Query 001246
Match_columns 1115
No_of_seqs 619 out of 2530
Neff 7.5
Searched_HMMs 46136
Date Thu Mar 28 19:45:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001246.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001246hhsearch_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 7E-186 2E-190 1566.7 50.9 1024 44-1106 30-1087(1089)
2 KOG1863 Ubiquitin carboxyl-ter 100.0 1E-111 2E-116 1081.4 19.1 1020 48-1099 22-1077(1093)
3 cd02659 peptidase_C19C A subfa 100.0 8.8E-57 1.9E-61 517.7 32.9 320 195-522 1-333 (334)
4 cd02668 Peptidase_C19L A subfa 100.0 4.6E-56 1E-60 508.9 29.9 308 198-519 1-324 (324)
5 PF12436 USP7_ICP0_bdg: ICP0-b 100.0 9.7E-57 2.1E-61 490.0 21.0 249 621-874 1-249 (249)
6 KOG1865 Ubiquitin carboxyl-ter 100.0 4.6E-56 9.9E-61 503.8 18.1 298 186-521 99-410 (545)
7 cd02664 Peptidase_C19H A subfa 100.0 5.2E-55 1.1E-59 500.2 26.9 286 198-519 1-327 (327)
8 cd02663 Peptidase_C19G A subfa 100.0 6E-55 1.3E-59 494.3 26.6 276 198-519 1-300 (300)
9 cd02671 Peptidase_C19O A subfa 100.0 6.5E-54 1.4E-58 488.9 26.6 284 190-519 18-332 (332)
10 KOG4598 Putative ubiquitin-spe 100.0 2.5E-54 5.4E-59 486.6 17.2 779 191-1048 82-1103(1203)
11 cd02657 Peptidase_C19A A subfa 100.0 1.1E-52 2.3E-57 477.6 25.6 288 198-519 1-305 (305)
12 cd02660 Peptidase_C19D A subfa 100.0 1.8E-52 3.9E-57 480.7 26.0 280 197-483 1-318 (328)
13 cd02667 Peptidase_C19K A subfa 100.0 2.6E-52 5.6E-57 467.8 21.7 241 198-483 1-269 (279)
14 PF14533 USP7_C2: Ubiquitin-sp 100.0 1.2E-51 2.6E-56 439.6 18.4 204 882-1097 1-213 (213)
15 cd02661 Peptidase_C19E A subfa 100.0 4.6E-50 1E-54 455.4 24.1 276 197-483 2-294 (304)
16 KOG1866 Ubiquitin carboxyl-ter 100.0 6.5E-52 1.4E-56 473.5 5.4 328 187-526 86-439 (944)
17 cd02658 Peptidase_C19B A subfa 100.0 4E-49 8.7E-54 449.5 25.1 263 198-483 1-301 (311)
18 cd02669 Peptidase_C19M A subfa 100.0 4.3E-49 9.2E-54 466.7 25.9 293 192-519 115-440 (440)
19 cd02662 Peptidase_C19F A subfa 100.0 4.4E-47 9.6E-52 415.8 22.9 203 198-483 1-229 (240)
20 cd02665 Peptidase_C19I A subfa 100.0 2.5E-46 5.5E-51 400.2 19.3 220 198-519 1-228 (228)
21 cd02666 Peptidase_C19J A subfa 100.0 4.8E-47 1E-51 431.6 14.1 269 196-519 1-343 (343)
22 COG5560 UBP12 Ubiquitin C-term 100.0 3.9E-46 8.5E-51 420.6 9.1 299 190-522 259-823 (823)
23 COG5533 UBP5 Ubiquitin C-termi 100.0 8.5E-45 1.9E-49 380.0 17.7 284 195-521 70-414 (415)
24 cd02674 Peptidase_C19R A subfa 100.0 3.2E-43 6.9E-48 383.3 18.8 211 198-482 1-219 (230)
25 PF00443 UCH: Ubiquitin carbox 100.0 4.3E-40 9.3E-45 364.5 22.3 245 196-518 1-269 (269)
26 cd02673 Peptidase_C19Q A subfa 100.0 8.8E-40 1.9E-44 356.6 18.8 230 199-519 2-245 (245)
27 KOG1868 Ubiquitin C-terminal h 100.0 7.8E-41 1.7E-45 398.0 10.7 303 190-526 295-651 (653)
28 KOG0944 Ubiquitin-specific pro 100.0 2.9E-39 6.2E-44 369.0 17.7 221 192-420 303-546 (763)
29 cd02257 Peptidase_C19 Peptidas 100.0 3.1E-37 6.6E-42 337.1 21.6 235 198-519 1-255 (255)
30 KOG1867 Ubiquitin-specific pro 100.0 1.1E-37 2.4E-42 366.0 15.3 298 192-522 157-485 (492)
31 cd02672 Peptidase_C19P A subfa 100.0 8.6E-36 1.9E-40 329.5 20.5 236 186-479 5-260 (268)
32 KOG1873 Ubiquitin-specific pro 100.0 3.1E-36 6.8E-41 346.9 5.0 147 344-521 680-877 (877)
33 COG5207 UBP14 Isopeptidase T [ 100.0 8.1E-34 1.7E-38 313.3 17.6 217 196-419 303-535 (749)
34 KOG1870 Ubiquitin C-terminal h 100.0 6.1E-32 1.3E-36 339.5 12.9 297 190-522 240-842 (842)
35 cd02670 Peptidase_C19N A subfa 100.0 9.7E-31 2.1E-35 282.5 14.1 184 198-479 1-221 (241)
36 PF13423 UCH_1: Ubiquitin carb 100.0 4E-30 8.6E-35 290.7 19.4 266 197-474 1-295 (295)
37 KOG1864 Ubiquitin-specific pro 100.0 9.5E-31 2.1E-35 311.8 12.6 285 192-483 228-557 (587)
38 KOG1871 Ubiquitin-specific pro 99.9 2E-26 4.3E-31 251.0 10.5 299 196-522 28-420 (420)
39 KOG1872 Ubiquitin-specific pro 99.9 2.1E-26 4.5E-31 257.6 4.6 295 196-520 105-468 (473)
40 cd03775 MATH_Ubp21p Ubiquitin- 99.9 7.4E-23 1.6E-27 203.8 12.5 124 54-178 2-134 (134)
41 cd03772 MATH_HAUSP Herpesvirus 99.9 2.7E-22 5.8E-27 200.6 13.4 129 52-182 2-135 (137)
42 KOG2026 Spindle pole body prot 99.8 1.5E-20 3.3E-25 204.1 13.9 274 191-483 129-429 (442)
43 cd03774 MATH_SPOP Speckle-type 99.8 3.8E-19 8.2E-24 178.4 11.7 127 51-182 3-139 (139)
44 cd03773 MATH_TRIM37 Tripartite 99.8 9.1E-19 2E-23 174.1 10.5 122 50-178 2-130 (132)
45 cd00270 MATH_TRAF_C Tumor Necr 99.7 5.5E-18 1.2E-22 172.1 7.7 123 53-177 1-148 (149)
46 cd03780 MATH_TRAF5 Tumor Necro 99.7 5.1E-17 1.1E-21 163.3 9.4 125 53-177 1-147 (148)
47 cd03776 MATH_TRAF6 Tumor Necro 99.7 2.8E-17 6.1E-22 166.4 7.6 124 53-178 1-147 (147)
48 KOG1275 PAB-dependent poly(A) 99.7 1.7E-16 3.7E-21 187.5 12.9 305 186-518 489-860 (1118)
49 cd03781 MATH_TRAF4 Tumor Necro 99.7 9.7E-17 2.1E-21 163.5 9.4 123 53-177 1-153 (154)
50 cd03777 MATH_TRAF3 Tumor Necro 99.7 1.6E-16 3.5E-21 165.3 10.6 127 50-178 36-184 (186)
51 cd00121 MATH MATH (meprin and 99.7 4E-16 8.6E-21 152.4 12.1 123 53-178 1-126 (126)
52 cd03779 MATH_TRAF1 Tumor Necro 99.7 1.7E-16 3.7E-21 158.6 9.1 125 53-177 1-146 (147)
53 cd03771 MATH_Meprin Meprin fam 99.6 9.7E-16 2.1E-20 156.0 10.4 124 52-177 1-166 (167)
54 cd03778 MATH_TRAF2 Tumor Necro 99.6 3.7E-15 8E-20 150.5 10.6 126 50-177 16-163 (164)
55 PF00917 MATH: MATH domain; I 99.6 7.2E-16 1.6E-20 149.8 5.0 116 59-179 1-119 (119)
56 smart00061 MATH meprin and TRA 99.5 4.1E-14 8.9E-19 131.5 10.6 93 55-153 2-95 (95)
57 cd03783 MATH_Meprin_Alpha Mepr 99.2 1.2E-11 2.6E-16 124.5 7.0 124 52-177 1-166 (167)
58 cd03782 MATH_Meprin_Beta Mepri 99.2 3.5E-11 7.6E-16 120.4 7.8 124 52-177 1-166 (167)
59 PF15499 Peptidase_C98: Ubiqui 98.4 1.3E-06 2.8E-11 92.4 9.1 224 200-473 6-252 (275)
60 KOG1987 Speckle-type POZ prote 97.9 5.4E-05 1.2E-09 86.1 10.3 121 54-182 5-128 (297)
61 KOG1864 Ubiquitin-specific pro 96.5 0.00095 2.1E-08 81.4 1.1 100 199-298 34-155 (587)
62 KOG1870 Ubiquitin C-terminal h 94.0 0.12 2.6E-06 66.9 8.1 139 886-1028 419-562 (842)
63 PF08715 Viral_protease: Papai 92.9 0.54 1.2E-05 53.5 10.0 101 191-326 97-199 (320)
64 COG5560 UBP12 Ubiquitin C-term 92.9 0.44 9.6E-06 57.1 9.4 123 886-1024 443-567 (823)
65 PF14533 USP7_C2: Ubiquitin-sp 92.3 1.2 2.5E-05 48.2 11.3 152 801-964 21-185 (213)
66 PF12436 USP7_ICP0_bdg: ICP0-b 92.2 1.2 2.5E-05 49.4 11.5 175 867-1057 27-227 (249)
67 PF11976 Rad60-SLD: Ubiquitin- 89.1 0.56 1.2E-05 41.1 4.4 56 708-771 13-68 (72)
68 KOG1887 Ubiquitin carboxyl-ter 87.8 0.11 2.5E-06 63.9 -1.2 190 277-484 549-773 (806)
69 PF11543 UN_NPL4: Nuclear pore 87.3 0.8 1.7E-05 41.3 4.2 62 706-773 14-77 (80)
70 KOG3556 Familial cylindromatos 86.5 0.31 6.8E-06 56.8 1.4 30 196-225 368-397 (724)
71 PF05408 Peptidase_C28: Foot-a 86.5 0.29 6.4E-06 50.1 1.0 30 449-480 136-165 (193)
72 cd06406 PB1_P67 A PB1 domain i 85.9 2.6 5.7E-05 37.8 6.5 68 593-671 12-79 (80)
73 cd01768 RA RA (Ras-associating 84.2 4.7 0.0001 36.7 7.8 64 902-967 2-66 (87)
74 cd01763 Sumo Small ubiquitin-r 84.0 2.1 4.5E-05 39.2 5.3 73 687-774 9-81 (87)
75 smart00314 RA Ras association 82.3 6 0.00013 36.3 7.8 63 901-965 4-66 (90)
76 PF08817 YukD: WXG100 protein 80.6 2.2 4.7E-05 38.4 4.0 62 708-773 15-78 (79)
77 KOG0297 TNF receptor-associate 80.1 1.2 2.6E-05 52.6 2.9 76 50-125 277-365 (391)
78 cd01805 RAD23_N Ubiquitin-like 78.7 5.3 0.00011 35.4 5.9 70 692-776 3-74 (77)
79 cd01783 DAGK_delta_RA Ubiquiti 77.6 9.3 0.0002 35.6 7.2 62 901-965 4-70 (97)
80 cd01809 Scythe_N Ubiquitin-lik 76.8 5.4 0.00012 34.6 5.4 68 691-773 2-69 (72)
81 cd01796 DDI1_N DNA damage indu 76.2 3.2 7E-05 36.4 3.7 33 594-626 12-44 (71)
82 cd01794 DC_UbP_C dendritic cel 76.1 3.2 7E-05 36.4 3.6 33 594-626 11-43 (70)
83 PTZ00044 ubiquitin; Provisiona 75.4 3.5 7.6E-05 36.4 3.8 34 593-626 12-45 (76)
84 cd01793 Fubi Fubi ubiquitin-li 75.3 3.5 7.6E-05 36.4 3.7 33 594-626 11-43 (74)
85 cd06406 PB1_P67 A PB1 domain i 75.0 7.8 0.00017 34.8 5.7 63 801-876 5-67 (80)
86 cd01812 BAG1_N Ubiquitin-like 74.3 3.8 8.3E-05 35.5 3.7 33 594-626 12-44 (71)
87 PF14560 Ubiquitin_2: Ubiquiti 72.9 13 0.00028 33.9 7.0 69 708-777 16-84 (87)
88 cd01791 Ubl5 UBL5 ubiquitin-li 72.7 4.2 9.1E-05 36.0 3.5 31 595-625 15-45 (73)
89 cd01799 Hoil1_N Ubiquitin-like 72.7 5 0.00011 35.7 4.0 33 592-624 13-45 (75)
90 cd01807 GDX_N ubiquitin-like d 72.7 4.4 9.5E-05 35.7 3.7 33 594-626 13-45 (74)
91 cd01798 parkin_N amino-termina 72.7 4.4 9.6E-05 35.3 3.7 33 594-626 11-43 (70)
92 cd01807 GDX_N ubiquitin-like d 71.2 7.5 0.00016 34.2 4.9 68 691-773 2-69 (74)
93 cd01806 Nedd8 Nebb8-like ubiq 71.0 5.7 0.00012 34.9 4.1 33 594-626 13-45 (76)
94 PF00240 ubiquitin: Ubiquitin 70.7 7 0.00015 33.7 4.5 58 709-775 9-66 (69)
95 cd01803 Ubiquitin Ubiquitin. U 70.0 5.5 0.00012 35.0 3.7 33 594-626 13-45 (76)
96 cd01806 Nedd8 Nebb8-like ubiq 69.9 11 0.00023 33.1 5.6 70 692-776 3-72 (76)
97 smart00213 UBQ Ubiquitin homol 69.8 6.2 0.00013 33.1 3.9 34 593-626 11-44 (64)
98 cd01763 Sumo Small ubiquitin-r 69.4 6.9 0.00015 35.8 4.3 34 593-626 23-56 (87)
99 cd01810 ISG15_repeat2 ISG15 ub 69.3 7 0.00015 34.5 4.2 57 710-775 13-69 (74)
100 PF05408 Peptidase_C28: Foot-a 68.3 7.6 0.00017 40.1 4.7 37 191-227 28-65 (193)
101 cd01809 Scythe_N Ubiquitin-lik 68.2 6.7 0.00015 34.0 3.9 34 593-626 12-45 (72)
102 cd01792 ISG15_repeat1 ISG15 ub 67.1 9.7 0.00021 34.2 4.7 49 1016-1069 12-60 (80)
103 PF14560 Ubiquitin_2: Ubiquiti 66.0 17 0.00037 33.2 6.2 59 902-961 2-60 (87)
104 cd01808 hPLIC_N Ubiquitin-like 65.9 7.6 0.00016 33.9 3.7 32 595-626 13-44 (71)
