~~r~k~r~~edkk~~~~~~~k~~~~~~~~~~~~~e~~~~~~~~~s~~~g~y~l~~vithkg 414 (473)
T KOG1872|consen 339 DQ----QDLCTPELKKKLLCRRKKHRKVEDKKKEEDVMPKVKGAQERLKEVPLEGMYNKSGGKSRNSGLYDLQLVITHKG 414 (473)
T ss_pred hH----HHhhCHHhhcCccchHHHHHHHHhcCCchhhcccccCcCcccccccccchhccccccccccceeeeeEeeeccc
Confidence 88 33333211 0112 56899999999999
Q ss_pred -cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001242 448 -GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1116)
Q Consensus 448 -s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y~R~ 521 (1116)
+..+|||+|++|.. .+.|++|||+.|+-+..+.++ ...||.+ +.+||+|+|.-+
T Consensus 415 rss~sghy~aw~r~s-~~~w~~fdd~~vs~v~~e~i~-~lsgggd------------------~~~ayvllyk~~ 469 (473)
T KOG1872|consen 415 RSSKSGHYVAWNRVS-EDKWGHFDDDMVSFVLGETIL-SLSGGGD------------------WHSAYVLLYKAR 469 (473)
T ss_pred cccCCCcceEEEecc-CCceeecccccccccccccee-eecCCCc------------------cchhhheeeccc
Confidence 79999999999997 669999999999999766664 4556543 469999999643
No 40
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.89 E-value=6e-23 Score=204.47 Aligned_cols=124 Identities=38% Similarity=0.704 Sum_probs=110.3
Q ss_pred EEEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCCC-CceEEEEEecCCCC----CCCCceEEEEEEEEEEeeccc
Q 001242 54 KFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNV-DHLSMYLDVADSGT----LPYGWSRYAQFSLAVVNQIHS 128 (1116)
Q Consensus 54 ~~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~~-~~lSiyL~~~~~~~----~~~~W~~~a~f~l~L~n~~~~ 128 (1116)
+|+|+|+|||.+ ++.+.|++|.||||.|+|++||+|+.. ++||+||++.+.+. .+.+|.++|+|.|+|+||.++
T Consensus 2 ~f~w~I~~fS~~-~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~~~ 80 (134)
T cd03775 2 SFTWRIKNWSEL-EKKVHSPKFKCGGFEWRILLFPQGNSQTGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPGDP 80 (134)
T ss_pred cEEEEECCcccC-CcceeCCCEEECCeeEEEEEeCCCCCCCCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCCCC
Confidence 699999999998 689999999999999999999999864 89999999976543 257899999999999999887
Q ss_pred ceeeeecceeeecCCCCCCccccccCCccCCCC----CCCcccCccceeeeeee
Q 001242 129 KYSIRKDTQHQFNARESDWGFTSFMPLGDLYDP----SRGYLVNDSVVVEAEVA 178 (1116)
Q Consensus 129 ~~~~~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p----~~gfL~nDsl~I~~~V~ 178 (1116)
..+..+...|+|+....+|||.+||++++|.+| .+|||+||+++|+++|+
T Consensus 81 ~~~~~~~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 81 SIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred ccceEccceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 766666778999988899999999999999854 57999999999999985
No 41
>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway. It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1
Probab=99.88 E-value=1.8e-22 Score=201.86 Aligned_cols=128 Identities=27% Similarity=0.590 Sum_probs=112.7
Q ss_pred CcEEEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCC-----CCceEEEEEecCCCCCCCCceEEEEEEEEEEeec
Q 001242 52 TMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNN-----VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQI 126 (1116)
Q Consensus 52 ~~~~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~-----~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n~~ 126 (1116)
+++|+|+|+|||.+ ++.+.||.|.+||++|+|++||+|+. .+++|+||+|..... ..+|++.|+|.|+|+|+.
T Consensus 2 ~~~~~~~I~~~S~l-~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~w~i~a~~~~~l~~~~ 79 (137)
T cd03772 2 EATFSFTVERFSRL-SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STSWSCHAQAVLRIINYK 79 (137)
T ss_pred CcEEEEEECCcccC-CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCCCeEEEEEEEEEEcCC
Confidence 68999999999999 68999999999999999999999953 279999999976543 348999999999999998
Q ss_pred ccceeeeecceeeecCCCCCCccccccCCccCCCCCCCcccCccceeeeeeeeec
Q 001242 127 HSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRK 181 (1116)
Q Consensus 127 ~~~~~~~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~V~~ 181 (1116)
++..+..+...|.|.+...+|||.+||+|++|.++.+|||.||+++|+|.|.+..
T Consensus 80 ~~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~ 134 (137)
T cd03772 80 DDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADA 134 (137)
T ss_pred CCcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeC
Confidence 6554555566688988888999999999999988889999999999999998765
No 42
>KOG2026 consensus Spindle pole body protein - Sad1p [Cytoskeleton]
Probab=99.84 E-value=1.5e-20 Score=204.09 Aligned_cols=274 Identities=22% Similarity=0.226 Sum_probs=209.8
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcC---Ccccccchhhhhc
Q 001242 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYN---DTSVATKELTKSF 267 (1116)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s---~~~v~~~~l~~s~ 267 (1116)
.-.+|+|||.|+.++=|.|++||+|.+.+++|++++.-.. .......+...|..+.+.||.. ...++|.++.++.
T Consensus 129 tYLpG~VGLnNik~~dy~n~vl~~ls~v~PlRnyFl~~~n--~~d~~~~lv~rl~~l~rklw~~r~fk~hvSphe~lqaV 206 (442)
T KOG2026|consen 129 TYLPGFVGLNNIKANDYANAVLQALSHVVPLRNYFLLEEN--YFDNLTELVQRLGELIRKLWNPRNFKGHVSPHEFLQAV 206 (442)
T ss_pred cceeeeeccchhhhHHHHHHHHHHHhccchhhhhhccccc--ccchhHHHHHHHHHHHHHhcChhhhcccCCHHHHHHHH
Confidence 4567999999999999999999999999999999986432 1222356778889999999987 4679999998875
Q ss_pred ---ccCcccccccccHHHHHHHHHHHHHHhhcCCcc-ccccccccceEEeeeEEeec----eeeecceeeeeeeeeeecc
Q 001242 268 ---GWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV-EGTIQQLFEGHHMNYIECIN----VDYKSTRKESFYDLQLDVK 339 (1116)
Q Consensus 268 ---~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~-~~~i~~lF~g~~~~~i~C~~----C~~~s~~~e~f~~L~L~v~ 339 (1116)
....+..++|.|+-||+.+||+.|+..+.++.. .++|+.-|+|.++....-.. -.......-+|+.|.|++|
T Consensus 207 ~~~s~k~f~i~~q~DpveFlswllntlhs~l~~~k~~~SIi~~~fqG~~ri~k~~~~~~~~~~~~~i~~~~Fl~LtLDLP 286 (442)
T KOG2026|consen 207 MKLSKKRFRIGQQSDPVEFLSWLLNTLHSDLRGSKKASSIIHKSFQGEVRIVKEKQGEASENENKEISVMPFLYLTLDLP 286 (442)
T ss_pred HHHhhhheecCCCCCHHHHHHHHHHHHHHHhCCCCCchhHhhHhhcceEEeeeeccccccccccceEEEEeeEEEEecCC
Confidence 356788899999999999999999999998774 48999999999986654433 1122345678999999997
Q ss_pred CCC--------------CHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeec
Q 001242 340 GCR--------------DVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKI 405 (1116)
Q Consensus 340 ~~~--------------sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki 405 (1116)
... .|-+.|..|-..-.-+ + -+...| ++..+.++|++|++|++||.- +..-..|.
T Consensus 287 ~~plfkD~~e~niiPQV~l~~lL~Kf~g~t~~e----~----~~~~~~-~rf~l~k~P~ylifh~~rF~k--Nn~f~ekN 355 (442)
T KOG2026|consen 287 PPPLFKDVMEKNIIPQVALFDLLKKFDGETVTE----V----VTPKLA-MRFRLTKLPRYLIFHMKRFKK--NNFFKEKN 355 (442)
T ss_pred CCCcccchhhhcccccchHHHHHHHhcCceeee----e----cchhhh-hheeeecCCceEEEEeeeccc--cCcccccC
Confidence 643 2556665554322111 0 111234 888999999999999999973 44557899
Q ss_pred cceEecC-ccccCCcccCCCCCCCcC-cCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHH
Q 001242 406 NDRYEFP-LQLDLDRENGKYLSPDAD-RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRAL 483 (1116)
Q Consensus 406 ~~~v~fP-~~Ldl~~~~~~~l~~~~~-~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~~vl 483 (1116)
.+-++|| ..+|+ .+.+..... ...-..|.|.|-++|. ..-|||...|++...++||..+|-.|++...+-+.
T Consensus 356 pTl~~f~~~~~~~----~~~~~~~~~~~~~~~~~~~~~N~i~~--~e~~~~riqi~~~~s~kW~eiqdl~v~e~~~qmi~ 429 (442)
T KOG2026|consen 356 PTLVEFPYSEVDI----LHVLDRLKAVNHKVTQYSLVANAIHE--DEDGNFRIQIYDNSSEKWYEIQDLHVTERLPQMIF 429 (442)
T ss_pred CceeeccCCccch----hhhhhhcccccCccccccchhhhhcC--cccCceEEEEEeCCCcceEEecccchhhhhhHHHH
Confidence 9999999 55766 444332211 1122789999999997 67899999999998999999999999999776664
No 43
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.80 E-value=2.5e-19 Score=179.72 Aligned_cols=127 Identities=28% Similarity=0.452 Sum_probs=105.2
Q ss_pred CCcEEEEEEcCccccC---CCeeecCcEEEcce---EEEEEEEeCCCC---CCceEEEEEecCCCCCCCCceEEEEEEEE
Q 001242 51 PTMKFTWTIENFSRLN---TKKHYSDVFVVGGY---KWRILIFPKGNN---VDHLSMYLDVADSGTLPYGWSRYAQFSLA 121 (1116)
Q Consensus 51 ~~~~~tw~I~nfS~l~---~~~~~Sp~F~vgG~---~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~~~W~~~a~f~l~ 121 (1116)
...+|+|+|+|||.++ ++.+.|++|.+||+ .|+|++||+|+. .+++|+||++.+.. .|.+.|+|.|+
T Consensus 3 ~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~~----~~~v~a~f~~~ 78 (139)
T cd03774 3 VKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCP----KSEVRAKFKFS 78 (139)
T ss_pred eEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccCC----CCcEEEEEEEE
Confidence 4568999999999864 56899999999995 999999999963 48999999986532 35789999999
Q ss_pred EEeecccceee-eecceeeecCCCCCCccccccCCccCCCCCCCcccCccceeeeeeeeecc
Q 001242 122 VVNQIHSKYSI-RKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKV 182 (1116)
Q Consensus 122 L~n~~~~~~~~-~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~V~~~ 182 (1116)
|+|+.++.... .....+.|.. ..+|||.+||++++|.++.+|||.||+++|+|+|.|+.+
T Consensus 79 l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~~ 139 (139)
T cd03774 79 ILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQD 139 (139)
T ss_pred EEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEcC
Confidence 99998765322 2233577864 579999999999999877789999999999999999753
No 44
>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins. Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i
Probab=99.78 E-value=6.1e-19 Score=175.31 Aligned_cols=122 Identities=30% Similarity=0.631 Sum_probs=103.0
Q ss_pred CCCcEEEEEEcCccccC--CCeeecCcEEEcceEEEEEEEeCCCC---CCceEEEEEecCCCCCCCCceEEEEEEEEEEe
Q 001242 50 PPTMKFTWTIENFSRLN--TKKHYSDVFVVGGYKWRILIFPKGNN---VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVN 124 (1116)
Q Consensus 50 ~~~~~~tw~I~nfS~l~--~~~~~Sp~F~vgG~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n 124 (1116)
++..+++|+|.|||.++ ++.+.|++|.+|||.|+|++||+|+. .+|||+||++.+. ..|.+.++|+|+|+|
T Consensus 2 ~~~~~~~~~I~~fS~~~~~~~~~~S~~F~vgG~~W~i~~yP~G~~~~~~~~lSl~L~l~~~----~~~~~~~~~~l~lln 77 (132)
T cd03773 2 PPYDSATFTLENFSTLRQSADPVYSDPLNVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSG----LGEASKYEYRVEMVH 77 (132)
T ss_pred CCCcccEEEECChhhhhcCCcceeCCCeEeCCccEEEEEECCCCCCCCCCEEEEEEEeecC----CCCceeEEEEEEEEc
Confidence 35678999999999984 56899999999999999999999974 4799999998753 236678899999999
Q ss_pred ecccceeeeecceeeecCCCCCCccccccCCccCCCCCCCcccC--ccceeeeeee
Q 001242 125 QIHSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVN--DSVVVEAEVA 178 (1116)
Q Consensus 125 ~~~~~~~~~~~~~h~F~~~~~dwG~~~Fi~l~~L~~p~~gfL~n--Dsl~I~~~V~ 178 (1116)
|.++..+......|.|.. ..+|||.+|+++++|.+ +|||.| |+++|+|.|+
T Consensus 78 q~~~~~~~~~~~~~~f~~-~~~wG~~~Fi~~~~L~~--~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 78 QANPTKNIKREFASDFEV-GECWGYNRFFRLDLLIN--EGYLLPENDTLILRFSVR 130 (132)
T ss_pred CCCCccceEEeccccccC-CCCcCHHHhccHHHHhh--CCCcCCCCCEEEEEEEEe
Confidence 966655566666788865 46799999999999954 799999 9999999997
No 45
>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter
Probab=99.74 E-value=3.4e-18 Score=173.71 Aligned_cols=123 Identities=25% Similarity=0.534 Sum_probs=98.9
Q ss_pred cEEEEEEcCccccC-------CCeeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCC-CCCceEEEEEE
Q 001242 53 MKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTL-PYGWSRYAQFS 119 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~-------~~~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~-~~~W~~~a~f~ 119 (1116)
|+|+|+|+|||.++ ++.+.||+|.+| ||.|+|++||+|+. .+|||+||++.++... ...|.+.|+|+
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~ 80 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKIT 80 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEE
Confidence 68999999999974 248899999999 99999999999973 3699999998876432 45799999999
Q ss_pred EEEEeeccc--ceeeeec-----ceeeec-----CCCCCCccccccCCccCCCCCCCcccCccceeeeee
Q 001242 120 LAVVNQIHS--KYSIRKD-----TQHQFN-----ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1116)
Q Consensus 120 l~L~n~~~~--~~~~~~~-----~~h~F~-----~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V 177 (1116)
|+|+||.++ ..+.... ..+.|. ....+|||.+|+++++|.+ .|||.||+++|+|.|
T Consensus 81 ~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~~--~gfl~dD~l~I~~~v 148 (149)
T cd00270 81 LTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLES--RGYVKDDTLFIKVEV 148 (149)
T ss_pred EEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhcc--CCCEeCCEEEEEEEE
Confidence 999999874 2222111 123453 2457899999999999954 599999999999987
No 46
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.72 E-value=1.8e-17 Score=166.49 Aligned_cols=125 Identities=19% Similarity=0.345 Sum_probs=100.6
Q ss_pred cEEEEEEcCccccC-----CC--eeecCcE--EEcceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEEEEE
Q 001242 53 MKFTWTIENFSRLN-----TK--KHYSDVF--VVGGYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYAQFS 119 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~-----~~--~~~Sp~F--~vgG~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a~f~ 119 (1116)
|+|.|+|+|||.++ ++ .+.||+| .+|||.|+|.+||+|.+ .+|||+||.+..++.++ ..|.+.++++
T Consensus 1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~t 80 (148)
T cd03780 1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVT 80 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEE
Confidence 68999999999875 33 6999999 99999999999999975 36999999998765544 3899999999
Q ss_pred EEEEeeccccee---eeec--ceeeecCC----CCCCccccccCCccCCCCCCCcccCccceeeeee
Q 001242 120 LAVVNQIHSKYS---IRKD--TQHQFNAR----ESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1116)
Q Consensus 120 l~L~n~~~~~~~---~~~~--~~h~F~~~----~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V 177 (1116)
|+|++|.+...+ .... ..+.|... +..||+.+||++++|...+++||+||++.|+|.|
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 81 LMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred EEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 999999754322 1111 13557543 5579999999999996545699999999999876
No 47
>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp
Probab=99.71 E-value=8.5e-18 Score=170.20 Aligned_cols=124 Identities=23% Similarity=0.428 Sum_probs=97.8
Q ss_pred cEEEEEEcCccccC-----CC--eeecCcEEE--cceEEEEEEEeCCCC---CCceEEEEEecCCCC-CCCCceEEEEEE
Q 001242 53 MKFTWTIENFSRLN-----TK--KHYSDVFVV--GGYKWRILIFPKGNN---VDHLSMYLDVADSGT-LPYGWSRYAQFS 119 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~-----~~--~~~Sp~F~v--gG~~W~I~lyP~G~~---~~~lSiyL~~~~~~~-~~~~W~~~a~f~ 119 (1116)
|+|.|+|.|||.++ ++ .+.||+|.+ |||.|+|.+||+|+. .+|||+||.+..... ....|.+.|+|+
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~ 80 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTIT 80 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeE
Confidence 68999999999753 23 388999986 799999999999974 379999999987543 245799999999
Q ss_pred EEEEeecccceeee-----ecceeeecC-----CCCCCccccccCCccCCCCCCCcccCccceeeeeee
Q 001242 120 LAVVNQIHSKYSIR-----KDTQHQFNA-----RESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1116)
Q Consensus 120 l~L~n~~~~~~~~~-----~~~~h~F~~-----~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~ 178 (1116)
|+|++|.++..++. ....+.|.. ...+|||.+||++++|.. .+||.||+++|+|.|.
T Consensus 81 ~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 81 LTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLLQ--RGFVKNDTLLIKIEVN 147 (147)
T ss_pred EEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhhh--CCCccCCEEEEEEEEC
Confidence 99999986443221 112345652 346799999999999944 6899999999999873
No 48
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=99.70 E-value=3.8e-17 Score=166.50 Aligned_cols=123 Identities=25% Similarity=0.478 Sum_probs=97.8
Q ss_pred cEEEEEEcCccccC-------CCeeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEEEEE
Q 001242 53 MKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYAQFS 119 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~-------~~~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a~f~ 119 (1116)
|+|.|+|+|||.++ +..+.|++|.+| ||.|+|.+||+|+. .+|||+||.+..++..+ ..|.+.|+|+
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~ 80 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRIT 80 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEE
Confidence 68999999999764 247899999999 99999999999964 37999999999765433 4899999999
Q ss_pred EEEEeeccc--c--eeeee-----cceeeec--------CCCCCCccccccCCccCCCCCCCcccCccceeeeee
Q 001242 120 LAVVNQIHS--K--YSIRK-----DTQHQFN--------ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1116)
Q Consensus 120 l~L~n~~~~--~--~~~~~-----~~~h~F~--------~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V 177 (1116)
|+|++|.++ . .++.. ...+.|. ..+..|||..||++++|. +++||+||+++|+|.|
T Consensus 81 ~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v 153 (154)
T cd03781 81 FTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASV 153 (154)
T ss_pred EEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEe
Confidence 999999764 1 11111 1123454 234579999999999994 4799999999999987
No 49
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.70 E-value=5.2e-17 Score=168.93 Aligned_cols=127 Identities=20% Similarity=0.380 Sum_probs=100.7
Q ss_pred CCCcEEEEEEcCccccC-----CC--eeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEE
Q 001242 50 PPTMKFTWTIENFSRLN-----TK--KHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYA 116 (1116)
Q Consensus 50 ~~~~~~tw~I~nfS~l~-----~~--~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a 116 (1116)
...|+|.|+|.|||.++ ++ .+.||+|++| ||.|+|.+||+|++ .+|||+||.+..++.++ ..|.+.+
T Consensus 36 ~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~ 115 (186)
T cd03777 36 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQ 115 (186)
T ss_pred ccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeE
Confidence 45799999999999864 23 6999999999 99999999999975 36999999998765433 3899999
Q ss_pred EEEEEEEeecccceeee-----ecceeeec-CC---CCCCccccccCCccCCCCCCCcccCccceeeeeee
Q 001242 117 QFSLAVVNQIHSKYSIR-----KDTQHQFN-AR---ESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1116)
Q Consensus 117 ~f~l~L~n~~~~~~~~~-----~~~~h~F~-~~---~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~ 178 (1116)
+|+|+|++|.+...++. ....+.|. +. +..||+..||++++|. +++||+||++.|+|.|.