105 PF00788 RA: Ras association ( 65.0 18 0.00039 32.9 6.3 68 901-969 4-72 (93)
106 PF00240 ubiquitin: Ubiquitin 64.9 9 0.00019 33.0 4.0 31 1016-1046 5-35 (69)
107 cd01800 SF3a120_C Ubiquitin-li 64.7 8.3 0.00018 34.2 3.8 34 593-626 9-42 (76)
108 cd01798 parkin_N amino-termina 64.7 9.1 0.0002 33.3 4.0 54 710-772 13-66 (70)
109 cd01799 Hoil1_N Ubiquitin-like 64.4 9.3 0.0002 34.0 4.0 33 1014-1046 10-42 (75)
110 cd01769 UBL Ubiquitin-like dom 64.3 8.4 0.00018 32.8 3.7 31 1016-1046 7-37 (69)
111 PTZ00044 ubiquitin; Provisiona 63.9 10 0.00022 33.5 4.2 31 1016-1046 10-40 (76)
112 cd01782 AF6_RA_repeat1 Ubiquit 63.6 59 0.0013 31.0 9.0 66 889-955 11-79 (112)
113 cd01789 Alp11_N Ubiquitin-like 63.4 9.8 0.00021 34.6 4.0 37 594-630 15-51 (84)
114 cd01804 midnolin_N Ubiquitin-l 63.1 8 0.00017 34.6 3.4 32 594-625 14-45 (78)
115 cd01769 UBL Ubiquitin-like dom 62.9 10 0.00023 32.2 4.0 33 594-626 10-42 (69)
116 cd01791 Ubl5 UBL5 ubiquitin-li 62.7 10 0.00022 33.6 3.9 45 1016-1067 11-55 (73)
117 cd01810 ISG15_repeat2 ISG15 ub 62.7 8.9 0.00019 33.8 3.6 33 593-625 10-42 (74)
118 cd01802 AN1_N ubiquitin-like d 61.6 9.9 0.00022 36.1 3.9 33 594-626 40-72 (103)
119 PF14836 Ubiquitin_3: Ubiquiti 61.5 20 0.00044 32.9 5.6 68 592-673 14-81 (88)
120 cd01803 Ubiquitin Ubiquitin. U 61.5 9.5 0.0002 33.5 3.6 31 1016-1046 10-40 (76)
121 cd01792 ISG15_repeat1 ISG15 ub 60.1 8.5 0.00019 34.5 3.0 31 595-625 16-46 (80)
122 cd01813 UBP_N UBP ubiquitin pr 59.4 10 0.00022 33.6 3.4 32 595-626 13-44 (74)
123 cd01797 NIRF_N amino-terminal 59.2 27 0.00058 31.3 6.0 56 712-776 19-74 (78)
124 cd01813 UBP_N UBP ubiquitin pr 58.7 13 0.00028 33.0 3.8 36 1016-1054 9-44 (74)
125 cd01795 USP48_C USP ubiquitin- 58.5 15 0.00032 34.3 4.2 35 593-627 16-50 (107)
126 cd01796 DDI1_N DNA damage indu 58.4 17 0.00036 31.8 4.5 56 709-773 13-69 (71)
127 cd01794 DC_UbP_C dendritic cel 57.8 12 0.00026 32.7 3.5 47 1016-1069 8-54 (70)
128 cd01802 AN1_N ubiquitin-like d 57.4 25 0.00055 33.3 5.8 74 687-775 25-98 (103)
129 cd01797 NIRF_N amino-terminal 56.3 9.9 0.00021 34.1 2.7 29 598-626 19-47 (78)
130 PF14836 Ubiquitin_3: Ubiquiti 55.4 68 0.0015 29.6 7.9 66 707-777 15-81 (88)
131 PF11976 Rad60-SLD: Ubiquitin- 55.1 19 0.00042 31.3 4.4 35 1016-1052 10-44 (72)
132 cd01805 RAD23_N Ubiquitin-like 54.6 17 0.00038 32.0 4.1 33 594-626 13-47 (77)
133 TIGR03180 UraD_2 OHCU decarbox 54.1 13 0.00029 38.1 3.6 28 1013-1041 105-132 (158)
134 smart00213 UBQ Ubiquitin homol 53.0 17 0.00038 30.3 3.7 28 1018-1045 11-38 (64)
135 cd06407 PB1_NLP A PB1 domain i 51.8 21 0.00045 32.4 4.1 25 1020-1044 13-37 (82)
136 cd01804 midnolin_N Ubiquitin-l 50.0 20 0.00042 32.1 3.6 30 1016-1045 11-40 (78)
137 cd00196 UBQ Ubiquitin-like pro 48.4 22 0.00048 28.3 3.6 32 1016-1047 7-38 (69)
138 cd01812 BAG1_N Ubiquitin-like 48.1 21 0.00046 30.8 3.5 31 1016-1046 9-39 (71)
139 cd01789 Alp11_N Ubiquitin-like 46.7 83 0.0018 28.6 7.2 66 902-969 2-67 (84)
140 cd01795 USP48_C USP ubiquitin- 46.5 44 0.00094 31.4 5.2 64 706-777 15-78 (107)
141 TIGR02958 sec_mycoba_snm4 secr 46.3 52 0.0011 39.8 7.5 66 708-777 14-81 (452)
142 cd01793 Fubi Fubi ubiquitin-li 45.5 30 0.00065 30.4 4.1 56 709-773 12-67 (74)
143 PF02196 RBD: Raf-like Ras-bin 44.6 52 0.0011 28.9 5.4 39 1014-1052 8-46 (71)
144 cd01800 SF3a120_C Ubiquitin-li 43.6 30 0.00065 30.7 3.8 32 1015-1046 6-37 (76)
145 PF11543 UN_NPL4: Nuclear pore 42.7 27 0.00059 31.5 3.4 29 1019-1047 16-44 (80)
146 KOG1769 Ubiquitin-like protein 42.7 70 0.0015 30.0 5.9 59 709-776 34-92 (99)
147 cd06411 PB1_p51 The PB1 domain 42.1 81 0.0018 28.4 6.0 68 594-670 9-76 (78)
148 smart00666 PB1 PB1 domain. Pho 39.9 47 0.001 29.5 4.5 29 1016-1044 10-38 (81)
149 TIGR03164 UHCUDC OHCU decarbox 38.8 30 0.00065 35.5 3.4 28 1013-1041 105-132 (157)
150 PRK13798 putative OHCU decarbo 36.5 34 0.00074 35.5 3.4 28 1013-1041 110-137 (166)
151 cd01612 APG12_C Ubiquitin-like 35.5 63 0.0014 29.7 4.6 34 709-742 19-52 (87)
152 cd06411 PB1_p51 The PB1 domain 35.0 83 0.0018 28.3 5.0 34 815-849 8-41 (78)
153 cd00196 UBQ Ubiquitin-like pro 34.8 52 0.0011 26.1 3.7 33 594-626 10-42 (69)
154 cd01790 Herp_N Homocysteine-re 33.9 1.8E+02 0.0038 26.3 7.0 62 902-970 2-64 (79)
155 cd06408 PB1_NoxR The PB1 domai 31.3 1.2E+02 0.0026 27.8 5.6 54 814-875 12-65 (86)
156 PF14847 Ras_bdg_2: Ras-bindin 30.8 69 0.0015 30.6 4.2 52 1016-1068 10-66 (105)
157 cd01768 RA RA (Ras-associating 30.4 1.3E+02 0.0029 27.0 5.9 38 707-744 14-52 (87)
158 cd01771 Faf1_UBX Faf1 UBX doma 30.0 1.3E+02 0.0028 27.1 5.6 62 595-671 18-79 (80)
159 PF02991 Atg8: Autophagy prote 28.9 92 0.002 29.7 4.6 33 708-740 35-67 (104)
160 COG3478 Predicted nucleic-acid 28.5 47 0.001 28.4 2.2 34 361-394 3-39 (68)
161 cd01781 AF6_RA_repeat2 Ubiquit 28.4 1.8E+02 0.0039 27.5 6.4 36 918-953 19-55 (100)
162 cd01808 hPLIC_N Ubiquitin-like 27.8 77 0.0017 27.5 3.7 45 1016-1068 10-54 (71)
163 PF00788 RA: Ras association ( 27.6 1.4E+02 0.0029 27.0 5.6 63 693-757 4-67 (93)
164 PF00789 UBX: UBX domain; Int 27.6 1.9E+02 0.0042 25.7 6.4 77 689-775 6-82 (82)
165 cd01611 GABARAP Ubiquitin doma 26.9 96 0.0021 30.0 4.5 35 708-742 43-77 (112)
166 cd01790 Herp_N Homocysteine-re 26.4 69 0.0015 28.9 3.1 30 597-626 19-50 (79)
167 PTZ00380 microtubule-associate 26.2 1.8E+02 0.0039 28.5 6.1 63 595-673 43-106 (121)
168 cd01814 NTGP5 Ubiquitin-like N 25.4 55 0.0012 31.5 2.4 42 585-626 9-57 (113)
169 COG5227 SMT3 Ubiquitin-like pr 24.8 1.2E+02 0.0026 27.9 4.2 33 594-626 37-69 (103)
170 KOG3206 Alpha-tubulin folding 23.9 1.9E+02 0.0042 30.8 6.2 81 902-985 2-82 (234)
171 cd06407 PB1_NLP A PB1 domain i 23.1 2.2E+02 0.0047 25.9 5.7 28 814-841 10-37 (82)
172 cd01775 CYR1_RA Ubiquitin doma 23.0 3.6E+02 0.0079 25.3 7.1 48 917-966 15-62 (97)
173 KOG1769 Ubiquitin-like protein 22.4 1.9E+02 0.0042 27.2 5.3 34 593-626 32-65 (99)
174 KOG4495 RNA polymerase II tran 21.7 77 0.0017 29.4 2.5 30 600-629 20-49 (110)
175 TIGR00601 rad23 UV excision re 21.6 1.7E+02 0.0037 34.5 6.1 71 691-776 2-75 (378)
176 cd06410 PB1_UP2 Uncharacterize 20.4 4.1E+02 0.0089 25.0 7.2 31 593-624 24-54 (97)
No 1
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.4e-186 Score=1566.67 Aligned_cols=1024 Identities=36% Similarity=0.600 Sum_probs=926.2
Q ss_pred CCCccCCCCcEEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCC---CCCCceEEEEEEE
Q 001246 44 NQQVEDPPTMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGT---LPYGWSRYAQFSL 120 (1115)
Q Consensus 44 ~~~~~~~~~~~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~~~~lSiyL~~~~~~~---~~~~W~~~a~f~l 120 (1115)
++.+++..+..|+|+|++||.+. +++.||+|.+||+.|+|.+||+|+++..+|+||+....+. ....|.|||||+|
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 77889999999999999999994 7899999999999999999999998766999999876531 2236999999999
Q ss_pred EEEeecccceeeeecceeeecCCCCCcccccccCCCCCCCCCC---Cccccccceeeeeeeeecccc--cc----ccCCC
Q 001246 121 AVVNQIHSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSR---GYLVNDSVVVEAEVAVRKVLD--YW----SYDSK 191 (1115)
Q Consensus 121 ~l~n~~~~~~~~~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p~~---gfl~nD~l~I~~~V~V~~~~~--~~----~~ds~ 191 (1115)
.|.|+..|+....++++|+|+...+||||++|+.++.|..|+. +|++++++.|+|+|||++++. +| +|+||
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 9999999998888999999999999999999999999987654 589999999999999999965 34 99999
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCc
Q 001246 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDT 271 (1115)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~ 271 (1115)
++||||||+|+|+||||||+||+||.+..||+.+|.+|+ ++..+..+++.+||++|++||.+..++++.+|+++|||.+
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 5666778999999999999999999999999999999999
Q ss_pred ccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCCCCHHHHHhhc
Q 001246 272 YDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKY 351 (1115)
Q Consensus 272 ~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~ 351 (1115)
++.++|||+|||.++|+|.||..|+++..++.++.+|.|+|++++.|.+..++|.|.|.||+++|++++.++|+++|++|
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 001246 352 VEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADR 431 (1115)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~ 431 (1115)
++.|+|+|+|+|.|+++|.|+|+|++.|.+|||||++|||||+||+.++.++|||++++||.++|| .||++.++++
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 001246 432 SVR--NLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTK 509 (1115)
Q Consensus 432 ~~~--~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~ 509 (1115)
++. +.|.|+||+||+|+.+.|||||++|+..+|+||+|||++||+++..+|+++||||+.... .+.. ......+
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 0111 1234667
Q ss_pred CCcEEEEEEEeecCccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccC
Q 001246 510 YSNAYMLVYIRESDKDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVD 589 (1115)
Q Consensus 510 ~~~AYmLfY~R~~~~~~~l~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~fdl~~ 589 (1115)
..+||||+|.|++..++++.||...+||+|+.+++.+|.++.|.+.+|++|+|+|..++++|.+.|.+|+| ||..|
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 001246 590 HDK------VRSFRVQKQTSFMAFKEEIAKEFGIPIQL-QRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHT 662 (1115)
Q Consensus 590 ~~~------~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~ 662 (1115)
+.. .+.+++++.+++.+|...||+.++.|-+. +|.|.|.+|+|.|.|.+.|+. .-..|+.++....++..
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--RVNITTRELVGMNTRTG- 652 (1089)
T ss_pred hhhhcccccceeEEeecCCCHHHHHHHHHHHcCCCceeeeEEEEEEeccccceeecCcch--hhhhHHHHHhhccchhH-
Confidence 764 57899999999999999999999999998 999999999999999999985 44578888876555433
Q ss_pred cceeeEeeeecC-CCCCC-CCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEE
Q 001246 663 AELRLFLEVEFG-PDLHP-IAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELY 740 (1115)
Q Consensus 663 ~~~~l~le~~~~-~~~~~-~~~~~~~~~~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~ly 740 (1115)
..+++|||.... .++.. ..........++||+||||+.+|.+.|+|++.|.+..+|+++.|.|++ .||.+++|.+|
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 478889887643 11110 011123456699999999999999999999999999999999999999 89999999999
Q ss_pred EEeecCccceeccCCccCccccccCCCCCEEEEEeCCCCCCcccCCCCCHHHHHHHHhcceEEEEEecCCC-CCCcEEEE
Q 001246 741 EEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSPPLESEQECRYPDVPSFLEYVHNRQIVRFRALDRP-KEDAFCLE 819 (1115)
Q Consensus 741 EEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~~~~~~~~~~~y~~v~~yy~~L~nr~~v~f~~~~~~-~~~~f~l~ 819 (1115)
|||| |+ |+.-|.++.||.++||+.||||||+++...+......|.++.++|+||++||.|.|+..... ....|+++
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 55999999999999999999999998876666666779999999999999999999954322 23479999
Q ss_pred EcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhc-cCC-ccceEEEEEeccChhhhc
Q 001246 820 LSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVH-YNQ-TSDILYYEVLDIPLPELQ 897 (1115)
Q Consensus 820 ls~~~~Y~~la~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~~-~~~~l~YEvL~i~l~elE 897 (1115)
++....|++||..||.++++ +|.+||++++......+. .-++..+.-+|.+.|.. +.. +....+||+|++||+|||
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 599999999665444443 34555556799999965 332 346679999999999999
Q ss_pred cCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEeccEEEEecCCcccccccccccce
Q 001246 898 GLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVFYHKIYKIFAPNEKIENINDQYWT 976 (1115)
Q Consensus 898 ~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~~ 976 (1115)
.+|.+++.|+.+++.+++.+++++.|++|+.|+|..+..|++++++ ..++|+|++.++|+.+-++..+.+..++. ..+
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 779
Q ss_pred eEeeecchhhhcCCCCCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEe
Q 001246 977 LRAEEIPEEEKNLGPNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLS 1056 (1115)
Q Consensus 977 ~~~e~iP~~e~~~~~~~~li~v~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~ 1056 (1115)
+++|.+|.++++...+++.|.|.||+|+..|.| ||||.|+|.++|+|.++|.||++|+|.++|+|+|+|+++..
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 ---cC----CCccccCcccccccccccccCCCcceeEeecCCCCCCCCccccCcceE
Q 001246 1057 ---LG----RPEYLVDTDTVFNRFQRRDVYGAWEQYLGLEHSDNAPKRAYSVNQVIY 1106 (1115)
Q Consensus 1057 ---~~----~~~~l~~~~~~~~~~~~~~~~~~~~~~lgldh~~~~~~~~~~~~~~~~ 1106 (1115)
.+ ++.|++||+|+++.+...+. .| ||||++. +..++.||+|-
T Consensus 1039 s~~~g~~~~~~~~fnDedilyd~ie~l~~------il-lDhp~~~-~~~~~~Drai~ 1087 (1089)
T COG5077 1039 SYTDGELDWPMSYFNDEDILYDLIERLDY------IL-LDHPDRL-RSHSSYDRAII 1087 (1089)
T ss_pred cccccccccccccccchhhhhhhhhccCc------ee-ecCcccc-cCcccccccee
Confidence 23 47999999999888876553 44 9999999 44477898874
No 2
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9.8e-112 Score=1081.37 Aligned_cols=1020 Identities=37% Similarity=0.536 Sum_probs=874.0
Q ss_pred cCCCCcEEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecc
Q 001246 48 EDPPTMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIH 127 (1115)
Q Consensus 48 ~~~~~~~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n~~~ 127 (1115)
.+...+..+|.+.++..+. .+..||.|..|+.+|+|+++|+|+....+++|+++...+.. ..|+|++++.+.++|..+
T Consensus 22 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~~~ 99 (1093)
T KOG1863|consen 22 QTSLNQSTTIDGIDDKSLL-YRALSSNFGAGATKWKILIAPKVNSLQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKNTID 99 (1093)
T ss_pred cchhcccccccCcCcchhh-hHhcCccccccccceeeeeccccCcccceeEEeeeccCCCC-cceEecchhhhccccCCC
Confidence 3445556678888888885 48999999999999999999999988999999999987766 559999999999999666
Q ss_pred cceeeeecceeeecCCCCCcccccccCCCCCCCCCCCccccccceeeeeeeeeccccc-cccCCCCcccc-cccccCCcc
Q 001246 128 SKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKVLDY-WSYDSKKETGY-VGLKNQGAT 205 (1115)
Q Consensus 128 ~~~~~~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~V~~~~~~-~~~ds~~~~g~-~GL~N~GnT 205 (1115)
+.....+.++|.|.....||||++|+.+.++.++..||+.+|++.+++.|++..+++. +.||+++.+|+ +||.|+|||
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 6667777899999999999999999999999999999999999999999999998776 79999999999 999999999
Q ss_pred cchhhHHHHHhcchhHHHHHccCCC-CCCCCCCCCHHHHHHHHHHHHhcCCc-cccchhhhhhcCCCcccccccccHHHH
Q 001246 206 CYMNSLLQTLYHIPYFRKAVYHMPT-TENDLPSGSIPLALQSLFYKLQYNDT-SVATKELTKSFGWDTYDSFMQHDVQEL 283 (1115)
Q Consensus 206 CY~NSvLQ~L~~~~~fr~~l~~~~~-~~~~~~~~~l~~~Lq~Lf~~l~~s~~-~v~~~~l~~s~~~~~~~~~~QqDa~Ef 283 (1115)
|||||+||+||+++.||+.||+++. ..+..+..+++.+||+||+.||.++. +|++.+++++++|.....++|||+|||
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 001246 284 NRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVERLEGDNKY 363 (1115)
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 (1115)
+++|+|.|++.++++...+.+.++|.|++.+++.|..|++++.+.|.|++++|++++..++.++|..|+..|.++|+|+|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCC-CcCCCcc-ccEEEEE
Q 001246 364 HAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSP-DADRSVR-NLYTLHS 441 (1115)
Q Consensus 364 ~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~-~~~~~~~-~~Y~L~g 441 (1115)
.+++++.++|.+++.+.+|||||+|||+||.||..++...|++++++||..|+| .+|++. ..+.+.. +.|.|+|
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 566553 3333344 4999999
Q ss_pred EEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001246 442 VLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1115)
Q Consensus 442 VVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~ 521 (1115)
|++|.|..++|||++|+++...++|++|||..|+.++..+|++.+||+.+..... ......||||+|.|.
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 112245999999999
Q ss_pred cCccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccCC----CCceEEE
Q 001246 522 SDKDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVDH----DKVRSFR 597 (1115)
Q Consensus 522 ~~~~~~l~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~fdl~~~----~~~~~~~ 597 (1115)
+..++++++++..++|.++.+.+..+..+.+.++++.++++++..++.++++.+.++.| |++.+. ....++|
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 001246 598 VQKQTSFMAFKEEIAKEFGIPIQ-LQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEF--- 673 (1115)
Q Consensus 598 ~~~~~~~~~~~~~i~~~~~~~~~-~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~~~--- 673 (1115)
+.+...+.+|...++..+|+++. ..|+|.+..|.|.+.++..+........++.+..+.. .+..+..|++...
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 8999999999999999988765544444555444321 1123444555432
Q ss_pred -CCCCCCCCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceec
Q 001246 674 -GPDLHPIAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCE 752 (1115)
Q Consensus 674 -~~~~~~~~~~~~~~~~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie 752 (1115)
+++. ...+......++++|+|+||+.++.+.++|+...+...+..++.+.++++.|+++++.+..|+|++.+...+++
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 001246 753 HLDKRTSFRLSQIEDGDIICFQKSPPLESEQECRYPDVPSFLEYVHNRQIVRFRALDRPKED-AFCLELSKQHSYDEVVE 831 (1115)
Q Consensus 753 ~i~~~~t~~~~el~~GDIl~fQ~~~~~~~~~~~~y~~v~~yy~~L~nr~~v~f~~~~~~~~~-~f~l~ls~~~~Y~~la~ 831 (1115)
.+....+|..+++++|||+||+..... ......++++.+|++++.+|..+.|..+..+..+ .|+++++.+++|.+++.