T Consensus 116 ~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~ 184 (186)
T cd03777 116 KVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD 184 (186)
T ss_pred EEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence 99999999964211110 11124575 33 4579999999999994 48999999999999885
No 50
>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat
Probab=99.69 E-value=6.3e-17 Score=161.76 Aligned_cols=125 Identities=19% Similarity=0.359 Sum_probs=98.4
Q ss_pred cEEEEEEcCccccC-----C--CeeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEEEEE
Q 001242 53 MKFTWTIENFSRLN-----T--KKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYAQFS 119 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~-----~--~~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a~f~ 119 (1116)
|+|.|+|+||++.. + ..+.||+|+.+ ||.|+|.+||+|.+ .+|||+||.+..++.++ ..|.+.|+|+
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t 80 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT 80 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence 68999999999642 1 36899999987 99999999999975 46999999998754322 3799999999
Q ss_pred EEEEeecccce-eeeecc---eeeec----CCCCCCccccccCCccCCCCCCCcccCccceeeeee
Q 001242 120 LAVVNQIHSKY-SIRKDT---QHQFN----ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1116)
Q Consensus 120 l~L~n~~~~~~-~~~~~~---~h~F~----~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V 177 (1116)
|+|++|.+... ...... .+.|. ..+..||+.+||++++|.....+||+||++.|+|.|
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V 146 (147)
T cd03779 81 FMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVV 146 (147)
T ss_pred EEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEE
Confidence 99999975332 111111 25685 455679999999999995433599999999999987
No 51
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.68 E-value=2.1e-16 Score=154.30 Aligned_cols=123 Identities=46% Similarity=0.759 Sum_probs=101.7
Q ss_pred cEEEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCC--CCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccce
Q 001242 53 MKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNN--VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKY 130 (1116)
Q Consensus 53 ~~~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~--~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n~~~~~~ 130 (1116)
++|+|+|.+|+...++.+.||.|.+||+.|+|.+||+|+. .+++|+||+|.........|.+.|+|.|.|+|++++.
T Consensus 1 ~~~~~~i~~~~~~~~~~~~S~~f~~~g~~W~l~~~p~~~~~~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~~~~~- 79 (126)
T cd00121 1 GKHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDGESGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQNGGK- 79 (126)
T ss_pred CEEEEEECCCCCCCCcEEECCCEEEcCEeEEEEEEcCCCCCCCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECCCCCc-
Confidence 4799999999995478999999999999999999999974 4799999999876554568999999999999998333
Q ss_pred eeeecceeeec-CCCCCCccccccCCccCCCCCCCcccCccceeeeeee
Q 001242 131 SIRKDTQHQFN-ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1116)
Q Consensus 131 ~~~~~~~h~F~-~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~ 178 (1116)
.......+.|. ....+|||.+|+++++|.+ .+++.||++.|+|.|.
T Consensus 80 ~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 80 SLSKSFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred cceEeccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 23333345553 6778999999999999975 3348999999999873
No 52
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=99.67 E-value=2.4e-16 Score=186.27 Aligned_cols=304 Identities=16% Similarity=0.210 Sum_probs=205.7
Q ss_pred ccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcC-Ccccccchhhh
Q 001242 187 SYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYN-DTSVATKELTK 265 (1116)
Q Consensus 187 ~~~s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s-~~~v~~~~l~~ 265 (1116)
++..-..|-|.||.-.+-.-|.||+||.|+++|++|.+++... +....|++|+|.-||.+|..+ ..++....|.+
T Consensus 490 DF~~~NqT~yaGLe~~i~N~YcNamiQllyfl~~~r~~vl~H~----C~~e~CL~CELGFLF~Ml~~S~G~~Cqa~NFlr 565 (1118)
T KOG1275|consen 490 DFQDYNQTTYAGLETDIPNSYCNAMIQLLYFLPPIRSIVLRHI----CTKEFCLLCELGFLFTMLDSSTGDPCQANNFLR 565 (1118)
T ss_pred CCcccccceeeccCCCCchHHHHHHHHHHHhccHHHHHHHcCc----cchhHHHHHHHHHHHHHHhhhcCCccchhHHHH
Confidence 4455677889999999999999999999999999999999764 445689999999999999886 34677778887
Q ss_pred hcccCc------------------ccccccccHH--------------HHHHHHHHHHHHhh-cCCccccccccccceEE
Q 001242 266 SFGWDT------------------YDSFMQHDVQ--------------ELNRVLCEKLEDKM-KGTVVEGTIQQLFEGHH 312 (1116)
Q Consensus 266 s~~~~~------------------~~~~~QqDa~--------------Efl~~Lld~Le~~~-~~~~~~~~i~~lF~g~~ 312 (1116)
+|.... .+...-||+. +|.+.........- -.......+.+.|+..+
T Consensus 566 af~t~~~a~~LG~vl~d~~~~~~~~~~~liq~~~~~~~set~~~~d~~~~~~~~~s~~~~~~~~~vn~~~~l~q~F~~~~ 645 (1118)
T KOG1275|consen 566 AFRTNPEASALGLVLSDTQISGTVNDDVLIQDAEGFISSETSRHLDCQDCRGLQQSESVDGESFKVNYAPVLQQSFCQEI 645 (1118)
T ss_pred HHhhChHhhhhcccccchhhccccchHHHhhhhhhccchhhhhhhhHHHhhhhhhhhcccCceeeecchhHHHHHhhhHH
Confidence 773110 0011123333 33332222211100 01113457889999999
Q ss_pred eeeEEeeceeeecceeeeeeeeeeeccCCC---------CHHHHHhhcceeEEecCCCcccccccCc-eeeeeeeEeecC
Q 001242 313 MNYIECINVDYKSTRKESFYDLQLDVKGCR---------DVYASFDKYVEVERLEGDNKYHAEEHGL-QDAKKGVLFIDF 382 (1116)
Q Consensus 313 ~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~---------sL~e~L~~~~~~E~l~g~n~y~C~~c~~-~~a~k~~~i~~l 382 (1116)
.....|..|+.++.+......+.|..++.. +..+.|++-+.. ...-+-.|+.|++ +....+..+..+
T Consensus 646 e~~~~Cg~C~~~~~~~k~l~~~~lsyp~~~~id~~~~~~~F~~iL~R~l~l---~kn~~~~C~~C~k~ep~~q~~~vr~L 722 (1118)
T KOG1275|consen 646 EKSLRCGECGDEKQKSKSLLRKVLSYPNVLLIDTLAKSNNFVEILKRSLSL---FKNKQAWCETCTKPEPTSQKKNVRSL 722 (1118)
T ss_pred HHhhhcccccchhhhhhhhhheeecCCCccchhhcccccchHHHhhhhhhc---ccccccccccccCCCCcccccccccC
Confidence 999999999998887776666666655321 244444433321 1112256999975 556667778999
Q ss_pred CCeEEEEEeeEEeecccCe--eeeccceEecCccccCCcc--cCCCCC----------CCcCcCccccEEEEEEEEeecc
Q 001242 383 PPVLQLQLKRFEYDFMRDA--MVKINDRYEFPLQLDLDRE--NGKYLS----------PDADRSVRNLYTLHSVLVHSGG 448 (1116)
Q Consensus 383 P~vL~i~LkRF~~d~~~~~--~~Ki~~~v~fP~~Ldl~~~--~~~~l~----------~~~~~~~~~~Y~L~gVVvH~Gs 448 (1116)
|.+|.|...-+.-...... ..|.-..+-+|..+.|..- .+..++ ++-+...-.+|+|.|+|+|.|+
T Consensus 723 Pd~L~in~~~~~~~~~~~~a~q~~~~~~vWLP~~~~~~~~k~~~~~v~~~s~~~~~~~~~~d~~~~~vYeL~a~V~~I~d 802 (1118)
T KOG1275|consen 723 PDCLSINTCLNVHELVDFWARQNKLLEDVWLPEWFHMIISKNKAQLVSTISDLDVSPLPDYDEPSAVVYELDAMVHAIGD 802 (1118)
T ss_pred cceeeeeeeccchhhhhhHHHhhccccccccchheeEEEecccceeeeeeccccCCCCccccCCceEEEEeeeEEEEecc
Confidence 9999999887753222111 2255667888888776211 000000 0112334479999999999995
Q ss_pred -CCCceEEEEEecC--------CCCCEEEEeCceeeEechHhHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEE
Q 001242 449 -VHGGHYYAFIRPT--------LSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVY 518 (1116)
Q Consensus 449 -~~~GHY~ayvr~~--------~~~~W~~fnD~~Vt~v~~~~vl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmL~Y 518 (1116)
.+.+|.+++||-. .+.+||.|||-.|.+++++|++. |. ..+..+-||+|
T Consensus 803 ~~~e~~lVs~Ikv~~~~~~~~~~dsqWylFNDfLV~~ite~EAl~--~~-------------------~~WKvP~Il~Y 860 (1118)
T KOG1275|consen 803 NENEVNLVSPIKVLRPYHVIKPDDSQWYLFNDFLVSEITEEEALH--FD-------------------GPWKVPAILYY 860 (1118)
T ss_pred CCCccceEEEEEccCcccccCcCcceeEEEcceeeeeCChHHheE--ec-------------------cCccCcEEEEE
Confidence 6899999999942 24699999999999999999973 22 23678899999
No 53
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.65 E-value=5.1e-16 Score=158.03 Aligned_cols=124 Identities=21% Similarity=0.451 Sum_probs=94.6
Q ss_pred CcEEEEEEcCccccC-----CCeeecCcE-EEcceEEEEEEEeCCCC--CCceEEEEEecCCCC-CCCCceE-EEEEEEE
Q 001242 52 TMKFTWTIENFSRLN-----TKKHYSDVF-VVGGYKWRILIFPKGNN--VDHLSMYLDVADSGT-LPYGWSR-YAQFSLA 121 (1116)
Q Consensus 52 ~~~~tw~I~nfS~l~-----~~~~~Sp~F-~vgG~~W~I~lyP~G~~--~~~lSiyL~~~~~~~-~~~~W~~-~a~f~l~ 121 (1116)
+.+|.|+|.|||.++ +..+.||+| .+|||.|+|.+||+|+. .+|||+||.+..++. ....|.+ .|+|+|+
T Consensus 1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~ 80 (167)
T cd03771 1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNRQATMT 80 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCCCCCcceEEEEEecCCccccccCcceeEEEEEE
Confidence 468999999999984 337999999 99999999999999975 479999999987543 3458994 7999999
Q ss_pred EEeeccc---ceeeee----c----c--------------eeeecC-------CCCCCccccccCCccCCCCCCCcccCc
Q 001242 122 VVNQIHS---KYSIRK----D----T--------------QHQFNA-------RESDWGFTSFMPLGDLYDPSRGYLVND 169 (1116)
Q Consensus 122 L~n~~~~---~~~~~~----~----~--------------~h~F~~-------~~~dwG~~~Fi~l~~L~~p~~gfL~nD 169 (1116)
|++|... ..+... . + .+.++. ...+|||..||++++|.. ++||+||
T Consensus 81 LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~--r~ylk~d 158 (167)
T cd03771 81 LLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRR--RDFLKGD 158 (167)
T ss_pred EECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhcc--CCCCcCC
Confidence 9999621 111111 0 0 011222 334799999999999954 7799999
Q ss_pred cceeeeee
Q 001242 170 SVVVEAEV 177 (1116)
Q Consensus 170 sl~I~~~V 177 (1116)
++.|++.+
T Consensus 159 tl~i~~~~ 166 (167)
T cd03771 159 DLIILLDF 166 (167)
T ss_pred EEEEEEEe
Confidence 99998876
No 54
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=99.62 E-value=1.7e-15 Score=152.89 Aligned_cols=126 Identities=21% Similarity=0.394 Sum_probs=101.7
Q ss_pred CCCcEEEEEEcCccccC-------CCeeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEE
Q 001242 50 PPTMKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYA 116 (1116)
Q Consensus 50 ~~~~~~tw~I~nfS~l~-------~~~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a 116 (1116)
...|+|+|+|.|||++. ...++||+|+.+ ||+|++.+||+|++ +.|||+|+.+..++.++ ..|++..
T Consensus 16 ~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~~ 95 (164)
T cd03778 16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQ 95 (164)
T ss_pred ccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCceee
Confidence 45799999999999864 137899999775 89999999999985 36899999999998877 6999999
Q ss_pred EEEEEEEeecccceeeeec--------ceeee-cCCCCCCccccccCCccCCCCCCCcccCccceeeeee
Q 001242 117 QFSLAVVNQIHSKYSIRKD--------TQHQF-NARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1116)
Q Consensus 117 ~f~l~L~n~~~~~~~~~~~--------~~h~F-~~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V 177 (1116)
+++|+|++|.+.. ++... +.++. +..+..|||..|+++++|.. ++|||+||++.|+|.|
T Consensus 96 ~itl~llDQ~~r~-hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~-~~~Yv~dDtlfIk~~V 163 (164)
T cd03778 96 KVTLMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEA-KNSYVRDDAIFIKAIV 163 (164)
T ss_pred EEEEEEECCCCCC-cceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHccc-cCCcccCCeEEEEEEE
Confidence 9999999997543 22211 12233 44556799999999999964 3699999999999876
No 55
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=99.61 E-value=5.1e-16 Score=150.87 Aligned_cols=116 Identities=41% Similarity=0.723 Sum_probs=96.2
Q ss_pred EcCccccCC-C-eeecCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCC-CCceEEEEEEEEEEeecccceeeeec
Q 001242 59 IENFSRLNT-K-KHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLP-YGWSRYAQFSLAVVNQIHSKYSIRKD 135 (1116)
Q Consensus 59 I~nfS~l~~-~-~~~Sp~F~vgG~~W~I~lyP~G~~~~~lSiyL~~~~~~~~~-~~W~~~a~f~l~L~n~~~~~~~~~~~ 135 (1116)
|+|||+++. + .+.|+.|.+||++|+|.++|+|+ .+++|+||+|..+.... .+|+|.|++++.++++.++.......
T Consensus 1 i~nfs~l~~~~~~~~s~~~~~~g~~W~l~~~~~~~-~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~ 79 (119)
T PF00917_consen 1 IKNFSKLKEGEEYSSSFVFSHGGYPWRLKVYPKGN-GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSISKRIK 79 (119)
T ss_dssp ETTGGGHHTSEEEEEEEESSTTSEEEEEEEETTES-TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEEEEEEE
T ss_pred CcccceEeCCCcEECCCeEEECCEEEEEEEEeCCC-cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcceeeee
Confidence 789999962 2 34458999999999999999998 78999999999886644 68999999999999998877433333
Q ss_pred ceeeecCCCCCCccccccCCccCCCCCCCcccCccceeeeeeee
Q 001242 136 TQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAV 179 (1116)
Q Consensus 136 ~~h~F~~~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~V 179 (1116)
.+.|... .+|||.+|+++++|.++. |+.||+++|+|.|+|
T Consensus 80 -~~~F~~~-~~~g~~~fi~~~~l~~~~--fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 80 -SHSFNNP-SSWGWSSFISWEDLEDPY--FLVDDSLTIEVEVKI 119 (119)
T ss_dssp -CEEECTT-SEEEEEEEEEHHHHTTCT--TSBTTEEEEEEEEEE
T ss_pred -eeEEeee-cccchhheeEHHHhCccC--CeECCEEEEEEEEEC
Confidence 5888654 789999999999997643 999999999999975
No 56
>smart00061 MATH meprin and TRAF homology.
Probab=99.54 E-value=3.7e-14 Score=131.83 Aligned_cols=93 Identities=31% Similarity=0.523 Sum_probs=80.2
Q ss_pred EEEEEcCccccC-CCeeecCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccceeee
Q 001242 55 FTWTIENFSRLN-TKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKYSIR 133 (1116)
Q Consensus 55 ~tw~I~nfS~l~-~~~~~Sp~F~vgG~~W~I~lyP~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n~~~~~~~~~ 133 (1116)
++|+|+||+.+. ++.+.||+|.+||+.|+|.+||+ .+++|+||.|.+....+.+|++.|+|+|+|+|++++.. .