T Consensus 718 ~~~~~~~~~~~~~~d~~~~~~e~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~~~~~~~~~ 796 (1093)
T KOG1863|consen 718 KIAEEKSFDLSELEDGDISVVEEEAAS-KDSESNRADVSEFLENVENRTLQRFRKVSSEIEENSFVLGRQQRVTECILAV 796 (1093)
T ss_pred hhhhhhhhhhhhhhcCCeeeecccccC-CcccccccchHHHHHHHHHHHHHHHhcccccccccccccchhhhhhhhHHHH
Confidence 888899999999999999999988543 3456679999999999999999999998877666 89999999999999999
Q ss_pred HHHHHhCCCCCCceEEeccc-ccCCCCCCCCccccCc-chHHHhhhc-cCCccceE-EEEEeccChhhhccCceEEEEEE
Q 001246 832 RVARKIGLDDPSKIRLTPHN-CYSQQPKPQPIKYRGV-EHLSDMLVH-YNQTSDIL-YYEVLDIPLPELQGLKNLKVAFH 907 (1115)
Q Consensus 832 ~va~~l~~~~p~~lr~~~~~-~~~~~~~~~~~~~~~~-~~l~~~l~~-~~~~~~~l-~YEvL~i~l~elE~~k~~kv~w~ 907 (1115)
.|+.++++ +|..++..+.. ++...+.+...+.+.. ..+..++.. ..+....+ +|.++++++.|+..++.+++.|+
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 58998888743 2223344444554443 233333322 22334555 45599999999999999999999
Q ss_pred cCCCCeEEEEEEEcCCCCCHH-HHHHHHHhhccCCC-CCccEEEEEEeccEEEEecCCcccccccccccc---------e
Q 001246 908 HATKDEVVIHNIRLPKQSTVG-DVINELKTKVELSH-PNAELRLLEVFYHKIYKIFAPNEKIENINDQYW---------T 976 (1115)
Q Consensus 908 ~~~~~~~~~~~~~v~k~~tv~-dll~~l~~~~~~~~-~~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~---------~ 976 (1115)
.....+...+.+.+.|.+||. |++.++.+++.+.+ ...++|++++.+.++++.......+..|+..++ +
T Consensus 876 ~~~~~~~~~~~~~~~k~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 955 (1093)
T KOG1863|consen 876 VDMENGVEIMTLAVTKLGTILPDILREVYDRVPLDPFKSDAFRLFEVTSMKLYKETSYQKLLEELNQSYQSFELLLRDLF 955 (1093)
T ss_pred ccccccchhhheeccccchhhHHHHHHHHhhcccCcccccceeEEeecchHHHHhccchhHHHHHhHHHhhHHhhhcccc
Confidence 999999999999999999999 99999999999986 678999999999999999999999988876444 3
Q ss_pred eEeeecchhhhcCC-CCCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhC-CCccccceeEEEE
Q 001246 977 LRAEEIPEEEKNLG-PNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQ-VLDEEFSKWKFAF 1054 (1115)
Q Consensus 977 ~~~e~iP~~e~~~~-~~~~li~v~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rlg-v~~kef~k~Kfai 1054 (1115)
+|++++|.+++... +.+++++|.||.|+... .||+||.+.+.++|++.+++.|++.+++ ++++.|++||+|.
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 89999999998877 55689999999999853 4599999999999999999999999999 9999999999999
Q ss_pred EecCCC-ccccCcc--cccccccccccCCCcceeEeecCCCCCCCCcc
Q 001246 1055 LSLGRP-EYLVDTD--TVFNRFQRRDVYGAWEQYLGLEHSDNAPKRAY 1099 (1115)
Q Consensus 1055 ~~~~~~-~~l~~~~--~~~~~~~~~~~~~~~~~~lgldh~~~~~~~~~ 1099 (1115)
+..+.. .+..+.- ...+.-...+..+++..++||||.+++|++.+
T Consensus 1030 ~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 1077 (1093)
T KOG1863|consen 1030 ASVGHYWKYIQDFNLIYRKDNDEEIDVVSEPEVFLDLSGNNANPYFLS 1077 (1093)
T ss_pred hhhccchhhhhccccccccccchhhhcccCcccccccCCCCCCchhhh
Confidence 766653 2222320 00111122223455566999999999999864
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=8.8e-57 Score=517.71 Aligned_cols=320 Identities=54% Similarity=0.887 Sum_probs=278.3
Q ss_pred cccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccc-cchhh--hhhcCCCc
Q 001246 195 GYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSV-ATKEL--TKSFGWDT 271 (1115)
Q Consensus 195 g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v-~~~~l--~~s~~~~~ 271 (1115)
|++||.|+||||||||+||+|+++|+||+++++........+..++.++|+.||..|+.+.... .+..+ ..+++|..
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 001246 272 YDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKY 351 (1115)
Q Consensus 272 ~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~ 351 (1115)
+..+.||||+||+..|++.|+++++.....+.|.++|+|.+.+.++|..|+..+.+.++|++|+|++++..+|+++|+.|
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 89999999999999999999999987777789999999999999999999999999999999999999999999999999
Q ss_pred ceeEEecCCCcccccccCc-eeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCc-
Q 001246 352 VEVERLEGDNKYHAEEHGL-QDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA- 429 (1115)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~-~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~- 429 (1115)
+.+|.++|.|+|.|+.|++ +.+.++..|.++|++|+|||+||.|+..++...|+++.|+||..||| .+|+....
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 48999999999999999999999999888889999999999999999 66665432
Q ss_pred --------CCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCC
Q 001246 430 --------DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFN 501 (1115)
Q Consensus 430 --------~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~ 501 (1115)
.......|+|+|||+|.|+.++|||+||+|...+++|++|||+.|+++++++|++.+|||.........+
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 2345678999999999999999999999998768999999999999999999999999997532210000
Q ss_pred CCCcccCCCCcEEEEEEEeec
Q 001246 502 NTPFKFTKYSNAYMLVYIRES 522 (1115)
Q Consensus 502 ~~~~~~~~~~~AYmLfY~R~~ 522 (1115)
.....++.+||||||+|++
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=4.6e-56 Score=508.85 Aligned_cols=308 Identities=33% Similarity=0.545 Sum_probs=262.5
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC----------CCCCCCHHHHHHHHHHHHhcCC-ccccchhhhhh
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN----------DLPSGSIPLALQSLFYKLQYND-TSVATKELTKS 266 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~----------~~~~~~l~~~Lq~Lf~~l~~s~-~~v~~~~l~~s 266 (1115)
||.|+||||||||+||+|+++|+||++++....... .....++.++|++||.+|+.+. .+++|..|.++
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 001246 267 FGWDTYDSFMQHDVQELNRVLCEKLEDKMKG---TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRD 343 (1115)
Q Consensus 267 ~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~---~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~s 343 (1115)
+++ ..++||||+||+..||+.|+++++. ....+.|.++|+|++.+.++|..|++.+.+.|+|++|+|++++..+
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 4678999999999999999998874 3345789999999999999999999999999999999999999999
Q ss_pred HHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcccC
Q 001246 344 VYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENG 422 (1115)
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 (1115)
|+++|+.|+.+|.++|+|+|.|+.|+ +++|.|+..|.++|++|+|||+||.||..++...|+++.|+||..||| +
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 CCcCCCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCC
Q 001246 423 KYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFN 501 (1115)
Q Consensus 423 ~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~ 501 (1115)
+|+.... ..+..|+|+|||+|.| ++++|||+||+|+..+++||+|||+.|++++++.+.+...++...... +
T Consensus 234 ~~~~~~~--~~~~~Y~L~~vI~H~G~~~~~GHY~~~~k~~~~~~W~~fdD~~V~~i~~~~~~~~~~~~~~~~~~-----~ 306 (324)
T cd02668 234 EYLAESD--EGSYVYELSGVLIHQGVSAYSGHYIAHIKDEQTGEWYKFNDEDVEEMPGKPLKLGNSEDPAKPRK-----S 306 (324)
T ss_pred hhccccc--CCCcEEEEEEEEEEcCCCCCCEeeEEEEECCCCCcEEEEECCceEEcCHHHhhcccccccccccc-----c
Confidence 8875543 3467899999999999 489999999999876789999999999999999886543222110000 0
Q ss_pred CCCcccCCCCcEEEEEEE
Q 001246 502 NTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 502 ~~~~~~~~~~~AYmLfY~ 519 (1115)
........+.+||||||+
T Consensus 307 ~~~~~~~~~~~~y~l~y~ 324 (324)
T cd02668 307 EIKKGTHSSRTAYMLVYK 324 (324)
T ss_pred ccCCCccccCceEEEEeC
Confidence 001112346799999995
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=9.7e-57 Score=490.01 Aligned_cols=249 Identities=40% Similarity=0.731 Sum_probs=186.2
Q ss_pred ceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeeeecCCCCCCCCCCCCCCCcEEEEEEeecCC
Q 001246 621 LQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEFGPDLHPIAPPDKSKDDILLFFKLYDPE 700 (1115)
Q Consensus 621 ~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~~~~~~~~~~~~~~~~~~~il~FlK~fd~~ 700 (1115)
++|||.|++|+|+|.||+.|+.+.+.++||+++...... +.++++||||++.+.......+++..+++||||||||||.
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 CCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeCCCCC
Q 001246 701 KGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSPPLE 780 (1115)
Q Consensus 701 ~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~~~~~ 780 (1115)
+|+|+|+||++|+++++|++|+|.|+++||||+||+|.|||||+ |+ +|++|+++.||.++||+||||||||+..+.+
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 6699999999999999999999999997766
Q ss_pred CcccCCCCCHHHHHHHHhcceEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCC
Q 001246 781 SEQECRYPDVPSFLEYVHNRQIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQ 860 (1115)
Q Consensus 781 ~~~~~~y~~v~~yy~~L~nr~~v~f~~~~~~~~~~f~l~ls~~~~Y~~la~~va~~l~~~~p~~lr~~~~~~~~~~~~~~ 860 (1115)
......|+||++||+||+||++|+|++...+.+++|+||||++|+|+|||++||++||+ ||++||||++++++++|+..
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 67788999999999999999999999999998889999999999999999999999998 79999999999999999988
Q ss_pred CccccCcchHHHhh
Q 001246 861 PIKYRGVEHLSDML 874 (1115)
Q Consensus 861 ~~~~~~~~~l~~~l 874 (1115)
+++++.++||+|||
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
>KOG1865 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.6e-56 Score=503.84 Aligned_cols=298 Identities=27% Similarity=0.468 Sum_probs=262.7
Q ss_pred cccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCC-CCCCCHHHHHHHHHHHHhcCCc-cccchhh
Q 001246 186 WSYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEND-LPSGSIPLALQSLFYKLQYNDT-SVATKEL 263 (1115)
Q Consensus 186 ~~~ds~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~-~~~~~l~~~Lq~Lf~~l~~s~~-~v~~~~l 263 (1115)
|.|+.-...| +||.|+|||||+||+||||.++|++.++++.......+ ....|+.|+++.+......+.. +++|..+
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 3555444455 99999999999999999999999999999864432222 2457999999999887766654 9999998
Q ss_pred hhhcC--CCcccccccccHHHHHHHHHHHHHHhhcC--------CccccccccccceEEeeeEEeeceeeecceeeeeee
Q 001246 264 TKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKG--------TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYD 333 (1115)
Q Consensus 264 ~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~--------~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~ 333 (1115)
+..+. ...|..+.|+|||||++.++|.|+..+-+ ......|..+|+|.+++.++|.+|.++|.+.|+.++
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 001246 334 LQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFP 412 (1115)
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 (1115)
|+|+|....+|++||+.|+++|.|+|+|+|.|++|+ +++|.|+..|.++|+||+||||||+. +.+.||++.|.||
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 88999999999999999999999985 6788999999999
Q ss_pred CcccCCcccCCCcCCCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCC
Q 001246 413 LQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEE 491 (1115)
Q Consensus 413 ~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~ 491 (1115)
+.||| +||++.+. ..+.+|.|||||||.| +..+|||+||||.. +|.||++||+.|+.++.+.|+.
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 3568999999999999 78999999999997 8899999999999999999974
Q ss_pred CCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001246 492 ELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1115)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~ 521 (1115)
..||||||.|+
T Consensus 400 -------------------q~AYmLfY~R~ 410 (545)
T KOG1865|consen 400 -------------------QQAYILFYARK 410 (545)
T ss_pred -------------------ccceEEEEEee
Confidence 37999999998
No 7
>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=5.2e-55 Score=500.15 Aligned_cols=286 Identities=31% Similarity=0.443 Sum_probs=246.3
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcC-Cccccchh-hhhhcCCCccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYN-DTSVATKE-LTKSFGWDTYDSF 275 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s-~~~v~~~~-l~~s~~~~~~~~~ 275 (1115)
||.|+||||||||+||+|+++|+||+++++..... .....++..+|+.+|..|..+ ..++.+.. +..+...+.+..+
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 89999999999999999999999999999887532 223457889999999999875 45566665 6665555677888
Q ss_pred ccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCCCCHHHHHhhcceeE
Q 001246 276 MQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFDKYVEVE 355 (1115)
Q Consensus 276 ~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~~~~~~E 355 (1115)
+|||||||+..||+.|+ +.|.++|+|++.+.++|.+|++.+.+.|+|.+|+|+|+ +|+++|+.|+.+|
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 001246 356 RLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSP------- 427 (1115)
Q Consensus 356 ~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~------- 427 (1115)
.++|+|+|.|++|+ +++|.|+..|.++|+||+|||+||.||..++...|+++.|.||..||| ..++..
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 679999999999999999999999999988889999999999999999 555421
Q ss_pred ----------CcCCCccccEEEEEEEEeec-cCCCceEEEEEecCC--------------------CCCEEEEeCceeeE
Q 001246 428 ----------DADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL--------------------SDQWYKFDDERVTK 476 (1115)
Q Consensus 428 ----------~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~--------------------~~~W~~fnD~~Vt~ 476 (1115)
......+..|+|+|||+|.| ++++|||+||+|... ++.||+|||+.|++
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 589999999999853 37999999999999
Q ss_pred echHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001246 477 EDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 477 v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
++.++|..- .|+. .+.+||||||+
T Consensus 304 ~~~~~v~~~-~~~~------------------~~~~aYlLfY~ 327 (327)
T cd02664 304 SSFESVQNV-TSRF------------------PKDTPYILFYE 327 (327)
T ss_pred CCHHHHHHh-hCCC------------------CCCCEEEEEeC
Confidence 999999752 1111 23599999995
No 8
>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=6e-55 Score=494.33 Aligned_cols=276 Identities=31% Similarity=0.552 Sum_probs=245.7
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCC---ccccchhhhhhcCC--Ccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYND---TSVATKELTKSFGW--DTY 272 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~---~~v~~~~l~~s~~~--~~~ 272 (1115)
||.|+||||||||+||+|++ .++.++|+.||.+|+.+. ..++|..|.+++++ +.|
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 89999999999999999998 468899999999999853 46899999999973 568
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCC-----------------ccccccccccceEEeeeEEeeceeeecceeeeeeeeE
Q 001246 273 DSFMQHDVQELNRVLCEKLEDKMKGT-----------------VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQ 335 (1115)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~-----------------~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~ 335 (1115)
..++||||+||++.|||.|+++++.. ...+.|.++|+|++.+.++|..|++.+.+.|+|++|+
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 001246 336 LDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ 414 (1115)
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 (1115)
|+|++..+|++||+.|+.+|.++|+|+|.|++|+ +++|+|+..|.++|++|+|||+||.|+...+...|+++.|.||.+
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 688999999999999999999999999776778999999999999
Q ss_pred ccCCcccCCCcCCCcCCCccccEEEEEEEEeecc-CCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCC
Q 001246 415 LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEEL 493 (1115)
Q Consensus 415 Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~ 493 (1115)
|+| .++.+. .......|+|+|||+|.|+ +++|||+||+|. +++||+|||+.|++++.++|. +.+|+..
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 4566642
Q ss_pred CCCCCCCCCCCcccCCCCcEEEEEEE
Q 001246 494 PPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 494 ~~~~~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
.+.+||||||+
T Consensus 290 ---------------~~~~aYiLfY~ 300 (300)
T cd02663 290 ---------------NQATAYVLFYQ 300 (300)
T ss_pred ---------------CCCceEEEEeC
Confidence 24699999995
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=6.5e-54 Score=488.92 Aligned_cols=284 Identities=29% Similarity=0.531 Sum_probs=240.8
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHh---cC-Cccccchhhhh
Q 001246 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQ---YN-DTSVATKELTK 265 (1115)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~---~s-~~~v~~~~l~~ 265 (1115)
.+..+|++||.|+||||||||+||+|+++|+||+.++++... ......+|.+|..++ .+ .....|..|+.
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 23456888988
Q ss_pred hcCC--CcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC--
Q 001246 266 SFGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC-- 341 (1115)
Q Consensus 266 s~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~-- 341 (1115)
.+++ +.|..+.||||+||++.|||.|+. .|.++|+|++.+.++|.+|++.+.+.|+|++|+|+|++.
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 001246 342 -----------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMR---- 399 (1115)
Q Consensus 342 -----------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~---- 399 (1115)
.+|++||+.|+++|.++|+|+|.|++|+ +++|.|+..|.++|+||+|||+||.++...
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 001246 400 DAMVKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1115)
Q Consensus 400 ~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1115)
+...|+++.|.||..||+ .++... .....|+|+|||+|.| +.++|||+|||| ||+|||+.|++++
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 001246 479 VKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 479 ~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
++++++...|... ...+||||||.
T Consensus 309 ~~~~~~~~~~~~~-----------------~~~~aYiLfY~ 332 (332)
T cd02671 309 EKDFLEALSPNTS-----------------STSTPYLLFYK 332 (332)
T ss_pred HHHHHhhcCCCCC-----------------CCCceEEEEEC
Confidence 9999776444321 24699999994
No 10
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.5e-54 Score=486.57 Aligned_cols=779 Identities=23% Similarity=0.332 Sum_probs=480.6
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCC
Q 001246 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWD 270 (1115)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~ 270 (1115)
....||+||.|+..|||+|+.+|+|+..|.||+.+|..+ +.++.++.|+++|||.
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 456789999999999999999999999999999998432 2346788999999999
Q ss_pred cccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC------CCH
Q 001246 271 TYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC------RDV 344 (1115)
Q Consensus 271 ~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~------~sL 344 (1115)
+.+.++|||+||++++++|.|+-+.+++..+..|.+++.|+|..++.|..|+.++.+.+.|++|.|+|++. .++
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 001246 345 YASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGK 423 (1115)
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 (1115)
+++|..|+++|.|+|.|+|-|++|+ +++|.|++.|+++|-+|.||||||.||+++..++|+|+++.||..|||+.|...
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 899999999999999999999999999999999999999999999999643200
Q ss_pred C----------------c----------CCC----------------------------------cCCCccccEEEEEEE
Q 001246 424 Y----------------L----------SPD----------------------------------ADRSVRNLYTLHSVL 443 (1115)
Q Consensus 424 ~----------------l----------~~~----------------------------------~~~~~~~~Y~L~gVV 443 (1115)
- + +++ ...+++..|+|++|.
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 013467899999999
Q ss_pred EeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecC
Q 001246 444 VHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESD 523 (1115)
Q Consensus 444 vH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~~ 523 (1115)
+|+|++.+|||+||||+..++.||+|||.+|+.++..++ +..|||... ++ ...+++||||+|+|.+.
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 789999642 22 13457999999999987
Q ss_pred ccccccCCCccchhHHHHHHHHHHHHHHHHHHHHHHhhccceeeeecCChhHHHhccccceecccCCC--CceEEEEecc
Q 001246 524 KDKIICNVDEKDIAEHLRIRLKKEQEEKEDKRRYKAQAHLYTIIKVARDEDLAEQIGRDIYFDLVDHD--KVRSFRVQKQ 601 (1115)
Q Consensus 524 ~~~~l~~~~~~~ip~~l~~~~~~e~~~~~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~fdl~~~~--~~~~~~~~~~ 601 (1115)
+.+-+. +...+.|+|++..+.+-..+++.+..++ -.|+- .+.+.-...+.-- .+|-+-+-. +.....|.++
T Consensus 444 krn~~~-~~~~~~p~hik~~~~k~~~~e~~~~~~~-~r~~s-~~~~~~~~~y~~~----~~~~~p~~k~~~~t~~~is~~ 516 (1203)
T KOG4598|consen 444 KRNARF-ILSNQLPQHIKDSQEKWKRLEREAEDER-LRKLS-LIQVYVTINYPFP----SVVTLPDKKQLDLTKTEISRE 516 (1203)
T ss_pred ccccce-eecccchHHHHHHHHHHHHHHHHHHHhh-hceee-EEEEEeeccCCCc----eEEECCchhhccceeeeeecc
Confidence 665443 3467899999987654333222221111 22322 1222222211000 011111100 1233456667
Q ss_pred ccHHHHHH----HHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeeeecCCCC
Q 001246 602 TSFMAFKE----EIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEFGPDL 677 (1115)
Q Consensus 602 ~~~~~~~~----~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~~~~~~~ 677 (1115)
+++.-+.. .+..+-..|..++|+..+.... +++.- .+. +..++.+.+.+- ...-.+.+.||+.-...+
T Consensus 517 ~~i~~v~~~a~e~~n~~~~~p~s~~~~~~~~~~~-~s~~~--~~~-s~~d~~~~~~~~----~~~y~~~f~l~~r~~~~~ 588 (1203)
T KOG4598|consen 517 MPIKNVFNHAFEFFNERANLPFTKNSARLIYVEH-GSLMM--DFK-SKADMNVNHGEP----GSMYGVHFILDVRIASSF 588 (1203)
T ss_pred ccHHHHHHHHHHHhhhhhcCCcccceeEEEeecc-cHHHH--hhh-hccCcccccCCc----ccccceeEEEEEeecccc
Confidence 77665543 3334444567777665543211 11110 000 111233333321 111246778888644333
Q ss_pred CCCCCCCCCCCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCC-------------------------
Q 001246 678 HPIAPPDKSKDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFD------------------------- 732 (1115)
Q Consensus 678 ~~~~~~~~~~~~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p------------------------- 732 (1115)
-|+ +.+..|.+++--.|..+....+---+|+....+ .+.-.|+.+.-+.
T Consensus 589 f~v----~~~n~it~~v~~vd~~~~~~~~~~~v~~~a~e~--~~~~vl~~~i~l~~~~s~~~f~~~~v~~~~~~~~~~y~ 662 (1203)
T KOG4598|consen 589 FPV----DIKNKITIKVQRVDIGKKTTANELIVVVDANEK--MIKVVLNARVVLEVASSRCEFMMIDVSHNATEFIQQYV 662 (1203)
T ss_pred ccc----cCCCCcEEEEEEEeccccccCCceEEEEccchH--HHHHHHhhhheeeeecccceeEEEeecccchHHHHhhC
Confidence 222 233457776666676666655544455544433 3333444332221
Q ss_pred -CCCcEEE----------------------------EEEeec-------------------------------------C
Q 001246 733 -PDEEIEL----------------------------YEEIKF-------------------------------------E 746 (1115)
Q Consensus 733 -~dt~l~l----------------------------yEEik~-------------------------------------~ 746 (1115)
--|+-.+ ||-+.+ .
T Consensus 663 ~h~tp~~~~~l~~m~~~~~~~~t~~~~~~p~~~~~~~~~l~~~t~~~v~~~s~~~i~~aa~~~~~~~g~~~~~~d~~w~~ 742 (1203)
T KOG4598|consen 663 GHTTPTLYYDLNTMVTKESQEATLADRKLPFDKSVMYHILDFSTMVKVRLPSQEEIEKAASTKNAYQGAIMKEEDRLWNE 742 (1203)
T ss_pred CCCCHHHHHHHHHHHhhhhhhhhhhhhcCCCcchheeeecCCceeEEEecCCcchHHHHHhhcCcccccccccccccccc
Confidence 0011100 111110 0
Q ss_pred ccceeccCCccCc---c----ccccCCCCCEEEEEeCCC-------------------CCCcccCCCCC----HHHHHH-
Q 001246 747 PCVMCEHLDKRTS---F----RLSQIEDGDIICFQKSPP-------------------LESEQECRYPD----VPSFLE- 795 (1115)
Q Consensus 747 p~~~ie~i~~~~t---~----~~~el~~GDIl~fQ~~~~-------------------~~~~~~~~y~~----v~~yy~- 795 (1115)
|--.+|+|....+ . ...-|.+||--+...... ++..+...-.| +..||.
T Consensus 743 ~r~~ve~ms~~s~~h~~~~~s~d~~~~~g~rs~~~~d~~a~~g~~~s~~~~t~~sp~~s~~~d~~~s~d~~~~~~~~~~~ 822 (1203)
T KOG4598|consen 743 PRAAVEVMSTVSTDHALVADTDDEPIPSGRRSVSMDDIDADIGISGSLCNNTQMSPCVSEGDDADESLDGKSQLMSDYMQ 822 (1203)
T ss_pred chhhhcccccCCCccccccCCCCCcCCCCCceeeccccccccCCccccccCCccCcccCCCcchhhcchHHHHHHHHHhc
Confidence 0001111111000 0 113344555443332210 00000000011 112221
Q ss_pred -----HHhcceEEEEEe----------------cCC------CCC-------C--cEEEEEcCCCCHHHHHHHHHHHhCC
Q 001246 796 -----YVHNRQIVRFRA----------------LDR------PKE-------D--AFCLELSKQHSYDEVVERVARKIGL 839 (1115)
Q Consensus 796 -----~L~nr~~v~f~~----------------~~~------~~~-------~--~f~l~ls~~~~Y~~la~~va~~l~~ 839 (1115)
+-.+|-....+. ... ++. + -..|-+.++|+-..+-+-|-+.++|
T Consensus 823 ~~s~~~~~~~dp~l~~~~~~~~~Y~t~~e~~~av~~GSs~GH~s~~~~~l~~~tr~~kl~Vd~rmr~~AFKkHiE~~i~V 902 (1203)
T KOG4598|consen 823 KTSPDFYYNRDPHLNKNLKIALGYETPSESLSAVSSGSSTGHPSTSNQALSSMTRFHKLDVDSRMRVLAFKKHVEEQLEV 902 (1203)
T ss_pred CCCcchhhccCcccCcchhhhhhccccccccccccCCCCCCCcCchhhhhhccchheeeeccceeeHHHHHHHHHHHhCc
Confidence 112221110000 000 000 1 2688899999999999999999998
Q ss_pred CCCCceEEecccccCCCCCCCCccccCcchHHHhhhccCCccceEEEEEeccChhhhccCceEEEEEEcCCCCeEE----
Q 001246 840 DDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVHYNQTSDILYYEVLDIPLPELQGLKNLKVAFHHATKDEVV---- 915 (1115)
Q Consensus 840 ~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~YEvL~i~l~elE~~k~~kv~w~~~~~~~~~---- 915 (1115)
+..|..++++ +.+.+.. .+.+.+.+|.-++.. ..|- =.|.-||.-=| +.+||+++..-.++.+
T Consensus 903 -~~~HFKi~R~--~~~N~~~--~S~~~NetLs~~~~~-----~~iT-I~LG~~Lk~dE--~~~KI~~L~~l~NE~e~~k~ 969 (1203)
T KOG4598|consen 903 -DKDHFKIVRH--ASDNGSE--ASFMDNETLSGAFQS-----CFIT-IKLGAPLKSDE--KMMKIILLDILENERENWKP 969 (1203)
T ss_pred -ChhHeEEEEE--ecCCcch--hhhccchhhhhhccc-----ceEE-EEecCcCCCCc--eeeEEEeehhhhccccCCcc
Confidence 4799999984 3333222 223334566666532 1110 01334443222 3468888853322222
Q ss_pred EEEEEcCCCCCHHHHHHHHHhhcc-CCC-----CCccEEEEEEe-ccEEEEecCCcccccccccc-cceeEeeecchhhh
Q 001246 916 IHNIRLPKQSTVGDVINELKTKVE-LSH-----PNAELRLLEVF-YHKIYKIFAPNEKIENINDQ-YWTLRAEEIPEEEK 987 (1115)
Q Consensus 916 ~~~~~v~k~~tv~dll~~l~~~~~-~~~-----~~~~lrl~~i~-~~ki~~~~~~~~~i~~i~~~-~~~~~~e~iP~~e~ 987 (1115)
.++..+.++.||+....+|..++. +.. +-.++|+|--. .+-+.-+++.+....+++.. ...+++-|+- |+.