T Consensus 2 ~~~~~~~~~~~~~~~~~~S~~f~~~g~~W~i~~~p~---~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~--~ 76 (95)
T smart00061 2 LSHTFKNVSRLEEGESYFSPSEEHFNIPWRLKIYRK---NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL--S 76 (95)
T ss_pred ceeEEEchhhcccCceEeCChhEEcCceeEEEEEEc---CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE--e
Confidence 689999999984 67899999999999999999999 47999999998776555589999999999999987643 4
Q ss_pred ecceeeecCCCCCCcccccc
Q 001242 134 KDTQHQFNARESDWGFTSFM 153 (1116)
Q Consensus 134 ~~~~h~F~~~~~dwG~~~Fi 153 (1116)
+...+.|.. ..+|||.+||
T Consensus 77 ~~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 77 KKDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred eeeeEEEcC-CCccceeeEC
Confidence 456788976 7899999986
No 57
>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both
Probab=99.28 E-value=5.4e-12 Score=126.97 Aligned_cols=124 Identities=21% Similarity=0.428 Sum_probs=94.0
Q ss_pred CcEEEEEEcCccccC-----CCeeecCcEEEc-ceEEEEEEEeCCCC----CCceEEEEEecCCCCCCC-CceEE-EEEE
Q 001242 52 TMKFTWTIENFSRLN-----TKKHYSDVFVVG-GYKWRILIFPKGNN----VDHLSMYLDVADSGTLPY-GWSRY-AQFS 119 (1116)
Q Consensus 52 ~~~~tw~I~nfS~l~-----~~~~~Sp~F~vg-G~~W~I~lyP~G~~----~~~lSiyL~~~~~~~~~~-~W~~~-a~f~ 119 (1116)
+..+.|+|.||+++. ...++||+|+.+ ||..++.+||+|++ +.|+|+|+.+..++.++. .|.|. -+++
T Consensus 1 cp~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~it 80 (167)
T cd03783 1 CPNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAI 80 (167)
T ss_pred CCceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEE
Confidence 357899999999863 347999999886 99999999999975 359999999998876554 89975 5899
Q ss_pred EEEEeecc---cceeee----ecce---------eeec--------------CCCCCCccccccCCccCCCCCCCcccCc
Q 001242 120 LAVVNQIH---SKYSIR----KDTQ---------HQFN--------------ARESDWGFTSFMPLGDLYDPSRGYLVND 169 (1116)
Q Consensus 120 l~L~n~~~---~~~~~~----~~~~---------h~F~--------------~~~~dwG~~~Fi~l~~L~~p~~gfL~nD 169 (1116)
|+|++|+. ...++. ...+ ..|. ....++||..|+++++|.. ++||+||
T Consensus 81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~~--r~yikdD 158 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLRR--RSFLKND 158 (167)
T ss_pred EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHhh--CCcccCC
Confidence 99999953 111110 0000 0121 2345899999999999954 8999999
Q ss_pred cceeeeee
Q 001242 170 SVVVEAEV 177 (1116)
Q Consensus 170 sl~I~~~V 177 (1116)
++.|.+.+
T Consensus 159 tlfI~~~~ 166 (167)
T cd03783 159 DLIIFVDF 166 (167)
T ss_pred eEEEEEec
Confidence 99998765
No 58
>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f
Probab=99.23 E-value=1.7e-11 Score=122.53 Aligned_cols=124 Identities=20% Similarity=0.450 Sum_probs=95.4
Q ss_pred CcEEEEEEcCccccC-----CCeeecCcEEEc-ceEEEEEEEeCCCC--CCceEEEEEecCCCCCCC-CceEE-EEEEEE
Q 001242 52 TMKFTWTIENFSRLN-----TKKHYSDVFVVG-GYKWRILIFPKGNN--VDHLSMYLDVADSGTLPY-GWSRY-AQFSLA 121 (1116)
Q Consensus 52 ~~~~tw~I~nfS~l~-----~~~~~Sp~F~vg-G~~W~I~lyP~G~~--~~~lSiyL~~~~~~~~~~-~W~~~-a~f~l~ 121 (1116)
+.+|.|+|.||+++. ...++||+|+.. ||+.++.+||+|++ ..|||+|+.+..++.++. .|.+. -+++|.
T Consensus 1 cp~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~~~~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~ 80 (167)
T cd03782 1 CPEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWPCPWQQATMM 80 (167)
T ss_pred CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCCCCCEEEEEEEEeccCCCccccCCCcCCeEEEE
Confidence 357999999999863 357999999765 99999999999975 469999999998876554 89999 899999
Q ss_pred EEeecc---cceeeee--c------ce--eee--c----------CC-------CCCCccccccCCccCCCCCCCcccCc
Q 001242 122 VVNQIH---SKYSIRK--D------TQ--HQF--N----------AR-------ESDWGFTSFMPLGDLYDPSRGYLVND 169 (1116)
Q Consensus 122 L~n~~~---~~~~~~~--~------~~--h~F--~----------~~-------~~dwG~~~Fi~l~~L~~p~~gfL~nD 169 (1116)
|++|+. ...++.. + +. ..| . .. +.+|||+.|+++.+|.. +.||+||
T Consensus 81 LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~~--r~yikdD 158 (167)
T cd03782 81 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLRS--RDFIKGD 158 (167)
T ss_pred EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHhh--cCcccCC
Confidence 999963 2122211 0 00 123 1 11 56899999999999954 8999999
Q ss_pred cceeeeee
Q 001242 170 SVVVEAEV 177 (1116)
Q Consensus 170 sl~I~~~V 177 (1116)
++.|-..+
T Consensus 159 ~ifi~~~~ 166 (167)
T cd03782 159 DVIFLLTM 166 (167)
T ss_pred eEEEEEec
Confidence 99887654
No 59
>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase
Probab=98.37 E-value=1.2e-06 Score=92.65 Aligned_cols=224 Identities=18% Similarity=0.263 Sum_probs=127.2
Q ss_pred ccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhcc--cCccccccc
Q 001242 200 KNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFG--WDTYDSFMQ 277 (1116)
Q Consensus 200 ~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~--~~~~~~~~Q 277 (1116)
+|-.|-||+-++|-+|.|+..+|+.+-... ....++...|...+.+.+. .+.+......-+ ........=
T Consensus 6 ~N~~aLCWLDciLsaLVh~~~Lk~~~~~~~-----~~e~s~~~~L~~~Y~qa~~---ll~~~q~~~~~~~~~~~~~~~~l 77 (275)
T PF15499_consen 6 KNSNALCWLDCILSALVHLESLKNAVTELC-----SKEESVFWRLFTKYNQANK---LLHTCQLDGVKDDDCKKVPSEIL 77 (275)
T ss_pred cCccccHHHHHHHHHHHHHHHHHHHHhhhc-----cccccHHHHHHHHHHHHHH---HHHhhhhcCCCCcccccCchHHH
Confidence 688899999999999999999999995422 2234555555444443321 111111000000 000000001
Q ss_pred ccHHHHHH----HHHHHHHHhhcC---C---c---------cccccccccceEEeeeEEeeceeeeccee--eeeeeeee
Q 001242 278 HDVQELNR----VLCEKLEDKMKG---T---V---------VEGTIQQLFEGHHMNYIECINVDYKSTRK--ESFYDLQL 336 (1116)
Q Consensus 278 qDa~Efl~----~Lld~Le~~~~~---~---~---------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~--e~f~~L~L 336 (1116)
.+|..-+. .+++.|.-.++= . + .+..+.++|.-.+.=...|..||+..... -..-..+-
T Consensus 78 ~~ae~~Ln~vR~~iF~~LqPkL~C~LG~~ESPVFAlPLLLk~d~~~E~lF~~sf~WeFeC~~Cg~~~~~R~~K~L~TFtn 157 (275)
T PF15499_consen 78 AKAETCLNEVRMEIFIQLQPKLRCKLGDMESPVFALPLLLKLDPWIEKLFLYSFSWEFECSQCGHKYQNRCTKTLVTFTN 157 (275)
T ss_pred HHHHHHHHHHHHHHHHHhCccCCCCCCCccCcHHHhHHHHhcchHHHhHhheeeEEEEEccccCChhhhhheeeecccCC
Confidence 12222222 233333322221 0 0 24567889999999999999999865421 11111111
Q ss_pred eccCCCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceEecCcccc
Q 001242 337 DVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLD 416 (1116)
Q Consensus 337 ~v~~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ld 416 (1116)
.++.-.-|..+ ..--|.+|+...-.+++.+.++|+|+++|+- .| .|.. |
T Consensus 158 v~pdwhPLnA~-------------h~~pCn~C~~ksQ~rkMvlekv~~vfmLHFV-------eG----------LP~n-d 206 (275)
T PF15499_consen 158 VIPDWHPLNAV-------------HFGPCNSCNSKSQRRKMVLEKVPPVFMLHFV-------EG----------LPHN-D 206 (275)
T ss_pred CCCCCCccccc-------------ccCCCcccCChHHhHhhhhhcCchhhhhhhh-------cc----------CCcc-C
Confidence 12221112211 2235899987777888999999999999953 12 1222 2
Q ss_pred CCcccCCCCCCCcCcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCce
Q 001242 417 LDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDER 473 (1116)
Q Consensus 417 l~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~ 473 (1116)
+..|.-. -++..|++.+||-+.-. --|++++|++. +|.|.+|||-+
T Consensus 207 l~~ysF~--------feg~~Y~Vt~VIQY~~~--~~HFvtWi~~~-dGsWLecDDLk 252 (275)
T PF15499_consen 207 LQHYSFH--------FEGCLYQVTSVIQYQAN--LNHFVTWIRDS-DGSWLECDDLK 252 (275)
T ss_pred CCcccee--------ecCeeEEEEEEEEEecc--CceeEEEEEcC-CCCeEeeccCC
Confidence 2111111 13567999999988643 57999999997 88899999964
No 60
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.84 E-value=6.2e-05 Score=85.60 Aligned_cols=121 Identities=45% Similarity=0.761 Sum_probs=97.3
Q ss_pred EEEEEcCccccCCCeeecCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccce-eee
Q 001242 55 FTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKY-SIR 133 (1116)
Q Consensus 55 ~tw~I~nfS~l~~~~~~Sp~F~vgG~~W~I~lyP~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~L~n~~~~~~-~~~ 133 (1116)
++|.|.+++... ..++|..|..||..|++.+||.|+ ++|.|+.+.... +|.+.|.+.|.+.|+..... ...
T Consensus 6 ~~~~~~~~~~~~-l~~ys~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~~~~~ 77 (297)
T KOG1987|consen 6 FTWVISNFSSVG-LVIYSNGFVKGGCKWRLSAYPKGN---YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKYLSTV 77 (297)
T ss_pred cceeeccCcchh-hhccccceeecCceEEEEEecCCC---EEEEEEEeccCC----CcceeEEEEEEEccCCCcceeeee
Confidence 449999999984 788999999999999999999996 788888877543 89999999999999977643 332
Q ss_pred ecceeeecC--CCCCCccccccCCccCCCCCCCcccCccceeeeeeeeeccc
Q 001242 134 KDTQHQFNA--RESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKVL 183 (1116)
Q Consensus 134 ~~~~h~F~~--~~~dwG~~~Fi~l~~L~~p~~gfL~nDsl~I~~~V~V~~~~ 183 (1116)
......|.. -..+||+..+++...+.++..||+.++.+.+.+.+.|.+..
T Consensus 78 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~ 129 (297)
T KOG1987|consen 78 EEGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAM 129 (297)
T ss_pred eeeEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeee
Confidence 223444444 36789999999999998888999999888887777666643
No 61
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.00073 Score=82.42 Aligned_cols=196 Identities=18% Similarity=0.136 Sum_probs=97.5
Q ss_pred cccCCcccchhhHHHHHhcchhHHHHHccCCCCCC---------CCCCCCHHHHHHHHHHHHhc---C---Cc--ccccc
Q 001242 199 LKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN---------DLPSGSIPLALQSLFYKLQY---N---DT--SVATK 261 (1116)
Q Consensus 199 L~N~GnTCY~NSvLQ~L~~~p~fr~~l~~~~~~~~---------~~~~~~~~~~Lq~Lf~~l~~---s---~~--~v~~~ 261 (1116)
|.|.||+||.||+||+|..+|+|+..+.+++.... ........+..+.+-.-+.. . .. ..+..
T Consensus 34 l~n~gn~cy~ns~~Q~~~~~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~ 113 (587)
T KOG1864|consen 34 LVNTGNSCYYNSTLQALSSCPPFVSRVEQLPRLVRPKIEALKDSLNRKKTRIFDEKSLEAVTLNFSKNSSSNESFNLSVT 113 (587)
T ss_pred EeecCCchhhhhHHHHHhhccHHHHHHHHHHHhcccccccCchhhccccccchhHHHHHHHHHhhhccCCccccccchHH
Confidence 99999999999999999999999987755432110 01111122222222211111 0 11 11112
Q ss_pred hhhhhcc-----cCcccccccccHHHHHHHHHHHHHHhhcCCccccccc----------cccceEEeeeEEeeceeeec-
Q 001242 262 ELTKSFG-----WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQ----------QLFEGHHMNYIECINVDYKS- 325 (1116)
Q Consensus 262 ~l~~s~~-----~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~----------~lF~g~~~~~i~C~~C~~~s- 325 (1116)
.+...+. ...+....|+|+++++..|+-.+...+......-... ..+.....+ ..|..+...+
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~l~~~~~~~~~~~~~~vv~~~~~~~~~~~~~~~~i~~~~-~~~~~~~~~~~ 192 (587)
T KOG1864|consen 114 QLVQSRLNNGKKYAEFNNNDQRDAHNFLLELMAMVDDVMGVSEEPVVYNDTSAIFLNPSLVHKITPKN-VVEQPYKKEST 192 (587)
T ss_pred HHHHHHhhhhhhhhhhhcccHhhhhhhhhhhhHHHhhhcccCcccceeccccccccCcccccccCcCc-ccccccccccc
Confidence 2222221 2345667899999999999999988776433211111 112222222 3333332222
Q ss_pred ----ceeeeeeeeeeeccCCC----CHHHHHhhcceeEEecCCCcccccccC----ceeeeeeeEeecCCCeEEEEEeeE
Q 001242 326 ----TRKESFYDLQLDVKGCR----DVYASFDKYVEVERLEGDNKYHAEEHG----LQDAKKGVLFIDFPPVLQLQLKRF 393 (1116)
Q Consensus 326 ----~~~e~f~~L~L~v~~~~----sL~e~L~~~~~~E~l~g~n~y~C~~c~----~~~a~k~~~i~~lP~vL~i~LkRF 393 (1116)
........+++...... ........+...+...|.+.+.|.+|. ...+.+.....+-|..+.....|+
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~ 272 (587)
T KOG1864|consen 193 SVPSESNKILSNICMGQSLSSELLKEKGPTFSYSNANERVFGTNNFSNTCCCNFQSVEEALYFCRPFREAVLLYLTSLKR 272 (587)
T ss_pred ccchhhccccceeehhcccccccccccCCccccccccccccCccccCccccccchhhHHHHHhhhhhcccccchhhcccc
Confidence 11122223333333111 122233444466777777777776653 233334333444555566655555
Q ss_pred Ee
Q 001242 394 EY 395 (1116)
Q Consensus 394 ~~ 395 (1116)
.+
T Consensus 273 ~~ 274 (587)
T KOG1864|consen 273 SY 274 (587)
T ss_pred hh
Confidence 44
No 62
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=94.22 E-value=0.1 Score=67.41 Aligned_cols=151 Identities=21% Similarity=0.247 Sum_probs=105.8
Q ss_pred EEEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCc
Q 001242 885 YYEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPN 964 (1116)
Q Consensus 885 ~YEvL~ipl~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~ 964 (1116)
.+..|++|+..=+....-.+.+..+.......+.+-++++++++||++.+.+.+++. ..+|++.+|.++++++++..+
T Consensus 418 ~f~~Lslp~p~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~l~~~~~~~--~~~l~~~~i~~~~~~~~~~~~ 495 (842)
T KOG1870|consen 418 PFGYLSLPLPGKEIQKLEVTVPHGDGFRKPGALGVSVAKNGRIRDLLEYLSRTVGLL--SWELKPVEILFDCFNKIFAAD 495 (842)
T ss_pred ccccccccCCCCcccceeEEEecCCCCCChhheeeeccccchHHHHHHHHHHHhccc--hhhcccceeccchhhhhhccC
Confidence 344566777644444444555666666667788999999999999999999999987 778999999999999999999
Q ss_pred -ccccccccccceeEeeecchhhccCCCCCeEEEEEEeeccCc----ccccccccCCccEEEEecCCCC--HHHHHHHHH
Q 001242 965 -EKIENINDQYWTLRAEEIPEEEKNLGPNDRLIHVYHFTKESA----QNQMQVQNFGEPFFLVIHEGET--LAEVKERIQ 1037 (1116)
Q Consensus 965 -~~i~~i~~~~~~~~~E~iP~ee~~~~~~~~li~V~hf~k~~~----~~h~~~~~fG~PF~~~v~~~E~--~~~~k~Rl~ 1037 (1116)
.....|.. ...++..++|. .......-.++++.|-.+.+. +.|....+||.||++.+..|.+ -.++..-+.
T Consensus 496 ~~~~~~i~~-~~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~p~~~~~~~~~~~t~~~l~~~~~ 573 (842)
T KOG1870|consen 496 ELKLDSIYS-DEELFDYELGV-LKVQGSIYAIIVVRFRSRLPRSKGIRSHVSSKLFGLPLLVSVLSGAQSTEEDLLSVIC 573 (842)
T ss_pred ccccccccC-CcceEEeeccc-ccccccceEEEEEeeccccccccCcccCCCccccCCcceeeccCCCcccccchhhHHh
Confidence 46666654 45677777776 211112334666666666643 2344457999999999999753 334444444
Q ss_pred HH
Q 001242 1038 RK 1039 (1116)
Q Consensus 1038 ~r 1039 (1116)
.+
T Consensus 574 ~~ 575 (842)
T KOG1870|consen 574 HR 575 (842)
T ss_pred hc
Confidence 33
No 63
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=92.72 E-value=0.49 Score=56.75 Aligned_cols=123 Identities=19% Similarity=0.276 Sum_probs=81.5
Q ss_pred EEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcc
Q 001242 886 YEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNE 965 (1116)
Q Consensus 886 YEvL~ipl~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~ 965 (1116)
|=-|++|++ .--++.+++.-.+.... .+.+.+.+.+|+.+|.+.+.+..+... -.+|.+-+|+.++.++++.+-.
T Consensus 443 dlTLPLPvs-~vw~htiv~fp~~g~~~---pl~iel~~sSt~~~lk~lv~~~~gk~g-c~ei~v~~iy~g~~y~~l~~~d 517 (823)
T COG5560 443 DLTLPLPVS-MVWKHTIVVFPESGRRQ---PLKIELDASSTIRGLKKLVDAEYGKLG-CFEIKVMCIYYGGNYNMLEPAD 517 (823)
T ss_pred hccccCchh-hcccccEEEECCCCCCC---ceEEEEeccchHHHHHHHHHHHhccCC-ccceeEEEEEeccchhhcchhh
Confidence 334566665 44555555555444333 478899999999999999988888753 3489999999999999998765
Q ss_pred c--ccccccccceeEeeecchhhccCCCCCeEEEEEEeeccCcccccccccCCccEEEEec
Q 001242 966 K--IENINDQYWTLRAEEIPEEEKNLGPNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIH 1024 (1116)
Q Consensus 966 ~--i~~i~~~~~~~~~E~iP~ee~~~~~~~~li~V~hf~k~~~~~h~~~~~fG~PF~~~v~ 1024 (1116)
. +..|.. .+.++.-+ ..+++.+|||+|---+.. .+.-..||.|| +.+.