T Consensus 970 l~e~V~~~~tT~~Q~K~ELi~~L~~i~~~~ltLS~~r~R~~~K~g~~Pg~~~lD~~~~~eD~~~~~~~~~~~qE~~-deV 1048 (1203)
T KOG4598|consen 970 LFELVVSQSTTIGQVKLELLRMLKEVYGEELTLSMVRLRELGKSGVGPGRAVLDPNDTLEDRSYNWCSHLYLQEIT-DEV 1048 (1203)
T ss_pred hhhhhhcCcccHHHHHHHHHHHHHHHhhcccchhHHHHHHHccCCcCCceEecCcchhhhhhhhhhHHHHHHHHHH-hhc
Confidence 346788999999888887765553 111 12356666432 22233345555555555421 1122222333 333
Q ss_pred cCCCCCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhCCCccccc
Q 001246 988 NLGPNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFS 1048 (1115)
Q Consensus 988 ~~~~~~~li~v~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~ 1048 (1115)
...+..--++++-.-.-|+.- -=-||-=++-......++|+.|.+--|||-...+
T Consensus 1049 ~~~k~~~sL~i~vRRW~Ps~~------e~~pFQEV~Ld~~~~~E~Re~LS~ISgIPiD~l~ 1103 (1203)
T KOG4598|consen 1049 MIGKPGESLPIMVRRWRPSTV------EVNPFQEVLLDANAEVEFREALSKISGIPVDRLA 1103 (1203)
T ss_pred ccCCCCccchhhheeccccce------ecCCceeEEecCcchHHHHHHHHHhcCCchhhhh
Confidence 333322334444444444422 2459998888888999999999999999865433
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=1.1e-52 Score=477.58 Aligned_cols=288 Identities=28% Similarity=0.421 Sum_probs=248.7
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCC--CCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCC--Ccc-
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTE--NDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGW--DTY- 272 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~--~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~--~~~- 272 (1115)
||.|+||||||||+||+|+++|+||+++++..... ......++.++|++||..|+.+..+++|.+|...++. +.+
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 1223468999999999999998889999999888752 333
Q ss_pred -----cccccccHHHHHHHHHHHHHHhhcC-CccccccccccceEEeeeEEeecee-eecceeeeeeeeEeeccCC---C
Q 001246 273 -----DSFMQHDVQELNRVLCEKLEDKMKG-TVVEGTIQQLFEGHHMNYIECINVD-YKSTRKESFYDLQLDVKGC---R 342 (1115)
Q Consensus 273 -----~~~~QqDa~Efl~~Lld~Le~~~~~-~~~~~~i~~lF~g~~~~~i~C~~C~-~~s~~~e~f~~L~L~v~~~---~ 342 (1115)
..++||||+||+..||+.|++++++ ....+.|.++|+|++.+.++|.+|+ ..+.+.|+|++|+|+|++. .
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 4569999999999999999999874 2345689999999999999999999 7999999999999999876 6
Q ss_pred CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCccc
Q 001246 343 DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDREN 421 (1115)
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 (1115)
+|+++|+.+++++.. ..|+.|+ ...+.|+..|.++|++|+|||+||.|+...+...|+++.|+||.+|||
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 899999999987654 3577776 567889999999999999999999999887888999999999999999
Q ss_pred CCCcCCCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCC
Q 001246 422 GKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGF 500 (1115)
Q Consensus 422 ~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~ 500 (1115)
.+|+. .+..|+|+|||+|.| ++++|||+||+|...+++||+|||+.|++++.++|++. +||+.
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 001246 501 NNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 501 ~~~~~~~~~~~~AYmLfY~ 519 (1115)
..+||||||+
T Consensus 296 ---------~~~aYiL~Y~ 305 (305)
T cd02657 296 ---------WHIAYILLYK 305 (305)
T ss_pred ---------CceEEEEEEC
Confidence 2589999995
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=1.8e-52 Score=480.70 Aligned_cols=280 Identities=30% Similarity=0.488 Sum_probs=244.2
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCC---CCCCCCCCHHHHHHHHHHHHhcC--CccccchhhhhhcC--C
Q 001246 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT---ENDLPSGSIPLALQSLFYKLQYN--DTSVATKELTKSFG--W 269 (1115)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~---~~~~~~~~l~~~Lq~Lf~~l~~s--~~~v~~~~l~~s~~--~ 269 (1115)
+||.|+||||||||+||+|+++|+||++++..... ....+..++.++|++||..|+.+ ..++.|..++.++. .
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 35678888888763 2
Q ss_pred CcccccccccHHHHHHHHHHHHHHhhcCCc--------cccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC
Q 001246 270 DTYDSFMQHDVQELNRVLCEKLEDKMKGTV--------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC 341 (1115)
Q Consensus 270 ~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~--------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~ 341 (1115)
+.+.++.||||+||+..||+.|++++.... ..++|.++|+|.+.+.++|..|++.+.+.|+|++|+|+++..
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 235799999999999999999999999999999999999865
Q ss_pred ---------------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeec
Q 001246 342 ---------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKI 405 (1115)
Q Consensus 342 ---------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki 405 (1115)
.+|+++|+.|+.+|.+++.| |.|++|+ ++++.++..|.++|++|+|||+||.|+.. +...|+
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 001246 406 NDRYEFPLQLDLDRENGKYLSPD-------ADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1115)
Q Consensus 406 ~~~v~fP~~Ldl~~~~~~~l~~~-------~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1115)
++.|.||.+||| .+|+..+ ........|+|+|||+|+|+.++|||+||+|.. +++||+|||+.|++++
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 223457899999999999998999999999995 5999999999999999
Q ss_pred hHhHH
Q 001246 479 VKRAL 483 (1115)
Q Consensus 479 ~~evl 483 (1115)
+++|+
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=2.6e-52 Score=467.78 Aligned_cols=241 Identities=32% Similarity=0.536 Sum_probs=210.8
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCccccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1115)
||.|+||||||||+||+|+++|+||+++++ ..+.++..+... .+.+..++|
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 001246 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKG----CRDVYASFDKYVE 353 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~----~~sL~e~L~~~~~ 353 (1115)
|||+||+..||+.|+ +.|.++|+|++.+.+.|.+|++.+.+.|+|++|+|+++. ..+|++||+.|+.
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 001246 354 VERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPD---AD 430 (1115)
Q Consensus 354 ~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~---~~ 430 (1115)
+|.++|+|+|.|+.|++ |.|+..|.++|++|+|||+||.|+... ...|+++.|.||.+||| ++|+..+ ..
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 67899999999999999 7887762 23
Q ss_pred CCccccEEEEEEEEeeccCCCceEEEEEecCC---------------------CCCEEEEeCceeeEechHhHH
Q 001246 431 RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTL---------------------SDQWYKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 431 ~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~---------------------~~~W~~fnD~~Vt~v~~~evl 483 (1115)
......|+|+|||+|.|+.++|||+||+|... ++.||+|||+.|++++.++|+
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=1.2e-51 Score=439.60 Aligned_cols=204 Identities=48% Similarity=0.823 Sum_probs=144.2
Q ss_pred ceEEEEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCC-CCccEEEEEEeccEEEEe
Q 001246 882 DILYYEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSH-PNAELRLLEVFYHKIYKI 960 (1115)
Q Consensus 882 ~~l~YEvL~i~l~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~-~~~~lrl~~i~~~ki~~~ 960 (1115)
+.||||+|+|||+|||+||+|||+|++++++++++++++|||+|||+||++++++++++++ ++++||+|++++|||+++
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 4789999999999999999999999999999999999999999999999999999999987 478999999999999999
Q ss_pred cCCcccccccccccceeEeeecchhhhcCC-C--CCeEEEEEEeeccCcccccccccCCccEEEEecCCCCHHHHHHHHH
Q 001246 961 FAPNEKIENINDQYWTLRAEEIPEEEKNLG-P--NDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQ 1037 (1115)
Q Consensus 961 ~~~~~~i~~i~~~~~~~~~e~iP~~e~~~~-~--~~~li~v~hf~k~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~ 1037 (1115)
++++++|.+|++ +..+|+|+||+||.++. + ++++|+|+||+|++++.| |+||+|+|++||+|++||+|||
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 689999999999999766 9999999999999999999999
Q ss_pred HHhCCCccccceeEEEEEecCC---CccccCcc--cccccccccccCCCcceeEeecCCCCCCCC
Q 001246 1038 RKLQVLDEEFSKWKFAFLSLGR---PEYLVDTD--TVFNRFQRRDVYGAWEQYLGLEHSDNAPKR 1097 (1115)
Q Consensus 1038 ~rlgv~~kef~k~Kfai~~~~~---~~~l~~~~--~~~~~~~~~~~~~~~~~~lgldh~~~~~~~ 1097 (1115)
+||||++|||+|||||||..++ |+|++|++ ++++.+...+ ++||||||+||+|||
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 7777765333 459999999999987
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=4.6e-50 Score=455.35 Aligned_cols=276 Identities=29% Similarity=0.477 Sum_probs=242.2
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCCC-CCCCCCCHHHHHHHHHHHHhcC-CccccchhhhhhcC--CCcc
Q 001246 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTE-NDLPSGSIPLALQSLFYKLQYN-DTSVATKELTKSFG--WDTY 272 (1115)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~-~~~~~~~l~~~Lq~Lf~~l~~s-~~~v~~~~l~~s~~--~~~~ 272 (1115)
+||.|+||||||||+||+|+++|+||+++++..... ......++.++|+++|..|..+ ...+.|..+..+++ ++.+
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 2233468999999999998865 55677888777664 4568
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCCc-----------cccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC
Q 001246 273 DSFMQHDVQELNRVLCEKLEDKMKGTV-----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC 341 (1115)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~ 341 (1115)
..+.||||+||+..|++.|++++.... ..+.+.++|+|++.+.+.|.+|+..+.+.++|+.|+|++++.
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 888999999999999999998764322 245789999999999999999999999999999999999999
Q ss_pred CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcc
Q 001246 342 RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRE 420 (1115)
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 (1115)
.+|+++|+.++.+|.++|+++|.|+.|+ ++.+.++..|.++|++|+|||+||.++ ...|+++.|.||.+|||
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 568899999999999999999999986 46799999999999999
Q ss_pred cCCCcCCCcCCCccccEEEEEEEEeecc-CCCceEEEEEecCCCCCEEEEeCceeeEechHhHH
Q 001246 421 NGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 421 ~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl 483 (1115)
.+|+..+ ......|+|+|||+|.|+ .++|||+||+|.. +++||+|||+.|+++++++|+
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 235679999999999996 4999999999985 789999999999999999986
No 16
>KOG1866 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.5e-52 Score=473.53 Aligned_cols=328 Identities=34% Similarity=0.578 Sum_probs=283.0
Q ss_pred ccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCC----HHHHHHHHHHHHhcCC-ccccch
Q 001246 187 SYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGS----IPLALQSLFYKLQYND-TSVATK 261 (1115)
Q Consensus 187 ~~ds~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~----l~~~Lq~Lf~~l~~s~-~~v~~~ 261 (1115)
+-.++..-|+|||+|-|+|||||+++|-|+++|.+|..+..+... .+.+.-+ +++.+|++|.+|..+. .++.|.
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 2222333 8999999999998875 688899
Q ss_pred hhhhhcC-C-CcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeecc
Q 001246 262 ELTKSFG-W-DTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVK 339 (1115)
Q Consensus 262 ~l~~s~~-~-~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~ 339 (1115)
.|.+.|. | ......+||||-||+..|+|.+++.+|.-.....++..|+|.......|..|.+.-+..|+|..|+|.|.
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 001246 340 GCRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLD 418 (1115)
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 (1115)
..+|+++|++|++.|+++|.|.|+|++|. |.+..|++.|++||+||.||||||.||..++..+|-|+.++||.+|||
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 001246 419 RENGKYLSPDA---------------DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTL---SDQWYKFDDERVTKEDVK 480 (1115)
Q Consensus 419 ~~~~~~l~~~~---------------~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~---~~~W~~fnD~~Vt~v~~~ 480 (1115)
.||+.... ...++.+|+|+|||||+|.+++||||+||+... +++||+|||..|++++..
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 56643211 123467999999999999999999999998653 469999999999999999
Q ss_pred hHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecCccc
Q 001246 481 RALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESDKDK 526 (1115)
Q Consensus 481 evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~~~~~ 526 (1115)
+...+||||+... .++.++ .+ +++.|||||||+|.+..+.
T Consensus 400 ~me~~cfGGey~q--~~~~~~---~r-rR~WNAYmlFYer~~d~p~ 439 (944)
T KOG1866|consen 400 EMENECFGGEYMQ--MMKRMS---YR-RRWWNAYMLFYERMDDIPT 439 (944)
T ss_pred hHHHHhhcchhhh--cccccc---hH-HHhhhhHHHHHHHhcCCCc
Confidence 9999999998641 122221 22 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=4e-49 Score=449.52 Aligned_cols=263 Identities=24% Similarity=0.347 Sum_probs=225.7
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcC---------------Ccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYN---------------DTSVA 259 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~---~~~~~~~~~l~~~Lq~Lf~~l~~s---------------~~~v~ 259 (1115)
||.|+||||||||+||+|+++|+||++++.... .....+..++.++|++||..|+.. ..+++
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 112234578999999999999763 23588
Q ss_pred chhhhhhcC--CCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEee
Q 001246 260 TKELTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLD 337 (1115)
Q Consensus 260 ~~~l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~ 337 (1115)
|..|...++ ++.|..+.||||+||++.||+.|+++++.. ....+.++|+|.+.+.++|.+|+..+.+.|+|.+|+|+
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 467888999999999999999999998642 23467899999999999999999999999999999999
Q ss_pred ccCC--------------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCee
Q 001246 338 VKGC--------------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAM 402 (1115)
Q Consensus 338 v~~~--------------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~ 402 (1115)
++.. .+|+++|+.|+.+|.++ +.|+.|+ ++.|.|+..|.++|++|+|||+||.++. ....
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 5688887 6889999999999999999999999963 4457
Q ss_pred eeccceeecCCcccCCcccCCCcCCCcCCCccccEEEEEEEEeecc-CCCceEEEEEecC--CCCCEEEEeCceeeEech
Q 001246 403 VKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPT--LSDQWYKFDDERVTKEDV 479 (1115)
Q Consensus 403 ~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~--~~~~W~~fnD~~Vt~v~~ 479 (1115)
.|++..|.||..+. +..|+|+|||+|.|+ .++|||+||+|.. .+++||+|||+.|++++.
T Consensus 235 ~Ki~~~v~~p~~l~-----------------~~~Y~L~~vI~H~G~~~~~GHY~~~vk~~~~~~~~W~~fnD~~V~~~~~ 297 (311)
T cd02658 235 KKLDVPIDVPEELG-----------------PGKYELIAFISHKGTSVHSGHYVAHIKKEIDGEGKWVLFNDEKVVASQD 297 (311)
T ss_pred EeeccccccCCcCC-----------------CCcEEEEEEEEccCCCCCCcceEEEEeCCCCCCCCEEEecCceeEECCc
Confidence 89999999997661 256999999999995 8999999999986 348999999999999988
Q ss_pred HhHH
Q 001246 480 KRAL 483 (1115)
Q Consensus 480 ~evl 483 (1115)
.+++
T Consensus 298 ~~~~ 301 (311)
T cd02658 298 PPEM 301 (311)
T ss_pred cccc
Confidence 7773
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=4.3e-49 Score=466.73 Aligned_cols=293 Identities=23% Similarity=0.303 Sum_probs=238.6
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC-CCCCCCHHHHHHHHHHHHhcC---Cccccchhhhhhc
Q 001246 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN-DLPSGSIPLALQSLFYKLQYN---DTSVATKELTKSF 267 (1115)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~-~~~~~~l~~~Lq~Lf~~l~~s---~~~v~~~~l~~s~ 267 (1115)
..+|++||.|+||||||||+||+|+++|+||++++....... .....++.++|+.++..|+.. ..+++|.+|++++
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 3689999999888
Q ss_pred CC---CcccccccccHHHHHHHHHHHHHHhhcCC--ccccccccccceEEeeeEEeecee---------------eecce
Q 001246 268 GW---DTYDSFMQHDVQELNRVLCEKLEDKMKGT--VVEGTIQQLFEGHHMNYIECINVD---------------YKSTR 327 (1115)
Q Consensus 268 ~~---~~~~~~~QqDa~Efl~~Lld~Le~~~~~~--~~~~~i~~lF~g~~~~~i~C~~C~---------------~~s~~ 327 (1115)
.. ..+..++||||+||+++|||.|++++++. ...++|.++|+|++++.++|..|. ..+.+
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 35778999999999999999999999863 456889999999999999987654 24667
Q ss_pred eeeeeeeEeeccCCCCHH-----HHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCe
Q 001246 328 KESFYDLQLDVKGCRDVY-----ASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDA 401 (1115)
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 (1115)
.++|++|+|+|++..... .++..+...|.|+ +|.|+.|. .++|.|+..|.++|++|+||||||.++. ..
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 899999999998753211 1111122222222 47777775 5788999999999999999999999863 56
Q ss_pred eeeccceeecCCc-ccCCcccCCCcCCCc-CCCccccEEEEEEEEeeccC-CCceEEEEEecCCCCCEEEEeCceeeEec
Q 001246 402 MVKINDRYEFPLQ-LDLDRENGKYLSPDA-DRSVRNLYTLHSVLVHSGGV-HGGHYYAFIRPTLSDQWYKFDDERVTKED 478 (1115)
Q Consensus 402 ~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~-~~~~~~~Y~L~gVVvH~Gs~-~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~ 478 (1115)
..|+++.|+||.. ||| ++|+.++. ....+..|+|+|||+|.|+. ++|||+||+|...+|+||+|||+.|++++
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 88886433 22456899999999999987 99999999998768999999999999999
Q ss_pred hHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001246 479 VKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 479 ~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
+++|+. ..||||||+
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=4.4e-47 Score=415.79 Aligned_cols=203 Identities=31% Similarity=0.511 Sum_probs=185.9
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCccccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1115)
||+|+||||||||+||+|+++|+||++++... .|
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 001246 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKST-RKESFYDLQLDVKGC-----RDVYASFDKY 351 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~-~~e~f~~L~L~v~~~-----~sL~e~L~~~ 351 (1115)
|||+||++.|++.|+. .+.++|.|++.+.++|..|++.+. +.|+|++|+|+++.. .+|+++|+.|
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 001246 352 VEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADR 431 (1115)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~ 431 (1115)
+.+|.++| |.|++| +..|.++|++|+|||+||.||.. +...|+++.|+||.+|
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 7889999999999987
Q ss_pred CccccEEEEEEEEeeccCCCceEEEEEecC--------------------CCCCEEEEeCceeeEechHhHH
Q 001246 432 SVRNLYTLHSVLVHSGGVHGGHYYAFIRPT--------------------LSDQWYKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 432 ~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~--------------------~~~~W~~fnD~~Vt~v~~~evl 483 (1115)
....|+|+|||+|.|+.++|||+||+|.. ..+.||+|||+.|+++++++|+
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=2.5e-46 Score=400.17 Aligned_cols=220 Identities=31% Similarity=0.541 Sum_probs=195.8
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCccccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1115)
||.|.|||||+|++.|+|+. +|
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 001246 278 HDVQELNRVLCEKLEDKMKGT--------VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCRDVYASFD 349 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~--------~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~sL~e~L~ 349 (1115)
||||||++.||+.|++.++.+ ..++.|.++|+|++.+.+.| |+..+.+.|+|++|+|+|++..+|++||+
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 999999999999999999744 34568999999999976666 78889999999999999999999999999
Q ss_pred hcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCc
Q 001246 350 KYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA 429 (1115)
Q Consensus 350 ~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~ 429 (1115)
.++.+|.+++++.+. ...+.++..|.++|++|+|||+||.|+. +...|++++|+||.+|.
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 999999998855432 2346677789999999999999999975 56899999999998872
Q ss_pred CCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCC
Q 001246 430 DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTK 509 (1115)
Q Consensus 430 ~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~ 509 (1115)
...|+|+|||+|.|++++|||+||+|+..+++||+|||+.|++++.++|+.++|||..
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 2479999999999999999999999987689999999999999999999999999964
Q ss_pred CCcEEEEEEE
Q 001246 510 YSNAYMLVYI 519 (1115)
Q Consensus 510 ~~~AYmLfY~ 519 (1115)
..+||||||+
T Consensus 219 ~~~AYiLfYv 228 (228)
T cd02665 219 NPSAYCLMYI 228 (228)
T ss_pred CCceEEEEEC
Confidence 2589999995
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=4.8e-47 Score=431.60 Aligned_cols=269 Identities=28% Similarity=0.421 Sum_probs=229.2
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCC--------------CC-------CCCCHHHHHHHHHHHHhcC
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN--------------DL-------PSGSIPLALQSLFYKLQYN 254 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~--------------~~-------~~~~l~~~Lq~Lf~~l~~s 254 (1115)
.+||.|+||||||||+||+||++|+||++|+..+.... .. ...+++.+|++||..|+.+
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 38999999999999999999999999999998763211 00 1125889999999999987
Q ss_pred C-ccccchhhhhhcCCCcccccccccHHHHHHHHHHHHHHhhcCCcc-------------ccccccccceEEeeeEEeec
Q 001246 255 D-TSVATKELTKSFGWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV-------------EGTIQQLFEGHHMNYIECIN 320 (1115)
Q Consensus 255 ~-~~v~~~~l~~s~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~-------------~~~i~~lF~g~~~~~i~C~~ 320 (1115)
. .++.|..++..+.+ .||||+||++.||+.|+.+++.... .+.|.++|.|++++.+.|..
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 78899988877654 8999999999999999999986543 45799999999999999999
Q ss_pred ee---eecceeeeeeeeEeeccC----------CCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEE
Q 001246 321 VD---YKSTRKESFYDLQLDVKG----------CRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQ 387 (1115)
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 (1115)
|+ ..+.+.|+|++|+|+|++ ..+|++||+.|++.|. |.++|+||.
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 96 789999999999999984 6899999999998776 789999999
Q ss_pred EEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCcC--------------------------CCccccEEEEE
Q 001246 388 LQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDAD--------------------------RSVRNLYTLHS 441 (1115)
Q Consensus 388 i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~--------------------------~~~~~~Y~L~g 441 (1115)
|||+ +|.......+.+++++||...|. .+++..+.. ......|+|+|
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 56667778888999998888777 444433211 22578899999
Q ss_pred EEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEE
Q 001246 442 VLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 442 VVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
||+|+|+.++|||++|+|+..++.||+|||+.|++++.++++..++|+. .+||||+|+
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 9999999899999999999777899999999999999999998877753 489999995
No 22
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.9e-46 Score=420.57 Aligned_cols=299 Identities=29% Similarity=0.441 Sum_probs=254.9
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCC------CCCCCCCCCHHHHHHHHHHHHhcC-Cccccchh
Q 001246 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT------TENDLPSGSIPLALQSLFYKLQYN-DTSVATKE 262 (1115)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~------~~~~~~~~~l~~~Lq~Lf~~l~~s-~~~v~~~~ 262 (1115)
..++.|.+||.|+||||||||.||||.|++.+|++++.-.. .+...-.+.++.+...|..++... ..++.|..