T Consensus 518 k~ll~~I~~-~d~vylYe-------~~~ngi~vpvvh~~~~~g--Yks~rlFg~pf-lqln 567 (823)
T COG5560 518 KVLLQDIPQ-TDFVYLYE-------TNDNGIEVPVVHLRIEKG--YKSKRLFGDPF-LQLN 567 (823)
T ss_pred HHHHhhcCc-cceEEEee-------cCCCCeEEEEEecccccc--ccchhhhCCcc-eEEE
Confidence 4 333543 22333222 234679999999943333 22347999997 4443
No 64
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=92.70 E-value=0.99 Score=48.76 Aligned_cols=152 Identities=19% Similarity=0.227 Sum_probs=80.9
Q ss_pred eEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCC--CCCceEEecccccCCCCCCCCccccCcchHHHhhhccC
Q 001242 801 QIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLD--DPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVHYN 878 (1116)
Q Consensus 801 ~~v~f~~~~~~~~~~f~l~ls~~~~Y~~~a~~va~~l~~~--~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 878 (1116)
+.|++..-.......+++.+++.-|-.+|.+++++++++. +..+||+|.. +++ ....+ .+...+|.++ ..+
T Consensus 21 ~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev--~~~--ki~~~-~~~d~~i~~l-~~~- 93 (213)
T PF14533_consen 21 FKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEV--SNH--KIYKI-LSEDEPISSL-NDY- 93 (213)
T ss_dssp EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEE--ETT--EEEEE-E-TTSBGGGS---T-
T ss_pred EEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEe--ECC--EEEee-cCCCCchhhc-cCc-
Confidence 4455554333334579999999999999999999999874 2468999983 221 11111 1123445544 111
Q ss_pred CccceEEEEEeccChhhhccC------ceEEEEEEcC--CCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCC-CCccEEE
Q 001242 879 QTSDILYYEVLDIPLPELQGL------KNLKVAFHHA--TKDEVVIHNIRLPKQSTVGDVINELKTKVELSH-PNAELRL 949 (1116)
Q Consensus 879 ~~~~~l~YEvL~ipl~elE~~------k~~kv~w~~~--~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~-~~~~lrl 949 (1116)
..++-| .+|-.|++.. +.|.|.=... ...+-..+.|.|.++.|+.|+.+.|++++|+++ +-.|+++
T Consensus 94 ---~~~r~E--~ip~ee~~~~~~~~~~~li~V~hf~k~~~~~hGiPF~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kf 168 (213)
T PF14533_consen 94 ---ITLRIE--EIPEEELNLDDESEGEKLIPVFHFHKDPSRTHGIPFLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKF 168 (213)
T ss_dssp ---TEEEEE--E--GGGSS--TT--TEEEEEEEEESSSTT-EEEEEEEEEEETT--HHHHHHHHHHHH---HHHHTT-EE
T ss_pred ---ceeeee--cCChHHhhcccccccceEEEEEEEecCccccCCCCEEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEE
Confidence 123444 6777775543 5565554432 334447789999999999999999999999987 4578999
Q ss_pred EEEeccEEE--EecCCc
Q 001242 950 LEVFYHKIY--KIFAPN 964 (1116)
Q Consensus 950 ~~i~~~ki~--~~~~~~ 964 (1116)
.-+.+++.. ..++.+
T Consensus 169 aiv~~~~~~~~~yl~d~ 185 (213)
T PF14533_consen 169 AIVQNSRYSKPRYLEDD 185 (213)
T ss_dssp EEEETTEE---EE--TT
T ss_pred EEEecCCcccceecccc
Confidence 889888873 444443
No 65
>PF08715 Viral_protease: Papain like viral protease; InterPro: IPR014827 This family of viral proteases are similar to the papain protease and are required for proteolytic processing of the replicase polyprotein. The structure of this protein has shown it adopts a fold similar to that of de-ubiquitinating enzymes []. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity; PDB: 3MP2_A 3EWP_B 3EWO_B 2FE8_A 3MJ5_B 3EKE_A 3EJF_A 3JZT_H 3ETI_E 3E9S_A.
Probab=92.50 E-value=0.7 Score=52.56 Aligned_cols=100 Identities=13% Similarity=0.167 Sum_probs=52.7
Q ss_pred CcccccccccCCcccchhhHHHHHhcchh-HHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCcccccchhhhhc-cc
Q 001242 192 KETGYVGLKNQGATCYMNSLLQTLYHIPY-FRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSF-GW 269 (1116)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~p~-fr~~l~~~~~~~~~~~~~~~~~~Lq~Lf~~l~~s~~~v~~~~l~~s~-~~ 269 (1116)
...|++=|+=.-|.||+||++=+|=+... |+ .-+++.++.++..++. ..|...+ ..
T Consensus 98 ~~~g~~~Lkq~dNNCwVna~~~~LQ~~~~~f~------------------~~~l~~aw~~f~~G~~----~~fVa~~Ya~ 155 (320)
T PF08715_consen 98 VVNGFRVLKQSDNNCWVNAACLQLQALKIKFK------------------SPGLDEAWNEFKAGDP----APFVAWCYAS 155 (320)
T ss_dssp EETTEEEE---TTTHHHHHHHHHHTTST--BS------------------SHHHHHHHHHHHTT------HHHHHHHHHH
T ss_pred EECCEEEEEecCCCcHHHHHHHHHHhcCCccC------------------CHHHHHHHHHHhCCCh----HHHHHHHHHH
Confidence 34677778888899999999877644421 21 1256666666555432 2222211 11
Q ss_pred CcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecc
Q 001242 270 DTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKST 326 (1116)
Q Consensus 270 ~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~ 326 (1116)
.....++..||++++..|++.+... ....+.....|..||....
T Consensus 156 ~~~~~G~~gDa~~~L~~ll~~~~~~-------------~~~~~~~~~~~c~CG~k~~ 199 (320)
T PF08715_consen 156 TNAKKGDPGDAEYVLSKLLKDADLD-------------YSVTMTKLEVCCGCGVKQE 199 (320)
T ss_dssp TT--TTS---HHHHHHHHHTTB-TT-------------T-EEEEEEEEECTTEEEEE
T ss_pred cCCCCCCCcCHHHHHHHHHHhcccc-------------ceEEEEEeeeeccCCccee
Confidence 2345567889999999998766432 2233445567889986543
No 66
>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=90.03 E-value=1.8 Score=47.99 Aligned_cols=175 Identities=19% Similarity=0.280 Sum_probs=95.9
Q ss_pred cchHHHhhhccCC--ccceEEEEEec-----cChhhhccCc--eEEEEEEcCCCCeE-EEEEEEcCCCCCHHHHHHHHHh
Q 001242 867 VEHLSDMLVHYNQ--TSDILYYEVLD-----IPLPELQGLK--NLKVAFHHATKDEV-VIHNIRLPKQSTVGDVINELKT 936 (1116)
Q Consensus 867 ~~~l~~~l~~~~~--~~~~l~YEvL~-----ipl~elE~~k--~~kv~w~~~~~~~~-~~~~~~v~k~~tv~dll~~l~~ 936 (1116)
..++.++...... ..-+||=|+++ .++....... .+=+.+.++..+.. ..=.++|+++.+|++|+..+.+
T Consensus 27 ~~tl~~~~~~~~~~~~~~~lflE~~~~~~~~~~~~~~~~~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~ 106 (249)
T PF12436_consen 27 DMTLEEVRNKDSNKQSELRLFLEEASPNSPSEPLPPYDPSDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINE 106 (249)
T ss_dssp TSBCHHHHTS--S---SEEEEEEE--HHTTT-------TTTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHH
T ss_pred cccHHHHhhcccccccccEEEEeccCcccccccCCCCCCCCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHH
Confidence 4677777654222 12367878753 2233232232 34455566654433 4447899999999999999999
Q ss_pred hccCCCCCccEEEEEE-eccEEEEecCCcccccc--cccccceeEeeecchhhccCC---CC--------CeEEEEEEee
Q 001242 937 KVELSHPNAELRLLEV-FYHKIYKIFAPNEKIEN--INDQYWTLRAEEIPEEEKNLG---PN--------DRLIHVYHFT 1002 (1116)
Q Consensus 937 ~~~~~~~~~~lrl~~i-~~~ki~~~~~~~~~i~~--i~~~~~~~~~E~iP~ee~~~~---~~--------~~li~V~hf~ 1002 (1116)
.+|++. +..|.+||- ..++|..+ ++..++.. |.+ ++.|..+..+.++.... ++ -..|.| +|.
T Consensus 107 ~~g~p~-~t~l~lyEEi~~~~ie~i-~~~~t~~~~el~~-GdIi~fQ~~~~~~~~~~~~~~~v~~Yy~~l~nrv~V-~f~ 182 (249)
T PF12436_consen 107 RAGLPP-DTPLLLYEEIKPNMIEPI-DPNQTFEKAELQD-GDIICFQRAPSEDLDKSSRYPDVKEYYDFLYNRVEV-EFK 182 (249)
T ss_dssp HHT--T-T--EEEEEEEETTEEEE---SSSBHHHTT--T-TEEEEEEE--GG--GGGSSS-SHHHHHHHHHHEEEE-EEE
T ss_pred HcCCCC-CCceEEEEEeccceeeEc-CCCCchhhcccCC-CCEEEEEeccccccccccCCCCHHHHHHHHhCeEEE-EEE
Confidence 999964 457999965 56778777 66665554 444 67888877665321111 11 022222 444
Q ss_pred c--cCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEec
Q 001242 1003 K--ESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSL 1057 (1116)
Q Consensus 1003 k--~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~ 1057 (1116)
. .+. +-+|.+.+...-++.++-++|.++||+.. .+++|--+..
T Consensus 183 ~~~~~~---------~~~F~l~ls~~~tY~~la~~Va~~l~~dP---~~lr~~~~~~ 227 (249)
T PF12436_consen 183 PKDNPN---------DPEFTLWLSKKMTYDQLAEKVAEHLNVDP---EHLRFFTVNP 227 (249)
T ss_dssp ETTSTT------------EEEEEETT--HHHHHHHHHHHHTS-G---GGEEEE---T
T ss_pred ECCCCC---------CCCEEEEECCCCCHHHHHHHHHHHHCCCh---HHEEEEEecc
Confidence 3 222 45999999999999999999999999955 5788877743
No 67
>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=89.37 E-value=0.49 Score=41.49 Aligned_cols=57 Identities=26% Similarity=0.357 Sum_probs=43.8
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEE
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIIC 772 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~ 772 (1116)
-++.|..+.+++.|+...++..|+|+++.+.|+= + + +.++++.|+...+|.+||+|=
T Consensus 13 ~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~f----d-G---~~L~~~~T~~~~~ied~d~Id 69 (72)
T PF11976_consen 13 IKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIF----D-G---KRLDPNDTPEDLGIEDGDTID 69 (72)
T ss_dssp EEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEE----T-T---EEE-TTSCHHHHT-STTEEEE
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCccceEEEEE----C-C---EEcCCCCCHHHCCCCCCCEEE
Confidence 3567889999999999999999999966665531 1 2 457888999999999999973
No 68
>KOG3556 consensus Familial cylindromatosis protein [General function prediction only]
Probab=88.17 E-value=0.25 Score=57.50 Aligned_cols=30 Identities=17% Similarity=0.440 Sum_probs=22.6
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHH
Q 001242 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAV 225 (1116)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~p~fr~~l 225 (1116)
+.|+.-+-|.||+||.|-++|.-......+
T Consensus 368 ~kgiqgh~nscyldstlf~~f~f~sv~dS~ 397 (724)
T KOG3556|consen 368 IKGIQGHPNSCYLDSTLFKPFEFDSVTDST 397 (724)
T ss_pred cccccCCcchhhcccccccccccccccccc
Confidence 467777789999999999888765544444
No 69
>KOG1887 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=87.74 E-value=0.11 Score=63.96 Aligned_cols=190 Identities=17% Similarity=0.262 Sum_probs=108.2
Q ss_pred cccHHHHHHHHHHHHHHhhcCCc--------------------cccccccccceEEeeeEEeeceeeeccee-eeeeeee
Q 001242 277 QHDVQELNRVLCEKLEDKMKGTV--------------------VEGTIQQLFEGHHMNYIECINVDYKSTRK-ESFYDLQ 335 (1116)
Q Consensus 277 QqDa~Efl~~Lld~Le~~~~~~~--------------------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~-e~f~~L~ 335 (1116)
..++.++|..++..|++...... ..+..+++|+-.......|..|...+... ..-+-+.
T Consensus 549 ~~~~S~lL~~ll~~l~~~~~~ss~~~~v~~aile~~~~Wk~~er~~l~~~lf~l~~~e~~Sc~~cr~~~n~peqsS~~~~ 628 (806)
T KOG1887|consen 549 EGVYSELLSDLLLSLEEVHNASSSAADVVVAILEFWQCWKNPERESLVNRLFTLEEKERMSCSKCRRDLNYPEQSSYGIV 628 (806)
T ss_pred hhhHHHHHHHHHhhhHHHhhhcchhhHHHHHHHhcccccccHHHHHHHHhhhhhhhhhhccccccccCCCCcchhhhhhh
Confidence 44666777777777766554321 34567789998888899999998765433 1111222
Q ss_pred eeccCCCCHHHHHh-----hcceeEEecCCCccccc----ccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeecc
Q 001242 336 LDVKGCRDVYASFD-----KYVEVERLEGDNKYHAE----EHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKIN 406 (1116)
Q Consensus 336 L~v~~~~sL~e~L~-----~~~~~E~l~g~n~y~C~----~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~ 406 (1116)
+.......+.-++. .+++. +.-+.+..|+ +||+.. .-...|.+.|+|++|.|.- ++....|..
T Consensus 629 ~~a~slr~~k~a~~n~~f~~ilk~--i~m~~~m~cD~~~gGCgk~n-~v~h~is~~P~vftIvlew-----Ek~ETe~eI 700 (806)
T KOG1887|consen 629 IAADSLRQLKCAFQNITFEDILKN--IRMNDKMLCDKETGGCGKAN-LVHHILSPCPPVFTIVLEW-----EKSETEKEI 700 (806)
T ss_pred ccchhhhhHHHHhhhhhHHHHHHH--hhhhhhhcccccCCCCcchh-hhhhhcCCCCCeeEeeeeh-----hcccchHHH
Confidence 22222222222222 22222 1111234452 477543 3344578899999996642 122222221
Q ss_pred --ceEecCccccCCcccCCCCCCCcCcCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEE--EEeCceeeEe-chHh
Q 001242 407 --DRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWY--KFDDERVTKE-DVKR 481 (1116)
Q Consensus 407 --~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~--~fnD~~Vt~v-~~~~ 481 (1116)
+...+..++|++ ..|- .. -.....|+|+++|.-.+. +++|.|+... .+.|. +.+|..+..+ +|.+
T Consensus 701 ~~T~~aL~teidis---~~y~-~g--~ep~t~yrLVSmv~~~e~--~~~~~C~Aye--~Nrwvs~r~~~~~~e~iG~w~d 770 (806)
T KOG1887|consen 701 SETTKALATEIDIS---RLYR-EG--LEPNTKYRLVSMVGNHEE--GEEYICFAYE--PNRWVSLRHEDSQGEVVGDWKD 770 (806)
T ss_pred HHHHHHHHhhhhHH---HHhh-hc--cCcCceeEEEEEeeeccc--cceEEEeecc--CCcchhhHHHHHHhhhccchHH
Confidence 112234456663 2221 11 124578999999976543 7899999998 57777 9999887777 5667
Q ss_pred HHH
Q 001242 482 ALE 484 (1116)
Q Consensus 482 vl~ 484 (1116)
|+.
T Consensus 771 vvr 773 (806)
T KOG1887|consen 771 VVR 773 (806)
T ss_pred HHH
Confidence 764
No 70
>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=86.77 E-value=0.9 Score=40.99 Aligned_cols=62 Identities=15% Similarity=0.229 Sum_probs=37.2
Q ss_pred EEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccC--CcCCccccccCCCCCEEEE
Q 001242 706 YVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHL--DKRTSFRLSQIEDGDIICF 773 (1116)
Q Consensus 706 ~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i--~~~~t~~~~el~~GDIi~f 773 (1116)
|.-.+-++.++++++|...|.+.+++|.+ .+.||-+-. ++ ..+ ....|+.+..|.|||+|..
T Consensus 14 G~~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~--~~---~~l~s~~~~tl~~lglkHGdmlyL 77 (80)
T PF11543_consen 14 GMKRIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRN--NK---EELKSSDSKTLSSLGLKHGDMLYL 77 (80)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGG--GG---GCSSS-TT-CCCCT---TT-EEE-
T ss_pred CCEEEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCC--CC---cccccCCcCCHHHcCCCCccEEEE
Confidence 56677788999999999999999999977 567775432 22 333 4578999999999999965
No 71
>PF05408 Peptidase_C28: Foot-and-mouth virus L-proteinase; InterPro: IPR008739 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C28 (clan CA).The protein fold of the peptidase unit for members of this family resembles that of papain. The leader peptidase of Foot-and-mouth disease virus cleaves itself from the growing polyprotein and also cleaves the host translation initiation factor 4GI (eIF4G), thus inhibiting 5'-cap dependent translation [].; GO: 0004197 cysteine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 2JQF_R 1QMY_B 1QOL_G 2JQG_R.
Probab=86.75 E-value=0.29 Score=50.14 Aligned_cols=29 Identities=28% Similarity=0.265 Sum_probs=23.3
Q ss_pred CCCceEEEEEecCCCCCEEEEeCceeeEech
Q 001242 449 VHGGHYYAFIRPTLSDQWYKFDDERVTKEDV 479 (1116)
Q Consensus 449 ~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~ 479 (1116)
-..||-+.+.+. .+.||.+||+.+.+.++
T Consensus 136 ~g~~Havfa~~t--s~gWy~iDDe~~y~~tP 164 (193)
T PF05408_consen 136 KGQEHAVFACVT--SDGWYAIDDEDFYPWTP 164 (193)
T ss_dssp ESTTEEEEEEEE--TTCEEEEETTEEEE---
T ss_pred cCCcceEEEEEe--eCcEEEecCCeeeeCCC
Confidence 346899999998 69999999999999865
No 72
>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=86.50 E-value=2.4 Score=38.05 Aligned_cols=68 Identities=12% Similarity=0.162 Sum_probs=46.4
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEee
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 671 (1116)
...+|++...++.+|++.|++.++++++.+.|+.-....+.. -++.+++++..+.++ ++.-+.||.+.
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~----v~l~d~dle~aws~~-------~~~~lTLwC~~ 79 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGED----VILSDTNMEDVWSQA-------KDGCLTLWCTL 79 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCc----cCcChHHHHHHHHhh-------cCCeEEEEEec
Confidence 356899999999999999999999999999988644333332 134333333333332 34568888873
No 73
>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=86.46 E-value=2.7 Score=38.47 Aligned_cols=73 Identities=19% Similarity=0.196 Sum_probs=55.7
Q ss_pred CCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCC
Q 001242 687 KDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIE 766 (1116)
Q Consensus 687 ~~~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~ 766 (1116)
+..|.||+|.- ...++. +-|..+++++.|...++++.|+|+++--.+|.= ..|+++.|.....++
T Consensus 9 ~~~i~I~v~~~--~g~~~~----~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G---------~~L~~~~T~~~l~m~ 73 (87)
T cd01763 9 SEHINLKVKGQ--DGNEVF----FKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDG---------QRIRDNQTPDDLGME 73 (87)
T ss_pred CCeEEEEEECC--CCCEEE----EEEcCCCHHHHHHHHHHHHhCCCccceEEEECC---------eECCCCCCHHHcCCC
Confidence 44577777544 333333 458999999999999999999998765555542 457788999999999
Q ss_pred CCCEEEEE
Q 001242 767 DGDIICFQ 774 (1116)
Q Consensus 767 ~GDIi~fQ 774 (1116)
+||+|-+-
T Consensus 74 d~d~I~v~ 81 (87)
T cd01763 74 DGDEIEVM 81 (87)
T ss_pred CCCEEEEE
Confidence 99999764
No 74
>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=84.37 E-value=4.5 Score=36.78 Aligned_cols=64 Identities=25% Similarity=0.354 Sum_probs=48.2
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEecc-EEEEecCCcccc
Q 001242 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYH-KIYKIFAPNEKI 967 (1116)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~-ki~~~~~~~~~i 967 (1116)
+||+--+. .....-.+.|+++.|..||+..+.+++++.+......|+++..+ ...+.+.+++..
T Consensus 2 ikV~~~~~--~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~p 66 (87)
T cd01768 2 LRVYPEDP--SGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECP 66 (87)
T ss_pred EEEeCCcC--CCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCCh
Confidence 45555443 12233489999999999999999999999876678999999876 566666666643
No 75
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=83.14 E-value=0.84 Score=53.93 Aligned_cols=77 Identities=25% Similarity=0.441 Sum_probs=61.8
Q ss_pred CCCCcEEEEEEcCccccC-------CCeeecCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCCC-CceEE
Q 001242 49 DPPTMKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLPY-GWSRY 115 (1116)
Q Consensus 49 ~~~~~~~tw~I~nfS~l~-------~~~~~Sp~F~vg--G~~W~I~lyP~G~~---~~~lSiyL~~~~~~~~~~-~W~~~ 115 (1116)
....|++.|+|.+|+..+ ...+.|+.|... ||.-+..+|-+|++ .-++|+|+....++.++. .|.+.
T Consensus 276 ~~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~ 355 (391)
T KOG0297|consen 276 RSYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFR 355 (391)
T ss_pred hccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCC
Confidence 356899999999996543 347889999774 88877777777763 358999999998766544 89999
Q ss_pred EEEEEEEEee
Q 001242 116 AQFSLAVVNQ 125 (1116)
Q Consensus 116 a~f~l~L~n~ 125 (1116)
-++++.+++|
T Consensus 356 ~~v~~~l~dq 365 (391)
T KOG0297|consen 356 QKVTLMLLDQ 365 (391)
T ss_pred CceEEEEecc
Confidence 9999999998
No 76
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=82.40 E-value=5.9 Score=36.30 Aligned_cols=63 Identities=24% Similarity=0.323 Sum_probs=47.4
Q ss_pred eEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcc
Q 001242 901 NLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNE 965 (1116)
Q Consensus 901 ~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~ 965 (1116)
.+||+.-.. ....--.+.|+++.|+.||+..+.+++++.+......|+++..+...+.+.+++
T Consensus 4 ~lrV~~~~~--~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e 66 (90)
T smart00314 4 VLRVYVDDL--PGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDE 66 (90)
T ss_pred EEEEecccC--CCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCC
Confidence 466666432 222345899999999999999999999997656789999998555566666655
No 77
>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=79.94 E-value=2.2 Score=38.36 Aligned_cols=62 Identities=18% Similarity=0.286 Sum_probs=39.0
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEE--EEEEeecCcceeeccCCcCCccccccCCCCCEEEE
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIE--LYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICF 773 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~--lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~f 773 (1116)
--+.++.+.+|++|+|.|.+.++.+....-. -|.=.+ ..+ .+++++.|+.++.+.|||+|+-
T Consensus 15 ~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~-~~g---~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 15 VDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLAR-AGG---RPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG--GGT---EEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEe-cCC---cccCCcCcHhHcCCCCCCEEEe
Confidence 3467899999999999999999986443210 122221 122 3799999999999999999975
No 78
>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=77.92 E-value=5.8 Score=35.07 Aligned_cols=70 Identities=17% Similarity=0.301 Sum_probs=51.8
Q ss_pred EEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCC--CCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCC
Q 001242 692 LFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGF--DPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGD 769 (1116)
Q Consensus 692 lFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~--p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GD 769 (1116)
||+|..+-.+ -.+-+..+.+|++|...|.+..|+ |++..-.+|. + ..++.+.++....+++|+
T Consensus 3 i~vk~~~g~~------~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~------G---~~L~d~~~L~~~~i~~~~ 67 (77)
T cd01805 3 ITFKTLKQQT------FPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYS------G---KILKDDTTLEEYKIDEKD 67 (77)
T ss_pred EEEEeCCCCE------EEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEEC------C---EEccCCCCHHHcCCCCCC
Confidence 6677765432 124578889999999999999999 7765555553 2 346677899999999999
Q ss_pred EEEEEeC
Q 001242 770 IICFQKS 776 (1116)
Q Consensus 770 Ii~fQ~~ 776 (1116)
+|..-..
T Consensus 68 ~i~~~~~ 74 (77)
T cd01805 68 FVVVMVS 74 (77)
T ss_pred EEEEEEe
Confidence 8887643
No 79
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=76.73 E-value=10 Score=35.38 Aligned_cols=62 Identities=31% Similarity=0.377 Sum_probs=46.8
Q ss_pred eEEEE--EEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEe--ccEEEEecCCcc
Q 001242 901 NLKVA--FHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVF--YHKIYKIFAPNE 965 (1116)
Q Consensus 901 ~~kv~--w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~--~~ki~~~~~~~~ 965 (1116)
.+||| |+... ..-.++.|+++.|+.|++.++..++|+..+ ....+|.||. .+-..++++.++
T Consensus 4 ~iKVY~G~L~~~---~~y~sv~V~~~tt~~dvv~eaL~kfGl~~~~~~~y~LvEV~ld~gv~ER~l~~~E 70 (97)
T cd01783 4 VVKVYPGWLRVG---VAYVSIRVNKDTTVQDVILEVLPLFGLQAECPESFRLIEVLLDRGVVERTVLPQE 70 (97)
T ss_pred eEEEecCccccC---cceEEEEecccchHHHHHHHHHHHhCcccCCccccEEEEEEecCCeeeeeCCCcc
Confidence 45666 65542 233489999999999999999999999764 4789999996 444566776666
No 80
>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=75.78 E-value=3.4 Score=36.23 Aligned_cols=33 Identities=15% Similarity=0.279 Sum_probs=30.0
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
.++.+..++|+.+++++|++..|+|++++|||.
T Consensus 11 ~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~ 43 (70)
T cd01794 11 VKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFF 43 (70)
T ss_pred EEEEECCcChHHHHHHHHHHHhCCCHHHeEEEE
Confidence 457888899999999999999999999999985
No 81
>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=75.54 E-value=7.4 Score=34.98 Aligned_cols=63 Identities=14% Similarity=0.339 Sum_probs=44.2
Q ss_pred eEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhc
Q 001242 801 QIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVH 876 (1116)
Q Consensus 801 ~~v~f~~~~~~~~~~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~ 876 (1116)
+.|+|.- .+.+.+....+|.||.++|+++|++. |+++++.= ...+...-+.. +...|.+.|..
T Consensus 5 vKV~f~~-------tIaIrvp~~~~y~~L~~ki~~kLkl~-~e~i~LsY----kde~s~~~v~l-~d~dle~aws~ 67 (80)
T cd06406 5 VKVHFKY-------TVAIQVARGLSYATLLQKISSKLELP-AEHITLSY----KSEASGEDVIL-SDTNMEDVWSQ 67 (80)
T ss_pred EEEEEEE-------EEEEEcCCCCCHHHHHHHHHHHhCCC-chhcEEEe----ccCCCCCccCc-ChHHHHHHHHh
Confidence 5676663 58999999999999999999999985 78877753 22222211222 45678887754
No 82
>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=75.42 E-value=3.6 Score=36.10 Aligned_cols=34 Identities=26% Similarity=0.299 Sum_probs=30.7
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++.+..++|+.+|+..|++..|+|++++|||.
T Consensus 11 ~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~ 44 (71)
T cd01796 11 TFSLDVDPDLELENFKALCEAESGIPASQQQLIY 44 (71)
T ss_pred EEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEE
Confidence 3467888899999999999999999999999985
No 83
>PTZ00044 ubiquitin; Provisional
Probab=75.22 E-value=3.7 Score=36.30 Aligned_cols=34 Identities=18% Similarity=0.295 Sum_probs=30.9
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++++..++|+.+++++|++..|+|++++|||.
T Consensus 12 ~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 45 (76)
T PTZ00044 12 KQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIY 45 (76)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE
Confidence 3467899999999999999999999999999994
No 84
>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=74.89 E-value=6.8 Score=34.08 Aligned_cols=47 Identities=19% Similarity=0.401 Sum_probs=36.7
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~~ 1069 (1116)
|.-|.+.+.+..|++++|++|+++.|++..+ .+ |+..+++ |+|+..+
T Consensus 8 g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~---q~--Li~~G~~--L~d~~~l 54 (70)
T cd01798 8 GHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQ---LR--VIFAGKE--LRNTTTI 54 (70)
T ss_pred CCEEEEEECCCChHHHHHHHHHHHHCCCHHH---eE--EEECCeE--CCCCCcH
Confidence 7788899999999999999999999998865 33 3444544 7776544
No 85
>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=74.87 E-value=6.7 Score=34.03 Aligned_cols=68 Identities=15% Similarity=0.277 Sum_probs=51.9
Q ss_pred EEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCE
Q 001242 691 LLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDI 770 (1116)
Q Consensus 691 llFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDI 770 (1116)
-||+|..+-.+- .+.++.+.+|++|...|.+..|.|++..-.+|. + ..++.+.++....+++|+.
T Consensus 2 ~i~vk~~~g~~~------~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~------g---~~L~d~~~L~~~~i~~~~~ 66 (72)
T cd01809 2 EIKVKTLDSQTH------TFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYS------G---RVLKDDETLSEYKVEDGHT 66 (72)
T ss_pred EEEEEeCCCCEE------EEEECCCCcHHHHHHHHHHHHCcCHHHeEEEEC------C---EECCCcCcHHHCCCCCCCE
Confidence 577887764322 366778899999999999999999886655552 2 3567788999999999998
Q ss_pred EEE
Q 001242 771 ICF 773 (1116)
Q Consensus 771 i~f 773 (1116)
|-.
T Consensus 67 l~l 69 (72)
T cd01809 67 IHL 69 (72)
T ss_pred EEE
Confidence 753
No 86
>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=74.81 E-value=3.7 Score=36.22 Aligned_cols=33 Identities=21% Similarity=0.275 Sum_probs=30.3
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
.++.+..++|+.+++++|++..|+|++++|||.
T Consensus 11 ~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~ 43 (74)
T cd01793 11 HTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLL 43 (74)
T ss_pred EEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEE
Confidence 467888899999999999999999999999985
No 87
>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=74.28 E-value=3.9 Score=35.47 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=30.0
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..+++..++|+.+|+++|++..|++++++||+.
T Consensus 12 ~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 44 (71)
T cd01812 12 HDLSISSQATFGDLKKMLAPVTGVEPRDQKLIF 44 (71)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCChHHeEEee
Confidence 457888899999999999999999999999984
No 88
>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=72.49 E-value=4.6 Score=35.15 Aligned_cols=34 Identities=26% Similarity=0.340 Sum_probs=30.4
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++.+..++|+.++++.|++..|++++++|||.
T Consensus 10 ~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~ 43 (70)
T cd01798 10 TFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIF 43 (70)
T ss_pred EEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEE
Confidence 3457888999999999999999999999999974
No 89
>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=72.40 E-value=4.6 Score=35.60 Aligned_cols=34 Identities=21% Similarity=0.383 Sum_probs=30.5
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++.|..++|+.++++.|++..|++++++||+.
T Consensus 12 ~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~ 45 (74)
T cd01807 12 ECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLF 45 (74)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE
Confidence 3467888999999999999999999999999974
No 90
>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=72.08 E-value=5.4 Score=35.53 Aligned_cols=33 Identities=18% Similarity=0.410 Sum_probs=30.3
Q ss_pred CceEEEEeccccHHHHHHHHHHHhCCCCcceeE
Q 001242 592 KVRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRF 624 (1116)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~ 624 (1116)
...++.+..++|+.+++.+|.+..|+|++++||
T Consensus 13 ~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL 45 (75)
T cd01799 13 VTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW 45 (75)
T ss_pred CeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE
Confidence 456788999999999999999999999999999
No 91
>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=71.93 E-value=4.5 Score=35.78 Aligned_cols=31 Identities=13% Similarity=0.089 Sum_probs=28.0
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCcceeEE
Q 001242 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1116)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1116)
.+.+..++|+.+|+++|++..|++++++||-
T Consensus 15 ~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi 45 (73)
T cd01791 15 RVKCNPDDTIGDLKKLIAAQTGTRPEKIVLK 45 (73)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHHEEEE
Confidence 4577888999999999999999999999985
No 92
>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=71.85 E-value=6.8 Score=35.16 Aligned_cols=49 Identities=24% Similarity=0.398 Sum_probs=38.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~~ 1069 (1116)
|-.|.+.+.+..|++++|+.|+++.|++. ++.|+.++..++ -|.|+..+
T Consensus 12 G~~~~~~v~~~~TV~~lK~~I~~~~~i~~---~~qrL~~~~~G~--~L~D~~tL 60 (80)
T cd01792 12 GNEFLVSLRDSMTVSELKQQIAQKIGVPA---FQQRLAHLDSRE--VLQDGVPL 60 (80)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHhCCCH---HHEEEEeccCCC--CCCCCCCH
Confidence 88899999999999999999999999866 556776554333 46666543
No 93
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=71.77 E-value=15 Score=33.60 Aligned_cols=69 Identities=19% Similarity=0.160 Sum_probs=49.3
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeCC
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~~ 777 (1116)
.-.-++.+.+|++|...|..+.|.|++.....+..-+ ++...+...+...++....+.+|++|-+.-..
T Consensus 16 ~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~-~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D~~ 84 (87)
T PF14560_consen 16 VEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDK-DDSKIEELDDDDATLGSYGIKDGMRIHVVDTN 84 (87)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TS-SSSEEEESSGSSSBCCHHT-STTEEEEEEE-T
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecC-CCccccccCCCccEeecCCCCCCCEEEEEeCC
Confidence 3467889999999999999999999998755554222 23334344456889999999999999887553
No 94
>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=71.12 E-value=33 Score=32.53 Aligned_cols=65 Identities=26% Similarity=0.350 Sum_probs=54.3
Q ss_pred eccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCC---CCccEEEEEEec
Q 001242 889 LDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSH---PNAELRLLEVFY 954 (1116)
Q Consensus 889 L~ipl~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~---~~~~lrl~~i~~ 954 (1116)
|+.|-.+||-.--+++++...+- ++..--+.|.-+.|+.++++.|.+|+.... +..+.-||+++.
T Consensus 11 ~s~p~e~lef~gvmrf~~qd~~~-k~atK~VrVsS~~tt~eVI~~LLeKFk~d~~~~s~p~FALYevh~ 78 (112)
T cd01782 11 LSYPTEDLEFHGVMRFYFQDGGE-KVATKCIRVSSTATTRDVIDTLSEKFRPDMRMLSNPTYSLYEVHE 78 (112)
T ss_pred ecCCCcccEEeeEEEEEEEcCCC-cEEEEEEEEecCCCHHHHHHHHHHHhcccccccCCcceEEEEEec
Confidence 78888999999999999998884 566668999999999999999999998541 234888888874
No 95
>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=70.84 E-value=5.9 Score=34.80 Aligned_cols=33 Identities=24% Similarity=0.342 Sum_probs=30.0
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..+++..+.|+.+|+++|++..|+|++++||+.
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~ 45 (76)
T cd01806 13 IEIDIEPTDKVERIKERVEEKEGIPPQQQRLIY 45 (76)
T ss_pred EEEEECCCCCHHHHHHHHhHhhCCChhhEEEEE
Confidence 457888999999999999999999999999983
No 96
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=70.13 E-value=5.6 Score=34.94 Aligned_cols=33 Identities=24% Similarity=0.365 Sum_probs=29.8
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..+.+..+.|+.+|+++|++..|+|++++|||.
T Consensus 13 ~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~ 45 (76)
T cd01803 13 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF 45 (76)
T ss_pred EEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEE
Confidence 357888889999999999999999999999984
No 97
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=69.88 E-value=6.2 Score=33.09 Aligned_cols=34 Identities=29% Similarity=0.463 Sum_probs=30.0
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
...+++..++|+.+|+..|++.+|++++++||+.
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~ 44 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIY 44 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE
Confidence 3457888899999999999999999999999874
No 98
>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=69.56 E-value=6.9 Score=35.83 Aligned_cols=34 Identities=18% Similarity=0.377 Sum_probs=31.7
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
...++|.+++++..|++++++..|++++++||+.
T Consensus 23 ~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f 56 (87)
T cd01763 23 EVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF 56 (87)
T ss_pred EEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEE
Confidence 4578999999999999999999999999999987
No 99
>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=69.24 E-value=7.6 Score=33.46 Aligned_cols=58 Identities=19% Similarity=0.354 Sum_probs=48.0
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEe
Q 001242 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQK 775 (1116)
Q Consensus 709 ~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~ 775 (1116)
.+-|+.+.+|.+|...|.+..|+|++....+|. + ..++.+.|+....|.+|++|..-.
T Consensus 9 ~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~------G---~~L~d~~tL~~~~i~~~~~I~l~~ 66 (69)
T PF00240_consen 9 TLEVDPDDTVADLKQKIAEETGIPPEQQRLIYN------G---KELDDDKTLSDYGIKDGSTIHLVI 66 (69)
T ss_dssp EEEEETTSBHHHHHHHHHHHHTSTGGGEEEEET------T---EEESTTSBTGGGTTSTTEEEEEEE
T ss_pred EEEECCCCCHHHhhhhcccccccccccceeeee------e---ecccCcCcHHHcCCCCCCEEEEEE
Confidence 355789999999999999999999887777763 2 235889999999999999987643
No 100
>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=69.14 E-value=5.7 Score=35.02 Aligned_cols=46 Identities=26% Similarity=0.398 Sum_probs=36.4
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDT 1068 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~ 1068 (1116)
|-.+.+.|.+.+|++++|++|+++.|++..+ . .|+..++ -|+|+..
T Consensus 10 G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~---q--~L~~~G~--~L~d~~~ 55 (74)
T cd01807 10 GRECSLQVSEKESVSTLKKLVSEHLNVPEEQ---Q--RLLFKGK--ALADDKR 55 (74)
T ss_pred CCEEEEEECCCCcHHHHHHHHHHHHCCCHHH---e--EEEECCE--ECCCCCC
Confidence 8889999999999999999999999998866 3 3344444 3666543
No 101
>PF05408 Peptidase_C28: Foot-and-mouth virus L-proteinase; InterPro: IPR008739 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C28 (clan CA).The protein fold of the peptidase unit for members of this family resembles that of papain. The leader peptidase of Foot-and-mouth disease virus cleaves itself from the growing polyprotein and also cleaves the host translation initiation factor 4GI (eIF4G), thus inhibiting 5'-cap dependent translation [].; GO: 0004197 cysteine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 2JQF_R 1QMY_B 1QOL_G 2JQG_R.
Probab=68.64 E-value=7.5 Score=40.17 Aligned_cols=37 Identities=27% Similarity=0.502 Sum_probs=20.6
Q ss_pred CCcccccccccCCcccchhhHHHHHhcc-hhHHHHHcc
Q 001242 191 KKETGYVGLKNQGATCYMNSLLQTLYHI-PYFRKAVYH 227 (1116)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~-p~fr~~l~~ 227 (1116)
+....+.|+.|.+|+||+||++|.+-.. .+|-+.+|.
T Consensus 28 ~~~~eft~~PN~~dnCWlNaL~QL~~~~d~~~Fd~~Y~ 65 (193)
T PF05408_consen 28 DGKMEFTGLPNNHDNCWLNALLQLFRYVDEPFFDWYYD 65 (193)
T ss_dssp ----EEE----SSSTHHHHHHHHHHHHHT-GTTHHHHT
T ss_pred CcceEEecCCCCCCChHHHHHHHHHHHcCcccchhhcC
Confidence 3344567999999999999999997543 234444543
No 102
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=68.54 E-value=15 Score=33.56 Aligned_cols=59 Identities=15% Similarity=0.183 Sum_probs=40.9
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEec
Q 001242 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIF 961 (1116)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~ 961 (1116)
|+|....+.... ...+..+|++.||++|..+|.+.+|.+.+..+|.++.-.++.....+
T Consensus 2 v~l~It~~~~~~-~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~ 60 (87)
T PF14560_consen 2 VKLFITSSNSKQ-RSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEEL 60 (87)
T ss_dssp EEEEEEESSSSS-SEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEES
T ss_pred EEEEEEeCCCCC-eeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCcccccc
Confidence 566666666532 35578999999999999999999999877767766633333333333
No 103
>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=68.33 E-value=6.8 Score=33.99 Aligned_cols=34 Identities=35% Similarity=0.686 Sum_probs=30.6
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++++..+.|+.+|+++|++..|++++++||+.
T Consensus 12 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 45 (72)
T cd01809 12 THTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIY 45 (72)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEE
Confidence 3467888899999999999999999999999985
No 104
>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=68.09 E-value=7.8 Score=34.17 Aligned_cols=57 Identities=7% Similarity=0.098 Sum_probs=45.5
Q ss_pred EEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEe
Q 001242 710 LFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQK 775 (1116)
Q Consensus 710 ~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~ 775 (1116)
+-|..+.+|.+|...|.+..|+|++..-.+|. + ..++.+.++....+++|+.|..-.
T Consensus 13 l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~------G---~~L~D~~tL~~~~i~~~~tl~l~~ 69 (74)
T cd01810 13 YEVQLTQTVATLKQQVSQRERVQADQFWLSFE------G---RPMEDEHPLGEYGLKPGCTVFMNL 69 (74)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHHeEEEEC------C---EECCCCCCHHHcCCCCCCEEEEEE
Confidence 55788899999999999999999876655543 2 346677899999999999986543
No 105
>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=66.14 E-value=7.6 Score=34.56 Aligned_cols=33 Identities=12% Similarity=0.200 Sum_probs=30.3
Q ss_pred cCCccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1014 NFGEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1014 ~fG~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
++|-.+.+.+.+..|++++|++|.++.|++...
T Consensus 10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~ 42 (75)
T cd01799 10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAV 42 (75)
T ss_pred cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHH
Confidence 459999999999999999999999999998764
No 106
>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=65.40 E-value=17 Score=31.88 Aligned_cols=70 Identities=11% Similarity=0.284 Sum_probs=51.9
Q ss_pred EEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEE
Q 001242 692 LFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDII 771 (1116)
Q Consensus 692 lFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi 771 (1116)
|++|..+-.+ +. +-++.+.+|++|...|.+..|+|++..-.+|. + ..++.+.|+....+++|+.|
T Consensus 3 i~v~~~~g~~--~~----~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~------g---~~L~d~~tl~~~~i~~g~~i 67 (76)
T cd01806 3 IKVKTLTGKE--IE----IDIEPTDKVERIKERVEEKEGIPPQQQRLIYS------G---KQMNDDKTAADYKLEGGSVL 67 (76)
T ss_pred EEEEeCCCCE--EE----EEECCCCCHHHHHHHHhHhhCCChhhEEEEEC------C---eEccCCCCHHHcCCCCCCEE
Confidence 5666665432 22 45788999999999999999999987544443 2 34567789999999999998
Q ss_pred EEEeC
Q 001242 772 CFQKS 776 (1116)
Q Consensus 772 ~fQ~~ 776 (1116)
-+-..
T Consensus 68 ~l~~~ 72 (76)
T cd01806 68 HLVLA 72 (76)
T ss_pred EEEEE
Confidence 76543
No 107
>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=65.36 E-value=8.1 Score=33.74 Aligned_cols=32 Identities=19% Similarity=0.316 Sum_probs=28.9
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
++.+..+.|+.+|+++|++..|++++++||+.
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~ 44 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQEQLVLIF 44 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHHHEEEEE
Confidence 67888889999999999999999999999864
No 108
>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=65.33 E-value=8.7 Score=33.08 Aligned_cols=31 Identities=26% Similarity=0.516 Sum_probs=28.6
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|--|.|.+.+.+|+.++|++|.+++|++..+
T Consensus 5 g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~ 35 (69)
T PF00240_consen 5 GKTFTLEVDPDDTVADLKQKIAEETGIPPEQ 35 (69)
T ss_dssp SEEEEEEEETTSBHHHHHHHHHHHHTSTGGG
T ss_pred CcEEEEEECCCCCHHHhhhhccccccccccc
Confidence 7789999999999999999999999988754
No 109
>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=65.27 E-value=18 Score=32.86 Aligned_cols=66 Identities=15% Similarity=0.093 Sum_probs=46.3
Q ss_pred eEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEE-EEeccEEEEecCCcccc
Q 001242 901 NLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLL-EVFYHKIYKIFAPNEKI 967 (1116)
Q Consensus 901 ~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~-~i~~~ki~~~~~~~~~i 967 (1116)
.+||+--...... ..-.+.|+++.|+.||+..+.+++++.+......|| ....+...+.+.+++..
T Consensus 4 ~lrVy~~~~~~~~-~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~p 70 (93)
T PF00788_consen 4 VLRVYDGDGSPGS-TYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECP 70 (93)
T ss_dssp EEEEEETTSSSCC-SEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBH
T ss_pred EEEEEcCCCCCCc-cEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCch
Confidence 3566654433222 234899999999999999999999995566789998 33455566667666643
No 110
>PTZ00044 ubiquitin; Provisional
Probab=65.23 E-value=9.1 Score=33.74 Aligned_cols=31 Identities=19% Similarity=0.192 Sum_probs=28.8
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|..+.+.+.+.+|..++|++|+++.|++..+
T Consensus 10 G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~ 40 (76)
T PTZ00044 10 GKKQSFNFEPDNTVQQVKMALQEKEGIDVKQ 40 (76)
T ss_pred CCEEEEEECCCCcHHHHHHHHHHHHCCCHHH
Confidence 8889999999999999999999999998854
No 111
>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=64.88 E-value=8 Score=32.91 Aligned_cols=31 Identities=35% Similarity=0.480 Sum_probs=28.9
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|.++.+.+.+++|+.++|++|.+++|++...
T Consensus 7 ~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~ 37 (69)
T cd01769 7 GKTFELEVSPDDTVAELKAKIAAKEGVPPEQ 37 (69)
T ss_pred CCEEEEEECCCChHHHHHHHHHHHHCcChHH
Confidence 8999999999999999999999999987764
No 112
>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=64.80 E-value=8.5 Score=34.18 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=30.7
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..++.+..++|+.+|+++|....|+|+++++|+.
T Consensus 9 ~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~ 42 (76)
T cd01800 9 MLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQY 42 (76)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE
Confidence 3467888899999999999999999999999985
No 113
>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=63.59 E-value=9.5 Score=33.77 Aligned_cols=45 Identities=16% Similarity=0.130 Sum_probs=35.1
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTD 1067 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~ 1067 (1116)
|.+|.+.+.+..|++++|++|+++.|++.. +.|+ +..+ +.|.|+.
T Consensus 11 Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~---~qrL--i~~G--k~L~D~~ 55 (73)
T cd01791 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRPE---KIVL--KKWY--TIFKDHI 55 (73)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCChH---HEEE--EeCC--cCCCCCC
Confidence 999999999999999999999999998764 3454 3333 3466654
No 114
>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=63.42 E-value=10 Score=32.24 Aligned_cols=33 Identities=24% Similarity=0.361 Sum_probs=29.1
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..+++..++|+.+|++.|++..|+++++++||.
T Consensus 10 ~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~ 42 (69)
T cd01769 10 FELEVSPDDTVAELKAKIAAKEGVPPEQQRLIY 42 (69)
T ss_pred EEEEECCCChHHHHHHHHHHHHCcChHHEEEEE
Confidence 456788889999999999999999999999854
No 115
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=62.56 E-value=8.8 Score=33.66 Aligned_cols=31 Identities=26% Similarity=0.439 Sum_probs=28.5
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|-.|.+.+.+.+|++++|++|++++|++..+
T Consensus 10 g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~ 40 (76)
T cd01803 10 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQ 40 (76)
T ss_pred CCEEEEEECCcCcHHHHHHHHHHHhCCCHHH
Confidence 8889999999999999999999999998743
No 116
>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=62.53 E-value=8.5 Score=34.44 Aligned_cols=32 Identities=13% Similarity=0.257 Sum_probs=28.6
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1116)
.++.+..++|+.+|++.|++..|++++++||-
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~ 45 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKERLALL 45 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChHHEEEE
Confidence 45788888999999999999999999999885
No 117
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=62.42 E-value=19 Score=33.07 Aligned_cols=69 Identities=19% Similarity=0.136 Sum_probs=42.2
Q ss_pred CceEEEEeccccHHHHHHHHHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEee
Q 001242 592 KVRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1116)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 671 (1116)
.+.+-...+..|+..+...+.+.|.+ .+..|||.... .|+.-+ |. ..++|++++.- .....|.+|+
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~-~~~~e~----L~--~~~~Tv~da~L------~~gQ~vliE~ 79 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYS-ENSYEL----LN--NPEITVEDAGL------YDGQVVLIEE 79 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECT-TTCEEE----E----TTSBTTTTT--------TTEEEEEEE
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccC-Ccchhh----hC--CCCccHHHccC------cCCCEEEEEe
Confidence 35677888999999999999999999 77799998643 233222 21 22456665331 1246788888
Q ss_pred ecC
Q 001242 672 EFG 674 (1116)
Q Consensus 672 ~~~ 674 (1116)
...
T Consensus 80 rn~ 82 (88)
T PF14836_consen 80 RNE 82 (88)
T ss_dssp --T
T ss_pred ecc
Confidence 643
No 118
>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=62.28 E-value=11 Score=34.39 Aligned_cols=37 Identities=11% Similarity=0.207 Sum_probs=32.5
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEEEeec
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKR 630 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~ 630 (1116)
...|+++++|+.+|++++...+|+++..+||..+..+
T Consensus 15 ~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 15 FEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred eeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 4578999999999999999999999999999776543
No 119
>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=60.97 E-value=10 Score=35.92 Aligned_cols=33 Identities=24% Similarity=0.352 Sum_probs=30.2
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
.++.|..++|+.+|+++|++..|++++++|||.
T Consensus 40 ~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~ 72 (103)
T cd01802 40 FELRVSPFETVISVKAKIQRLEGIPVAQQHLIW 72 (103)
T ss_pred EEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE
Confidence 457888999999999999999999999999984
No 120
>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=60.53 E-value=9.8 Score=33.72 Aligned_cols=32 Identities=16% Similarity=0.154 Sum_probs=28.5
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
.+.+..++|+.+|++.|++..|+|+++++|-.
T Consensus 13 ~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~ 44 (74)
T cd01813 13 SVTTLSEDTVLDLKQFIKTLTGVLPERQKLLG 44 (74)
T ss_pred EEEECCCCCHHHHHHHHHHHHCCCHHHEEEEe
Confidence 45777888999999999999999999999865
No 121
>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=60.53 E-value=11 Score=33.47 Aligned_cols=35 Identities=23% Similarity=0.344 Sum_probs=30.3
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEE
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFA 1053 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfa 1053 (1116)
|.-|-+.+.+++|++++|++|++++||+.. +-|+-
T Consensus 9 g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~---~QKLi 43 (74)
T cd01813 9 GQEYSVTTLSEDTVLDLKQFIKTLTGVLPE---RQKLL 43 (74)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHCCCHH---HEEEE
Confidence 777889999999999999999999999873 45654
No 122
>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=59.23 E-value=11 Score=32.99 Aligned_cols=47 Identities=19% Similarity=0.267 Sum_probs=37.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~~ 1069 (1116)
|-.|.+.+.+.+|+.++|++|+++.|++..+. | ++..+++ |+|+..+
T Consensus 8 G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q---~--Li~~G~~--L~D~~~l 54 (70)
T cd01794 8 GKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQ---R--WFFSGKL--LTDKTRL 54 (70)
T ss_pred CCEEEEEECCcChHHHHHHHHHHHhCCCHHHe---E--EEECCeE--CCCCCCH
Confidence 99999999999999999999999999988653 3 3444443 7776544
No 123
>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=59.03 E-value=12 Score=32.88 Aligned_cols=45 Identities=20% Similarity=0.237 Sum_probs=35.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTD 1067 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~ 1067 (1116)
|--+.+.+.+.+|++++|++|+++.|++..+. | |+..++ .|+|+.
T Consensus 9 g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q---~--Li~~Gk--~L~D~~ 53 (71)
T cd01796 9 ETTFSLDVDPDLELENFKALCEAESGIPASQQ---Q--LIYNGR--ELVDNK 53 (71)
T ss_pred CCEEEEEECCcCCHHHHHHHHHHHhCCCHHHe---E--EEECCe--EccCCc
Confidence 77788999999999999999999999988662 3 333444 466654
No 124
>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=58.90 E-value=9.4 Score=34.28 Aligned_cols=31 Identities=23% Similarity=0.412 Sum_probs=27.3
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCcceeEE
Q 001242 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1116)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1116)
++.+..+.|+.+|+++|++..|++++++||-
T Consensus 16 ~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~ 46 (80)
T cd01792 16 LVSLRDSMTVSELKQQIAQKIGVPAFQQRLA 46 (80)
T ss_pred EEEcCCCCcHHHHHHHHHHHhCCCHHHEEEE
Confidence 4566778899999999999999999999983
No 125
>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=58.27 E-value=29 Score=31.12 Aligned_cols=56 Identities=16% Similarity=0.242 Sum_probs=46.8
Q ss_pred EecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeC
Q 001242 712 LKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKS 776 (1116)
Q Consensus 712 v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~ 776 (1116)
+..+.+|+++...|.+..|+|++..-.+|. + ..++.+.|+....|++|++|.....
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~------G---k~L~D~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQRLFYR------G---KQMEDGHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeEEEeC------C---EECCCCCCHHHcCCCCCCEEEEEEe
Confidence 567899999999999999999987655653 2 3478889999999999999988765
No 126
>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=56.60 E-value=27 Score=33.15 Aligned_cols=74 Identities=15% Similarity=0.199 Sum_probs=56.1
Q ss_pred CCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCC
Q 001242 687 KDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIE 766 (1116)
Q Consensus 687 ~~~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~ 766 (1116)
.+.+-||+|..+-.+-. +-|..+++|++|...|.++-|+|++..-.+|.- ..++.+.++....|+
T Consensus 25 ~~~M~I~Vk~l~G~~~~------leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~G---------k~L~D~~tL~dy~I~ 89 (103)
T cd01802 25 YDTMELFIETLTGTCFE------LRVSPFETVISVKAKIQRLEGIPVAQQHLIWNN---------MELEDEYCLNDYNIS 89 (103)
T ss_pred CCCEEEEEEcCCCCEEE------EEeCCCCcHHHHHHHHHHHhCCChHHEEEEECC---------EECCCCCcHHHcCCC
Confidence 34578888877654322 467889999999999999999998876555532 347778899989999
Q ss_pred CCCEEEEEe
Q 001242 767 DGDIICFQK 775 (1116)
Q Consensus 767 ~GDIi~fQ~ 775 (1116)
+|+.|-...
T Consensus 90 ~~stL~l~~ 98 (103)
T cd01802 90 EGCTLKLVL 98 (103)
T ss_pred CCCEEEEEE
Confidence 999886543
No 127
>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=55.51 E-value=11 Score=33.88 Aligned_cols=29 Identities=21% Similarity=0.408 Sum_probs=26.6
Q ss_pred EeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 598 VQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 598 ~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
+..++|+.+|+++|++..|++++++|||.
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~QrLi~ 47 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQRLFY 47 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeEEEe
Confidence 56678999999999999999999999985
No 128
>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=55.28 E-value=19 Score=31.24 Aligned_cols=35 Identities=14% Similarity=0.232 Sum_probs=30.8
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEE
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKF 1052 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kf 1052 (1116)
|-++.|.|.+..+|+.+.++++++.|++.. ++++|
T Consensus 10 ~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~--~~~~l 44 (72)
T PF11976_consen 10 GKEIKFKVKPTTTVSKLIEKYCEKKGIPPE--ESIRL 44 (72)
T ss_dssp SEEEEEEEETTSCCHHHHHHHHHHHTTTT---TTEEE
T ss_pred CCEEEEEECCCCcHHHHHHHHHHhhCCCcc--ceEEE
Confidence 889999999999999999999999999986 45555
No 129
>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=55.14 E-value=18 Score=31.89 Aligned_cols=47 Identities=15% Similarity=0.243 Sum_probs=36.3
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCcccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~~ 1069 (1116)
|.-|-+.|.+..|+.++|++|+++.|++..++ ++ +.. ++-|.|+..+
T Consensus 8 g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q---~L--~~~--G~~L~D~~tL 54 (74)
T cd01810 8 GRSSIYEVQLTQTVATLKQQVSQRERVQADQF---WL--SFE--GRPMEDEHPL 54 (74)
T ss_pred CCEEEEEECCcChHHHHHHHHHHHhCCCHHHe---EE--EEC--CEECCCCCCH
Confidence 88889999999999999999999999987554 33 233 3447776544
No 130
>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=54.64 E-value=18 Score=31.95 Aligned_cols=33 Identities=24% Similarity=0.356 Sum_probs=29.2
Q ss_pred eEEEEeccccHHHHHHHHHHHhCC--CCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGI--PIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~r~w~ 626 (1116)
.++.+..++|+.+|++.|++..|+ +++++||+.
T Consensus 13 ~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~ 47 (77)
T cd01805 13 FPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIY 47 (77)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEE
Confidence 356788889999999999999999 999999874
No 131
>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=54.47 E-value=19 Score=33.65 Aligned_cols=35 Identities=17% Similarity=0.172 Sum_probs=31.6
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIW 627 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~ 627 (1116)
..++.|..++|+.+|+.+|.+.+++++++++||.-
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~d 50 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSID 50 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeec
Confidence 35678889999999999999999999999999974
No 132
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=54.34 E-value=13 Score=38.17 Aligned_cols=28 Identities=25% Similarity=0.548 Sum_probs=25.5
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001242 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1116)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~ 1041 (1116)
.-||.||++.++ |.+..++-.-+++|++
T Consensus 105 ~kFGfpFii~v~-g~s~~~IL~~l~~Rl~ 132 (158)
T TIGR03180 105 EKFGRIFLIRAA-GRSAEEMLDALQARLP 132 (158)
T ss_pred HHCCCeEEEeeC-CCCHHHHHHHHHHHhC
Confidence 368999999999 9999999999999997
No 133
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=53.81 E-value=74 Score=29.34 Aligned_cols=67 Identities=12% Similarity=0.178 Sum_probs=45.4
Q ss_pred EEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccC-CcCCccccccCCCCCEEEEEeCC
Q 001242 706 YVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHL-DKRTSFRLSQIEDGDIICFQKSP 777 (1116)
Q Consensus 706 ~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i-~~~~t~~~~el~~GDIi~fQ~~~ 777 (1116)
-+-+...++.++|+.+...+++++..+ ++..||-=- .++.- |.+ ++..|+..+.|.+|-.|+++..+
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i~--~E~RLW~~~--~~~~~-e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNIQ--EETRLWNKY--SENSY-ELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT-T--S-EEEEEEC--TTTCE-EEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhCCC--ccceehhcc--CCcch-hhhCCCCccHHHccCcCCCEEEEEeec
Confidence 344556789999999999999999995 445666543 24433 665 55789999999999999999775
No 134
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=53.72 E-value=17 Score=30.41 Aligned_cols=28 Identities=25% Similarity=0.345 Sum_probs=25.4
Q ss_pred cEEEEecCCCCHHHHHHHHHHHhCCCcc
Q 001242 1018 PFFLVIHEGETLAEVKERIQRKLQVLDE 1045 (1116)
Q Consensus 1018 PF~~~v~~~E~~~~~k~Rl~~rl~~~~~ 1045 (1116)
.+-+.|.+..|++++|++|++++|++..
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~ 38 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVE 38 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHH
Confidence 5678899999999999999999999865
No 135
>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=52.04 E-value=19 Score=28.78 Aligned_cols=31 Identities=32% Similarity=0.591 Sum_probs=27.6
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|..+.+.+.++.|+.++++.|.+++|++..+
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~ 37 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLPPEQ 37 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcChHH
Confidence 8888999999999999999999999966544
No 136
>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=51.45 E-value=17 Score=32.51 Aligned_cols=44 Identities=30% Similarity=0.415 Sum_probs=34.1
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDT 1066 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~ 1066 (1116)
|-+|-+.+.+..|++++|++|+++.|++.. ..|+ +..++ -|.|+
T Consensus 11 G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~---~qrL--~~~Gk--~L~d~ 54 (78)
T cd01804 11 GTRFDLSVPPDETVEGLKKRISQRLKVPKE---RLAL--LHRET--RLSSG 54 (78)
T ss_pred CCEEEEEECCcCHHHHHHHHHHHHhCCChH---HEEE--EECCc--CCCCC
Confidence 889999999999999999999999998763 3444 33333 46665
No 137
>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=49.99 E-value=23 Score=32.16 Aligned_cols=25 Identities=16% Similarity=0.288 Sum_probs=22.6
Q ss_pred EEEecCCCCHHHHHHHHHHHhCCCc
Q 001242 1020 FLVIHEGETLAEVKERIQRKLQVLD 1044 (1116)
Q Consensus 1020 ~~~v~~~E~~~~~k~Rl~~rl~~~~ 1044 (1116)
.|++.++.+|.++++.|++|+++.+
T Consensus 13 r~~l~~~~~~~~L~~~i~~r~~~~~ 37 (82)
T cd06407 13 RFRLPPSWGFTELKQEIAKRFKLDD 37 (82)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCC
Confidence 5788899999999999999999864
No 138
>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=49.29 E-value=20 Score=30.98 Aligned_cols=31 Identities=23% Similarity=0.269 Sum_probs=28.5
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
|-.+-+.+.+.+|+.++|+.|++++|++...
T Consensus 9 g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~ 39 (71)
T cd01812 9 GESHDLSISSQATFGDLKKMLAPVTGVEPRD 39 (71)
T ss_pred CEEEEEEECCCCcHHHHHHHHHHhhCCChHH
Confidence 7788899999999999999999999998855
No 139
>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=48.98 E-value=73 Score=28.93 Aligned_cols=66 Identities=12% Similarity=0.164 Sum_probs=41.9
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcccccc
Q 001242 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNEKIEN 969 (1116)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~ 969 (1116)
++|....+. . ....+..+|+..||.+|.+++.+.+|.+.+..+|.++...+..+..+.+.+..+..
T Consensus 2 v~v~i~~~~-~-~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~ 67 (84)
T cd01789 2 VTVNITSSA-D-SFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGS 67 (84)
T ss_pred EEEEEEeCC-C-ceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeee
Confidence 345555443 2 23457789999999999999999999986665555555544444333333334433
No 140
>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=46.10 E-value=48 Score=29.16 Aligned_cols=40 Identities=13% Similarity=0.092 Sum_probs=32.0
Q ss_pred cCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEE
Q 001242 1014 NFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFA 1053 (1116)
Q Consensus 1014 ~fG~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfa 1053 (1116)
.+|.+=++.+++|+|..|.-.++-+|-|+......=+..+
T Consensus 8 P~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~ 47 (71)
T PF02196_consen 8 PNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVG 47 (71)
T ss_dssp TTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEE
T ss_pred CCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 4589999999999999999999999999999887766433
No 141
>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=45.97 E-value=80 Score=28.50 Aligned_cols=62 Identities=13% Similarity=0.208 Sum_probs=40.7
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhcc-CCCCCccEEEEEEeccEEEEecCCccccccc
Q 001242 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVE-LSHPNAELRLLEVFYHKIYKIFAPNEKIENI 970 (1116)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~-~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~i 970 (1116)
++++.-.++.+. -.+++-++.+.||.||.+.+.+..+ .+ +..+.|| |++|| ++..+..|.+.
T Consensus 2 i~l~IK~~~~~~-~~~~ve~~~~~TV~~lK~~i~~~~~~~~-~~~~QrL--Iy~GK---iLkD~~tL~~~ 64 (79)
T cd01790 2 VTLLIKSPNQKY-EDQTVSCFLNWTVGELKTHLSRVYPSKP-LEQDQRL--IYSGK---LLPDHLKLRDV 64 (79)
T ss_pred eEEEEECCCCCe-EEEEEecCCcChHHHHHHHHHHhcCCCC-ChhHeEE--EEcCe---eccchhhHHHH
Confidence 556666665543 2356666889999999999988775 22 2234555 67786 56677777665
No 142
>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=44.75 E-value=28 Score=30.84 Aligned_cols=32 Identities=9% Similarity=0.198 Sum_probs=28.7
Q ss_pred CCccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001242 1015 FGEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1116)
Q Consensus 1015 fG~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~ 1046 (1116)
=|.-|-+.+.++.|+.++|++|+...|++...
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~ 37 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGK 37 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHH
Confidence 37788899999999999999999999998843
No 143
>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=44.48 E-value=58 Score=39.42 Aligned_cols=66 Identities=12% Similarity=0.148 Sum_probs=48.7
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCC--CCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeCC
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDP--DEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~--dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~~ 777 (1116)
--+.+|.+..+.||+|.|.+..|-.. .+.=.-|.=.+ ++. .+++++.|+.+..+.|||+|..+...
T Consensus 14 ~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r--~gG--~pL~~~~sL~~~gV~DG~~L~L~p~~ 81 (452)
T TIGR02958 14 VDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALAR--AGG--SPLDPDASLAEAGVRDGELLVLVPAS 81 (452)
T ss_pred eeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEec--CCC--CCCCCCCCHHHcCCCCCCeEEEeeCC
Confidence 34567889999999999999987532 12212244332 332 58999999999999999999999754
No 144
>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=44.45 E-value=50 Score=31.01 Aligned_cols=64 Identities=8% Similarity=0.018 Sum_probs=52.8
Q ss_pred EEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeCC
Q 001242 706 YVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1116)
Q Consensus 706 ~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~~ 777 (1116)
+--++.|+.+++|.+|...|.+..|.|++..-.+|. - . +..|...|+....|..|.+|+-=...
T Consensus 15 ~~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~d--G-----~-~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 15 GEKALLVSANQTLKELKIQIMHAFSVAPFDQNLSID--G-----K-ILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CCceEEeCccccHHHHHHHHHHHhcCCcccceeeec--C-----c-eeccCCccHHhcCCCCCCEEEEEecC
Confidence 345667999999999999999999999987766655 2 1 56778899999999999999987653
No 145
>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=43.63 E-value=34 Score=30.08 Aligned_cols=56 Identities=13% Similarity=0.195 Sum_probs=45.6
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEE
Q 001242 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICF 773 (1116)
Q Consensus 709 ~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~f 773 (1116)
.+-|..+++|+++...|.+.-|+|++..-.+|. + ..++...|+....+++|++|-.
T Consensus 12 ~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~------G---k~L~D~~tL~~~~i~~~~tl~l 67 (74)
T cd01793 12 TLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLA------G---VPLEDDATLGQCGVEELCTLEV 67 (74)
T ss_pred EEEECCcCcHHHHHHHHHhhhCCCHHHEEEEEC------C---eECCCCCCHHHcCCCCCCEEEE
Confidence 356789999999999999999999887766653 2 3477889999999999998743
No 146
>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=42.42 E-value=81 Score=28.37 Aligned_cols=68 Identities=9% Similarity=0.142 Sum_probs=46.3
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEe
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLE 670 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 670 (1116)
..+++++..++.+|...|++.|+.+++...|+......++-. .|+..+ ..|+++... ..+..+.||+.
T Consensus 9 Vai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~---v~l~~e---~~me~aW~~---v~~~~ltLwcq 76 (78)
T cd06411 9 VALRAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHW---VPISGE---ESLQRAWQD---VADGPRGLQLQ 76 (78)
T ss_pred EEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccE---eecCcc---hHHHHHHHh---ccCCceEEEEe
Confidence 457899999999999999999999999999987543322111 234422 246666532 23456788775
No 147
>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=42.30 E-value=28 Score=31.44 Aligned_cols=29 Identities=24% Similarity=0.376 Sum_probs=21.7
Q ss_pred EEEEecCCCCHHHHHHHHHHHhCCCcccc
Q 001242 1019 FFLVIHEGETLAEVKERIQRKLQVLDEEF 1047 (1116)
Q Consensus 1019 F~~~v~~~E~~~~~k~Rl~~rl~~~~~~f 1047 (1116)
|.+.+.++.|++++++.|++.++++...|
T Consensus 16 ~Rie~~~~~t~~~L~~kI~~~l~~~~~~~ 44 (80)
T PF11543_consen 16 KRIEVSPSSTLSDLKEKISEQLSIPDSSQ 44 (80)
T ss_dssp EEEEE-TTSBHHHHHHHHHHHS---TTT-
T ss_pred EEEEcCCcccHHHHHHHHHHHcCCCCcce
Confidence 56889999999999999999999998743
No 148
>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=39.53 E-value=50 Score=30.35 Aligned_cols=35 Identities=9% Similarity=0.128 Sum_probs=30.9
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEe
Q 001242 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEI 743 (1116)
Q Consensus 709 ~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEi 743 (1116)
.+.|+.+.++++++..|++++++++...|-+|=.=
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn 53 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINN 53 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECC
Confidence 45689999999999999999999999999888653
No 149
>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=38.66 E-value=50 Score=29.35 Aligned_cols=29 Identities=10% Similarity=0.342 Sum_probs=26.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLD 1044 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~ 1044 (1116)
|.-+.|.+.++-+|.+++.+|++++++..
T Consensus 10 ~~~~~~~~~~~~s~~dL~~~i~~~~~~~~ 38 (81)
T smart00666 10 GETRRLSVPRDISFEDLRSKVAKRFGLDN 38 (81)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHhCCCC
Confidence 56778999999999999999999999876
No 150
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=37.96 E-value=31 Score=35.41 Aligned_cols=28 Identities=25% Similarity=0.597 Sum_probs=23.5
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001242 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1116)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~ 1041 (1116)
.-||.||++.|+ |-+-.++-.-+++|++
T Consensus 105 ~kFGfpFvi~v~-g~~~~~Il~~l~~Rl~ 132 (157)
T TIGR03164 105 ARFGFPFIMAVK-GKTKQSILAAFEARLN 132 (157)
T ss_pred HHCCCeeEEeeC-CCCHHHHHHHHHHHHC
Confidence 368999999998 5588888888888886
No 151
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=37.84 E-value=87 Score=29.39 Aligned_cols=59 Identities=14% Similarity=0.197 Sum_probs=47.0
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCCCEEEEEeC
Q 001242 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKS 776 (1116)
Q Consensus 709 ~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIi~fQ~~ 776 (1116)
++-|.++.+++.|+..-|++.|++-++==-+|. + ..|+...|-.+.+..+||.||+=..
T Consensus 34 ~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFd------G---~rI~~~~TP~~L~mEd~D~Iev~~~ 92 (99)
T KOG1769|consen 34 VFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFD------G---QRIRETHTPADLEMEDGDEIEVVQE 92 (99)
T ss_pred EEEeecCChHHHHHHHHHHHcCCccceEEEEEC------C---cCcCCCCChhhhCCcCCcEEEEEee
Confidence 445889999999999999999999764333343 2 4688888999999999999997543
No 152
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=36.32 E-value=77 Score=28.51 Aligned_cols=58 Identities=9% Similarity=0.082 Sum_probs=38.2
Q ss_pred cEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhc
Q 001242 815 AFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVH 876 (1116)
Q Consensus 815 ~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~ 876 (1116)
.|.+.+....+|.+|...||++|++ .|++++|-=-.+ +++. .-+.......+.+.+..
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l-~~~~~~LSY~~~--~~~~-~~v~l~~e~~me~aW~~ 65 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQ-QAQRGQLSYRAP--GEDG-HWVPISGEESLQRAWQD 65 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcC-ChhhcEEEecCC--CCCc-cEeecCcchHHHHHHHh
Confidence 3778888999999999999999997 488887753112 1110 11222224667777743
No 153
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=35.82 E-value=35 Score=35.37 Aligned_cols=28 Identities=25% Similarity=0.542 Sum_probs=23.4
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001242 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1116)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rl~ 1041 (1116)
.-||.||++.++ |-+-.++-.-+++|++
T Consensus 110 ~kFGfpFii~v~-g~s~~~IL~~l~~Rl~ 137 (166)
T PRK13798 110 EKFGFVFLICAT-GRSADEMLAALQQRLH 137 (166)
T ss_pred HhCCCeEEEeeC-CCCHHHHHHHHHHHhc
Confidence 468999999997 5588888888888886
No 154
>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=34.91 E-value=50 Score=26.16 Aligned_cols=33 Identities=30% Similarity=0.519 Sum_probs=28.6
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
..+++...+|+.+++..+++.+|++++.++|+.
T Consensus 10 ~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~ 42 (69)
T cd00196 10 VELLVPSGTTVADLKEKLAKKLGLPPEQQRLLV 42 (69)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEE
Confidence 456777789999999999999999999998865
No 155
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=34.20 E-value=57 Score=31.10 Aligned_cols=53 Identities=19% Similarity=0.208 Sum_probs=34.0
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEec-----CCcccccCcccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSL-----GRPEYLVDTDTV 1069 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~-----~~~~~~~~~~~~ 1069 (1116)
|.-=.|.|..=-+-.++++|+.+|||+++ ....|-|.++.. +....|.|.+++
T Consensus 10 G~tk~VNV~~c~~a~eI~~rvLKKfg~~~-~~~~~~~~v~d~~~~~~~~~~~LsD~EL~ 67 (105)
T PF14847_consen 10 GSTKTVNVSGCFNAQEIKRRVLKKFGLPE-HPRNYCFYVLDGESPDPSNCRPLSDVELV 67 (105)
T ss_dssp TEEEEEE--S--HHHHHHHHHHHHHTSS---CCCEEEEEE-S-----SSEEEE-SSHHH
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHcCCcc-ccccceEEEecccccccccceECcHHHHH
Confidence 33334555555578899999999999999 899999999865 234667776653
No 156
>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=33.82 E-value=1e+02 Score=28.25 Aligned_cols=54 Identities=13% Similarity=0.258 Sum_probs=36.5
Q ss_pred CcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhh
Q 001242 814 DAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLV 875 (1116)
Q Consensus 814 ~~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 875 (1116)
+-..+.+...++|.||.++|-+++++..|-.|+ |. ..+. ++...+..-|...+.
T Consensus 12 Dv~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iK-yk-----DEGD--~iti~sq~DLd~Ai~ 65 (86)
T cd06408 12 DTRYIMIGPDTGFADFEDKIRDKFGFKRRLKIK-MK-----DDGD--MITMGDQDDLDMAID 65 (86)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHhCCCCceEEE-EE-----cCCC--CccccCHHHHHHHHH
Confidence 468999999999999999999999986444444 22 2233 333334455666664
No 157
>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=31.40 E-value=78 Score=30.16 Aligned_cols=33 Identities=6% Similarity=0.233 Sum_probs=27.4
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEE
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELY 740 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~ly 740 (1116)
.++.|+.+.+|++++-.|++++.+++++.|-||
T Consensus 35 ~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~ 67 (104)
T PF02991_consen 35 KKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLF 67 (104)
T ss_dssp SEEEEETTSBHHHHHHHHHHHTT--TTS-EEEE
T ss_pred cEEEEcCCCchhhHHHHhhhhhcCCCCceEEEE
Confidence 456789999999999999999999999999888
No 158
>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=31.06 E-value=1.3e+02 Score=27.13 Aligned_cols=38 Identities=18% Similarity=0.309 Sum_probs=33.2
Q ss_pred EeEEEEecCCChhHHHHHHHHhcCCC-CCCcEEEEEEee
Q 001242 707 VGRLFLKSSSKPIEILRKLNQMAGFD-PDEEIELYEEIK 744 (1116)
Q Consensus 707 ~g~~~v~~~~~v~~l~~~i~~~~g~p-~dt~l~lyEEik 744 (1116)
.-++.|+.+++.+++++.+.++.|+. ....-.|||.+.
T Consensus 14 ~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~ 52 (87)
T cd01768 14 YKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLG 52 (87)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEEC
Confidence 35677899999999999999999999 667789999884
No 159
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=30.50 E-value=1.2e+02 Score=39.05 Aligned_cols=95 Identities=23% Similarity=0.358 Sum_probs=68.4
Q ss_pred chHHHhhhccCC-ccceEEEEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCC--C-C
Q 001242 868 EHLSDMLVHYNQ-TSDILYYEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELS--H-P 943 (1116)
Q Consensus 868 ~~l~~~l~~~~~-~~~~l~YEvL~ipl~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~--~-~ 943 (1116)
-.|++++..-+. +.+. | -|+-|-.+||-.--+++||...+-+ +..--+.|.-+.|+.|+++.|.+|+-=+ - +
T Consensus 11 e~la~iiqqWNaNRLDL-F--~lS~PtEdLefhGVMRFYFQDag~k-vaTKCiRVsStATt~dVidtL~EKFrPDmrMLS 86 (1629)
T KOG1892|consen 11 EKLADIIQQWNANRLDL-F--ELSQPTEDLEFHGVMRFYFQDAGGK-VATKCIRVSSTATTQDVIDTLAEKFRPDMRMLS 86 (1629)
T ss_pred HHHHHHHHHhcccccce-e--eccCCCccceeeeeEEEEeecccch-hhhheeEecccccHHHHHHHHHHHhCcchhhhc
Confidence 568888865433 2232 2 4888999999999999999997654 4444689999999999999999998521 1 3
Q ss_pred CccEEEEEEe-ccEEEEecCCcccc
Q 001242 944 NAELRLLEVF-YHKIYKIFAPNEKI 967 (1116)
Q Consensus 944 ~~~lrl~~i~-~~ki~~~~~~~~~i 967 (1116)
.-+.-||||+ ||- -++...+.++
T Consensus 87 ~p~YsLyEVH~nGE-RrL~~dEKPL 110 (1629)
T KOG1892|consen 87 SPKYSLYEVHVNGE-RRLDIDEKPL 110 (1629)
T ss_pred CCCceeeeeecCcc-cccCcccCce
Confidence 5578899997 555 4444444444
No 160
>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=30.06 E-value=79 Score=30.54 Aligned_cols=35 Identities=9% Similarity=0.203 Sum_probs=31.2
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEE
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEE 742 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEE 742 (1116)
-.+.|+.+.+|++++-.|++++++++++.|-||=.
T Consensus 43 ~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn 77 (112)
T cd01611 43 KKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVN 77 (112)
T ss_pred ceEEecCCCCHHHHHHHHHHHhCCCccceEEEEEC
Confidence 45679999999999999999999999999888764
No 161
>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=29.33 E-value=69 Score=27.79 Aligned_cols=45 Identities=27% Similarity=0.400 Sum_probs=33.1
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCcccccCccc
Q 001242 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDT 1068 (1116)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rl~~~~~~f~k~kfai~~~~~~~~~~~~~~ 1068 (1116)
| ++.+.+.+..|..++|+.|+++.|++..++ + ++..++ -|.|+..
T Consensus 10 g-~~~l~v~~~~TV~~lK~~I~~~~~i~~~~~---~--Li~~Gk--~L~d~~t 54 (71)
T cd01808 10 D-KEEIEIAEDASVKDFKEAVSKKFKANQEQL---V--LIFAGK--ILKDTDT 54 (71)
T ss_pred C-CEEEEECCCChHHHHHHHHHHHhCCCHHHE---E--EEECCe--EcCCCCc
Confidence 6 578999999999999999999999876443 3 344333 4666543
No 162
>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=28.92 E-value=1.4e+02 Score=26.94 Aligned_cols=62 Identities=23% Similarity=0.270 Sum_probs=41.5
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEee
Q 001242 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1116)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 671 (1116)
.-|...+.++++++.-|... |.+++.++|- |.=|.+.+...+.++||.++. ..+.-.||||.
T Consensus 18 ~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~--------t~fPRk~~~~~d~~~TL~e~g------L~p~~~L~Vee 79 (80)
T cd01771 18 ERRFLGDTPLQVLLNFVASK-GYPIDEYKLL--------SSWPRRDLTQLDPNFTLLELK------LYPQETLILEE 79 (80)
T ss_pred EEEeCCCCcHHHHHHHHHhc-CCCCCCEEEe--------cCCCCCCCcCCCCCCcHHHcC------CCCCcEEEEEc
Confidence 45778899999999999654 7776666553 233556665555567888864 11345788874
No 163
>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=28.08 E-value=1.3e+02 Score=27.14 Aligned_cols=64 Identities=17% Similarity=0.170 Sum_probs=42.9
Q ss_pred EEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCC-CcEEEEEEeecCcceeeccCCcCC
Q 001242 693 FFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPD-EEIELYEEIKFEPCVMCEHLDKRT 758 (1116)
Q Consensus 693 FlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~d-t~l~lyEEik~~p~~~ie~i~~~~ 758 (1116)
++|.|+.....=.-.-++.|+.+.++++++..+.+++|++.+ ....|||... ..+ ....+.++.
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~-~~~-~er~L~~~E 68 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEE-SGG-EERPLDDDE 68 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEEC-TTT-EEEEETTTS
T ss_pred EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEc-CCC-EEEEcCCCC
Confidence 567776654432245678899999999999999999999333 5678875443 233 224555533
No 164
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.75 E-value=49 Score=28.31 Aligned_cols=34 Identities=15% Similarity=0.281 Sum_probs=23.8
Q ss_pred CcccccccCceeee-eeeEe--ecCCCeEEEEEeeEE
Q 001242 361 NKYHAEEHGLQDAK-KGVLF--IDFPPVLQLQLKRFE 394 (1116)
Q Consensus 361 n~y~C~~c~~~~a~-k~~~i--~~lP~vL~i~LkRF~ 394 (1116)
+.+.|.+||-.... |.+.. ..+.+++-||.++|-
T Consensus 3 ~~~kCpKCgn~~~~ekei~~tg~~lskifdvq~n~f~ 39 (68)
T COG3478 3 NAFKCPKCGNTNYEEKEIAATGGGLSKIFDVQNNKFI 39 (68)
T ss_pred ccccCCCcCCcchhhceeeccCCCcceeEEecccEEE
Confidence 45679999865443 33222 358899999999996
No 165
>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=27.71 E-value=2e+02 Score=25.63 Aligned_cols=77 Identities=12% Similarity=0.099 Sum_probs=52.3
Q ss_pred cEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcceeeccCCcCCccccccCCCC
Q 001242 689 DILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDG 768 (1116)
Q Consensus 689 ~illFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~G 768 (1116)
.+.|=+|+-|-. ++ ......+++|++|...|...++-+......|+--. |...+...+ +.||..+.|..+
T Consensus 6 ~~~I~vRlpdG~--~l----~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~---Pr~~l~~~~-~~tl~e~~l~p~ 75 (82)
T PF00789_consen 6 VVRIQVRLPDGS--RL----QRRFPKSDTLQDLYDFVESQLFSPEESDFELITAF---PRRELTDED-SKTLEEAGLLPS 75 (82)
T ss_dssp EEEEEEEETTST--EE----EEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESS---STEECCSTT-TSBTCCCTTSSC
T ss_pred EEEEEEECCCCC--EE----EEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCC---CCcCCCccc-cccHHHhcCCCC
Confidence 355666665533 22 12235899999999999988887765546665433 654444444 689999999999
Q ss_pred CEEEEEe
Q 001242 769 DIICFQK 775 (1116)
Q Consensus 769 DIi~fQ~ 775 (1116)
..|+.++
T Consensus 76 ~~l~v~~ 82 (82)
T PF00789_consen 76 ATLIVEK 82 (82)
T ss_dssp EEEEEE-
T ss_pred eEEEEEC
Confidence 9998874
No 166
>cd01781 AF6_RA_repeat2 Ubiquitin domain of AT-6, second 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=27.60 E-value=1.9e+02 Score=27.36 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=32.5
Q ss_pred EEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEe
Q 001242 918 NIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVF 953 (1116)
Q Consensus 918 ~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~ 953 (1116)
+++|..+.++.+++.++..|+++.++ .....|.+|.
T Consensus 19 SIlvt~~~~a~~vV~eALeKygL~~e~p~~Y~LveV~ 55 (100)
T cd01781 19 TILLSINDNADRIVGEALEKYGLEKSDPDDYCLVEVS 55 (100)
T ss_pred EEEecCCccHHHHHHHHHHHhCCCccCccceEEEEEe
Confidence 79999999999999999999999865 5789999985
No 167
>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=25.24 E-value=75 Score=28.69 Aligned_cols=31 Identities=13% Similarity=0.026 Sum_probs=24.7
Q ss_pred EEEeccccHHHHHHHHHHHhC--CCCcceeEEE
Q 001242 596 FRVQKQTSFMAFKEEIAKEFG--IPIQLQRFWI 626 (1116)
Q Consensus 596 ~~~~~~~~~~~~~~~i~~~~~--~~~~~~r~w~ 626 (1116)
+.+..++|+.+|++.|++..+ .+++++||-.
T Consensus 18 ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy 50 (79)
T cd01790 18 VSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIY 50 (79)
T ss_pred EecCCcChHHHHHHHHHHhcCCCCChhHeEEEE
Confidence 334678899999999999885 5579999854
No 168
>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=24.91 E-value=1.9e+02 Score=26.28 Aligned_cols=56 Identities=18% Similarity=0.336 Sum_probs=34.9
Q ss_pred CcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhh
Q 001242 814 DAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDML 874 (1116)
Q Consensus 814 ~~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l 874 (1116)
+-..+.|...++|.+|.+.|++++++++...+.+- |....+ -++..++..-|.+-+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~Lk----Y~Ddeg-d~v~ltsd~DL~eai 65 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLK----YLDDDE-EWVLLTCDADLEECI 65 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEE----EECCCC-CeEEeecHHHHHHHH
Confidence 35778888899999999999999997531222221 222222 344444445666644
No 169
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=23.99 E-value=1.4e+02 Score=28.16 Aligned_cols=34 Identities=18% Similarity=0.428 Sum_probs=31.3
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeEEE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1116)
...|+|.+++++..|.+.-++..|++.+.+||..
T Consensus 32 ~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlF 65 (99)
T KOG1769|consen 32 VVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLF 65 (99)
T ss_pred EEEEEeecCChHHHHHHHHHHHcCCccceEEEEE
Confidence 4578999999999999999999999999999865
No 170
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=22.73 E-value=2.3e+02 Score=27.79 Aligned_cols=64 Identities=9% Similarity=0.203 Sum_probs=0.0
Q ss_pred EeccccHHHHHHHHHHHhCCCCcceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEEeeecCCCC
Q 001242 598 VQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEFGPDL 677 (1116)
Q Consensus 598 ~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 677 (1116)
|+++.|+.+|...|.+.+++++++ ++..+ |++.-|... ||++++ ...++.|=-||+-......+
T Consensus 47 VP~d~tV~qF~~iIRkrl~l~~~k--~flfV---nn~lp~~s~--------~mg~lY---e~~KDeDGFLYi~Ys~e~tF 110 (121)
T PTZ00380 47 LPRDATVAELEAAVRQALGTSAKK--VTLAI---EGSTPAVTA--------TVGDIA---DACKRDDGFLYVSVRTEQAM 110 (121)
T ss_pred cCCCCcHHHHHHHHHHHcCCChhH--EEEEE---CCccCCccc--------hHHHHH---HHhcCCCCeEEEEEcccccc
No 171
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=22.51 E-value=2.1e+02 Score=30.45 Aligned_cols=80 Identities=16% Similarity=0.134 Sum_probs=56.3
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcccccccccccceeEeee
Q 001242 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNEKIENINDQYWTLRAEE 981 (1116)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~~~~~E~ 981 (1116)
++|...++.+. . ..+...|+..||.+|.++|-..+|-+.++.+|-|++....+....=+++..+..+.. ..-+|+-.
T Consensus 2 v~v~Iss~~~~-~-~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~-~Dg~rihv 78 (234)
T KOG3206|consen 2 VRVVISSSLND-F-RTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKV-EDGLRIHV 78 (234)
T ss_pred eEEEEeccccc-c-hhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCC-CCceEEEE
Confidence 45555554443 2 346688999999999999999999887888999999887666666666666666543 34555544
Q ss_pred cch
Q 001242 982 IPE 984 (1116)
Q Consensus 982 iP~ 984 (1116)
|-.
T Consensus 79 iD~ 81 (234)
T KOG3206|consen 79 IDS 81 (234)
T ss_pred Eec
Confidence 443
No 172
>PF14353 CpXC: CpXC protein
Probab=22.42 E-value=60 Score=31.89 Aligned_cols=46 Identities=9% Similarity=0.088 Sum_probs=24.5
Q ss_pred eEEeeceeeecceeeeeeeeeeeccCCCCHHHHHhhcceeEEecCCCcccccccCc
Q 001242 315 YIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGL 370 (1116)
Q Consensus 315 ~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~~~~E~l~g~n~y~C~~c~~ 370 (1116)
.++|.+|++.... +-+. +++......+.+.|- ..+. +.+.|+.||.
T Consensus 1 ~itCP~C~~~~~~-~v~~--~I~~~~~p~l~e~il---~g~l----~~~~CP~Cg~ 46 (128)
T PF14353_consen 1 EITCPHCGHEFEF-EVWT--SINADEDPELKEKIL---DGSL----FSFTCPSCGH 46 (128)
T ss_pred CcCCCCCCCeeEE-EEEe--EEcCcCCHHHHHHHH---cCCc----CEEECCCCCC
Confidence 3689999876442 2222 233323333444442 2222 4489999985
No 173
>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=22.40 E-value=69 Score=30.85 Aligned_cols=42 Identities=17% Similarity=0.236 Sum_probs=33.0
Q ss_pred ecccCCCCceEEEEeccccHHHHHHHHHHHhC-------CCCcceeEEE
Q 001242 585 FDLVDHDKVRSFRVQKQTSFMAFKEEIAKEFG-------IPIQLQRFWI 626 (1116)
Q Consensus 585 ~dl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-------~~~~~~r~w~ 626 (1116)
|-|.|-..+-++++..++|+.+++++|++..+ .+++++||-.
T Consensus 9 frl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIy 57 (113)
T cd01814 9 FRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLIS 57 (113)
T ss_pred EEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEe
Confidence 56666555678889999999999999997764 5588888754
No 174
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=22.38 E-value=1.9e+02 Score=26.55 Aligned_cols=37 Identities=24% Similarity=0.336 Sum_probs=31.7
Q ss_pred EEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEec
Q 001242 918 NIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFY 954 (1116)
Q Consensus 918 ~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~ 954 (1116)
.+.|.-+.|+.++++.|.+|+.+.+...+.-||+++.
T Consensus 16 ~v~VsS~~tt~eVI~~LL~KFkv~~~p~~FALy~vh~ 52 (87)
T cd01784 16 NVRINSTMTTPQVLKLLLNKFKIENSAEEFALYIVHT 52 (87)
T ss_pred EEEEecCCCHHHHHHHHHHhccccCCHHHeEEEEEee
Confidence 5677778899999999999999877778899999963
No 175
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=22.16 E-value=1.4e+02 Score=28.54 Aligned_cols=41 Identities=12% Similarity=0.314 Sum_probs=36.0
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCcc
Q 001242 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPC 748 (1116)
Q Consensus 708 g~~~v~~~~~v~~l~~~i~~~~g~p~dt~l~lyEEik~~p~ 748 (1116)
..+.|+.+++++-++..|++.++++.+..|-+|---.|.|+
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPs 87 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPS 87 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCC
Confidence 45678999999999999999999999999999987776554
No 176
>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=22.08 E-value=3.2e+02 Score=25.67 Aligned_cols=31 Identities=19% Similarity=0.370 Sum_probs=26.1
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCcceeE
Q 001242 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRF 624 (1116)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~ 624 (1116)
..-+.|.+..++.+|..++++.++++.. +.+
T Consensus 24 tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~l 54 (97)
T cd06410 24 TRIVSVDRSISFKELVSKLSELFGAGVV-VTL 54 (97)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEE
Confidence 3568899999999999999999999866 444
No 177
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=21.11 E-value=4.2e+02 Score=24.96 Aligned_cols=47 Identities=23% Similarity=0.390 Sum_probs=35.1
Q ss_pred EEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcc
Q 001242 917 HNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNE 965 (1116)
Q Consensus 917 ~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~ 965 (1116)
.++..|-+.||+||+..|.+|.-++++ ++.+++=-. |...+++.+.+
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~-~ny~l~l~~-~~l~RvL~p~E 61 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSG-GNYQLSLKK-HDLSRVLRPTE 61 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCC-CCeEEEEEE-CCeeeecCCcC
Confidence 478899999999999999999988765 455554322 44557777766
No 178
>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=20.73 E-value=1.9e+02 Score=34.25 Aligned_cols=71 Identities=18% Similarity=0.281 Sum_probs=53.3
Q ss_pred EEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcC---CCCCCcEEEEEEeecCcceeeccCCcCCccccccCCC
Q 001242 691 LLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAG---FDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIED 767 (1116)
Q Consensus 691 llFlK~fDp~~~~l~~~g~~~v~~~~~v~~l~~~i~~~~g---~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~ 767 (1116)
-|++|..+-.+ -.+-|..+++|.+|...|.+.-| +|.+..-.+|. + ..++...++....|.+
T Consensus 2 kItVKtl~g~~------~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~------G---kiL~Dd~tL~dy~I~e 66 (378)
T TIGR00601 2 TLTFKTLQQQK------FKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYS------G---KILSDDKTVREYKIKE 66 (378)
T ss_pred EEEEEeCCCCE------EEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEEC------C---EECCCCCcHHHcCCCC
Confidence 46777765443 12467889999999999999988 88776544553 2 2467778999999999
Q ss_pred CCEEEEEeC
Q 001242 768 GDIICFQKS 776 (1116)
Q Consensus 768 GDIi~fQ~~ 776 (1116)
||.|++-..
T Consensus 67 ~~~Ivvmv~ 75 (378)
T TIGR00601 67 KDFVVVMVS 75 (378)
T ss_pred CCEEEEEec
Confidence 999998765
No 179
>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=20.42 E-value=1.1e+02 Score=26.62 Aligned_cols=28 Identities=18% Similarity=0.315 Sum_probs=20.4
Q ss_pred EEEEEcCCCCCHHHHHHHHHhhccCCCC
Q 001242 916 IHNIRLPKQSTVGDVINELKTKVELSHP 943 (1116)
Q Consensus 916 ~~~~~v~k~~tv~dll~~l~~~~~~~~~ 943 (1116)
...+-+.++.++.|+|+++-++++++.+
T Consensus 8 r~~vkvtp~~~l~~VL~eac~k~~l~~~ 35 (65)
T PF11470_consen 8 RFKVKVTPNTTLNQVLEEACKKFGLDPS 35 (65)
T ss_dssp EEEE---TTSBHHHHHHHHHHHTT--GG
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcc
Confidence 4578899999999999999999999754
No 180
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=20.38 E-value=85 Score=29.06 Aligned_cols=30 Identities=13% Similarity=0.326 Sum_probs=26.6
Q ss_pred ccccHHHHHHHHHHHhCCCCcceeEEEEee
Q 001242 600 KQTSFMAFKEEIAKEFGIPIQLQRFWIWAK 629 (1116)
Q Consensus 600 ~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~ 629 (1116)
.+.|+-|++..++-.+.-|++.+|||.|..
T Consensus 20 es~tV~elK~~l~gi~~~Pvn~qrL~kmd~ 49 (110)
T KOG4495|consen 20 ESSTVFELKRKLEGILKRPVNEQRLYKMDT 49 (110)
T ss_pred ccccHHHHHHHHHHHHhCCCcchheeecCH
Confidence 456899999999999999999999999864
No 181
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=20.24 E-value=3.8e+02 Score=24.75 Aligned_cols=78 Identities=19% Similarity=0.435 Sum_probs=0.0
Q ss_pred ceEEEEEec-CCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhccC
Q 001242 800 RQIVRFRAL-DRPKEDAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVHYN 878 (1116)
Q Consensus 800 r~~v~f~~~-~~~~~~~f~l~ls~~~~Y~~~a~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 878 (1116)
+|.|.|++. +.|.-..=...++..-+...+.+.+-++|++.+-+.|-+|-.+.+.-+|. .++.++...+.
T Consensus 1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspD---------e~vg~L~~~f~ 71 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPD---------ETVGDLYRCFG 71 (87)
T ss_dssp EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TT---------SBHHHHHHHH-
T ss_pred CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCch---------hHHHHHHHHhC
Q ss_pred CccceE-EE
Q 001242 879 QTSDIL-YY 886 (1116)
Q Consensus 879 ~~~~~l-~Y 886 (1116)
.....+ .|
T Consensus 72 ~~~~Liv~Y 80 (87)
T PF04110_consen 72 TNGELIVSY 80 (87)
T ss_dssp BTTBEEEEE
T ss_pred CCCEEEEEE
Done!