T Consensus 259 inke~GtcGL~NlGNTCyMNSaLQCL~ht~eLrdyFlsdeye~~iNe~Nplgmhg~vAsayadLik~ly~~~~haf~Ps~ 338 (823)
T COG5560 259 INKEAGTCGLRNLGNTCYMNSALQCLMHTWELRDYFLSDEYEESINEENPLGMHGSVASAYADLIKQLYDGNLHAFTPSG 338 (823)
T ss_pred HHhhccccceecCCcceecchHHHHHhccHHHHHHhhhhhhHhhhcccCccchhhhHHHHHHHHHHHHhCccccccChHH
Confidence 33567999999999999999999999999999999975322 112222357888888888888765 46789999
Q ss_pred hhhhcCC--CcccccccccHHHHHHHHHHHHHHhhcCC--------------------------------cccccccccc
Q 001246 263 LTKSFGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGT--------------------------------VVEGTIQQLF 308 (1115)
Q Consensus 263 l~~s~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~--------------------------------~~~~~i~~lF 308 (1115)
+...+|. ..|.++.|||.|||+.+|||.||+.++.. .+.++|.+||
T Consensus 339 fK~tIG~fn~~fsGy~QQDSqEFiaflLDgLHEdLnRI~~KpytskPdL~~~d~~~vKk~a~ecW~~H~kRNdSiItdLF 418 (823)
T COG5560 339 FKKTIGSFNEEFSGYDQQDSQEFIAFLLDGLHEDLNRIIKKPYTSKPDLSPGDDVVVKKKAKECWWEHLKRNDSIITDLF 418 (823)
T ss_pred HHHHHhhhHHHhcCccchhHHHHHHHHHHHHHHHHHHhhcCcccCCCCCCCcchHHHHHHHHHHHHHHHhcCcccHHHHH
Confidence 9999883 67899999999999999999999988620 0457899999
Q ss_pred ceEEeeeEEeeceeeecceeeeeeeeEeeccCCC---------------C------------------------------
Q 001246 309 EGHHMNYIECINVDYKSTRKESFYDLQLDVKGCR---------------D------------------------------ 343 (1115)
Q Consensus 309 ~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~---------------s------------------------------ 343 (1115)
.|..++...|..|+.+|.+++||.+|+|++|-.. +
T Consensus 419 qgmyKSTL~Cp~C~~vsitfDPfmdlTLPLPvs~vw~htiv~fp~~g~~~pl~iel~~sSt~~~lk~lv~~~~gk~gc~e 498 (823)
T COG5560 419 QGMYKSTLTCPGCGSVSITFDPFMDLTLPLPVSMVWKHTIVVFPESGRRQPLKIELDASSTIRGLKKLVDAEYGKLGCFE 498 (823)
T ss_pred HHHhhceeeccCcCceeeeecchhhccccCchhhcccccEEEECCCCCCCceEEEEeccchHHHHHHHHHHHhccCCccc
Confidence 9999999999999999999999999999886110 0
Q ss_pred --------------------------------------------------------------------------------
Q 001246 344 -------------------------------------------------------------------------------- 343 (1115)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1115)
T Consensus 499 i~v~~iy~g~~y~~l~~~dk~ll~~I~~~d~vylYe~~~ngi~vpvvh~~~~~gYks~rlFg~pflqlnv~~~~~i~~kL 578 (823)
T COG5560 499 IKVMCIYYGGNYNMLEPADKVLLQDIPQTDFVYLYETNDNGIEVPVVHLRIEKGYKSKRLFGDPFLQLNVLIKASIYDKL 578 (823)
T ss_pred eeEEEEEeccchhhcchhhHHHHhhcCccceEEEeecCCCCeEEEEEeccccccccchhhhCCcceEEEeecchhhHHHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 001246 344 -------------------------------------------------------------------------------- 343 (1115)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1115)
T Consensus 579 vkE~~ell~~v~~k~tdvd~~~~q~~l~r~es~p~~wl~l~teid~kree~veeE~~~n~nd~vvi~cew~ek~y~~lFs 658 (823)
T COG5560 579 VKEFEELLVLVEMKKTDVDLVSEQVRLLREESSPSSWLKLETEIDTKREEQVEEEGQMNFNDAVVISCEWEEKRYLSLFS 658 (823)
T ss_pred HHHHHHHHHHHhhcchhhhhhhhhccchhcccCcchhhhhhhhccchhhhhhhhhhccCCCcceEEeeeccccchhhhhc
Confidence
Q ss_pred ------------------HHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeee
Q 001246 344 ------------------VYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVK 404 (1115)
Q Consensus 344 ------------------L~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~K 404 (1115)
|++||..|.++|.|.-...|+|+.|+ .+.|+|++.++++|.+|+||||||+++ .....|
T Consensus 659 y~~lw~~~ei~~~~rtiTL~dCl~eFskpEqLgl~DswyCpgCkefrqasKqmelwrlP~iLiihLkRFss~--rsfrdK 736 (823)
T COG5560 659 YDPLWTIREIGAAERTITLQDCLNEFSKPEQLGLSDSWYCPGCKEFRQASKQMELWRLPMILIIHLKRFSSV--RSFRDK 736 (823)
T ss_pred CCccchhHHhhhccCCCcHHHHHHHhccHhhcCCcccccCCchHhhhhhhhhhhhhcCChheeeehhhhhhc--ccchhh
Confidence 89999999999999999999999997 789999999999999999999999974 556789
Q ss_pred ccceeecCCc-ccCCcccCCCcCCCcCCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHH
Q 001246 405 INDRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 405 i~~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl 483 (1115)
|.+-|+||.. |||+.+...+. +....|+|+||=.|.|...+|||+||+|+..+++||+|||++|+++.+++.+
T Consensus 737 iddlVeyPiddldLs~~~~~~~------~p~liydlyavDNHygglsgGHYtAyarn~~n~~wy~fdDsritevdped~v 810 (823)
T COG5560 737 IDDLVEYPIDDLDLSGVEYMVD------DPRLIYDLYAVDNHYGGLSGGHYTAYARNFANNGWYLFDDSRITEVDPEDSV 810 (823)
T ss_pred hhhhhccccccccccceEEeec------CcceEEEeeeccccccccCCcceeeeeecccCCceEEecCccccccCccccc
Confidence 9999999987 99954444331 1237899999999999999999999999998999999999999999887753
Q ss_pred HhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001246 484 EEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1115)
Q Consensus 484 ~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~ 522 (1115)
.++||+|||+|++
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=8.5e-45 Score=379.97 Aligned_cols=284 Identities=24% Similarity=0.395 Sum_probs=223.4
Q ss_pred cccccccCCcccchhhHHHHHhcchhHHHHHc------cCCCCCCCCCCCCHH-HHHHHHHHHHh-cCCccccchhhhhh
Q 001246 195 GYVGLKNQGATCYMNSLLQTLYHIPYFRKAVY------HMPTTENDLPSGSIP-LALQSLFYKLQ-YNDTSVATKELTKS 266 (1115)
Q Consensus 195 g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~------~~~~~~~~~~~~~l~-~~Lq~Lf~~l~-~s~~~v~~~~l~~s 266 (1115)
..+||.|.|||||||++||||+.+..+...+. .+.+........+++ ..+.-|...|. .+..+|+|..+.+.
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 35899999999999999999999999987432 344432222223222 22333332222 24567999999988
Q ss_pred cC--CCcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------------cccccccccc
Q 001246 267 FG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------------VEGTIQQLFE 309 (1115)
Q Consensus 267 ~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------------~~~~i~~lF~ 309 (1115)
++ .+.|...+|||+|||+.++||.|++++++.. ..+.+.+.|.
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 3567888999999999999999999986533 2356888999
Q ss_pred eEEeeeEEeeceeeecceeeeeeeeEeeccCCC--CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeE
Q 001246 310 GHHMNYIECINVDYKSTRKESFYDLQLDVKGCR--DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVL 386 (1115)
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 (1115)
|+..+...|..|++.|++..+|..|.+++.... .|+|||+.|.++|.|+|+..|.|++|+ ++.++|++.|.++|++|
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 999999999999999999999999999997654 599999999999999999999999998 67899999999999999
Q ss_pred EEEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCc-------------CCCccccEEEEEEEEeeccCCCce
Q 001246 387 QLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA-------------DRSVRNLYTLHSVLVHSGGVHGGH 453 (1115)
Q Consensus 387 ~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~-------------~~~~~~~Y~L~gVVvH~Gs~~~GH 453 (1115)
+|||+||.. .|..|..||+ .++..... ..-.+.+|.|+|||||.|+.++||
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 2334444454 22222111 122467899999999999999999
Q ss_pred EEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001246 454 YYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1115)
Q Consensus 454 Y~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~ 521 (1115)
|+++|+. ++.|+.|||+.|++++...-+ ...+||+|||.|.
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=3.2e-43 Score=383.28 Aligned_cols=211 Identities=34% Similarity=0.563 Sum_probs=192.9
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCccccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1115)
||.|.|||||+||+||+|++ .|
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 001246 278 HDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGCR------DVYASFDKY 351 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~------sL~e~L~~~ 351 (1115)
|||+||++.||+.|+ +.+.++|+|.+.+.++|..|++.+.+.|+|+.|+|+++... +|+++|+.+
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 001246 352 VEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPL-QLDLDRENGKYLSPDA 429 (1115)
Q Consensus 352 ~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~-~Ldl~~~~~~~l~~~~ 429 (1115)
+.+|.++|.+++.|++|+ ++.+.++..|.++|++|+|||+||.++. +...|+++.|+||. .+|+ .+|+.. .
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 6789999999999999999999999875 66889999999996 5899 677532 2
Q ss_pred CCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhH
Q 001246 430 DRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRA 482 (1115)
Q Consensus 430 ~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~ev 482 (1115)
.......|+|+|||+|.|+.++|||+||+|...+++|++|||+.|++++.+++
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 23457889999999999977999999999997669999999999999998887
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=4.3e-40 Score=364.47 Aligned_cols=245 Identities=33% Similarity=0.584 Sum_probs=201.9
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccC------CCCCCCCCCCCHHHHHHHHHHHHhcC---Cccccchhhhhh
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHM------PTTENDLPSGSIPLALQSLFYKLQYN---DTSVATKELTKS 266 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~------~~~~~~~~~~~l~~~Lq~Lf~~l~~s---~~~v~~~~l~~s 266 (1115)
++||.|.||||||||+||+|+++|+||+++.+. ..........++..+|+++|..|+.+ ...+.+..+...
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 22222333457999999999999986 567889998888
Q ss_pred cCC--CcccccccccHHHHHHHHHHHHHHhhcCCc-----------cccccccccceEEeeeEEeeceeeecceeeeeee
Q 001246 267 FGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYD 333 (1115)
Q Consensus 267 ~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~ 333 (1115)
++. ..+..+.||||+||+..|++.|++++.... ..+.+.++|.+++.+.+.|..|+..
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 447789999999999999999999987632 4567889999999999999999765
Q ss_pred eEeeccCCCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecC-
Q 001246 334 LQLDVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFP- 412 (1115)
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 (1115)
...|.++|++|+|+|+||.|+..++...|+.+.+.||
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 001246 413 LQLDLDRENGKYLSPDAD-RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEE 491 (1115)
Q Consensus 413 ~~Ldl~~~~~~~l~~~~~-~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~ 491 (1115)
.+||| .+++..+.. ......|+|+|||+|.|+.++|||+||||...+++|++|||+.|+++++++|+..+
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 777765432 12467999999999999989999999999976667999999999999999986432
Q ss_pred CCCCCCCCCCCCCcccCCCCcEEEEEE
Q 001246 492 ELPPTNPGFNNTPFKFTKYSNAYMLVY 518 (1115)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~AYmLfY 518 (1115)
..+||||||
T Consensus 261 ------------------~~~~yll~Y 269 (269)
T PF00443_consen 261 ------------------NSTAYLLFY 269 (269)
T ss_dssp ------------------STCEEEEEE
T ss_pred ------------------CCceEEEeC
Confidence 258999999
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=8.8e-40 Score=356.62 Aligned_cols=230 Identities=21% Similarity=0.310 Sum_probs=185.8
Q ss_pred cccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCcccccccc
Q 001246 199 LKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQH 278 (1115)
Q Consensus 199 L~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Qq 278 (1115)
|.|.||.||+||.+|+|..+... .+.|..+.||
T Consensus 2 ~~~~~~~~~~~~~~~~~~~i~~~-----------------------------------------------~~~F~~~~QQ 34 (245)
T cd02673 2 LVNTGNSCYFNSTMQALSSIGKI-----------------------------------------------NTEFDNDDQQ 34 (245)
T ss_pred ceecCCeeeehhHHHHHHHHhhh-----------------------------------------------hhhcCCCchh
Confidence 78999999999999997543211 1356788999
Q ss_pred cHHHHHHHHHHHHHHhhcCCc----------cccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC--CCHHH
Q 001246 279 DVQELNRVLCEKLEDKMKGTV----------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC--RDVYA 346 (1115)
Q Consensus 279 Da~Efl~~Lld~Le~~~~~~~----------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~--~sL~e 346 (1115)
||||||+.|||.|+++++... ......++|+|++.+.++|.+|++++.+.|+|++|+|+++.. ..+++
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 001246 347 SFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLS 426 (1115)
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 (1115)
+++.+...+.++ |.|+.|+.+.|.|+..|.++|+||+||||||.++.......|++ .+++ .+|..
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 888888777665 89999998889999999999999999999998754322222222 3456 56653
Q ss_pred CCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCC-CCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCC
Q 001246 427 PDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL-SDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTP 504 (1115)
Q Consensus 427 ~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~-~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~ 504 (1115)
....|+|+|||+|.| +.++|||+||+|... +++||+|||+.|++++.++|++.
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 346799999999999 589999999999875 68999999999999999999732
Q ss_pred cccCCCCcEEEEEEE
Q 001246 505 FKFTKYSNAYMLVYI 519 (1115)
Q Consensus 505 ~~~~~~~~AYmLfY~ 519 (1115)
..++||||||+
T Consensus 235 ----~~~~aYiLFY~ 245 (245)
T cd02673 235 ----ARSSGYLIFYD 245 (245)
T ss_pred ----cCCceEEEEEC
Confidence 12589999995
No 27
>KOG1868 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.8e-41 Score=398.05 Aligned_cols=303 Identities=27% Similarity=0.461 Sum_probs=246.8
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCC-----CCCCCCCCHHHHHHHHHHHHhcC--Cccccchh
Q 001246 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT-----ENDLPSGSIPLALQSLFYKLQYN--DTSVATKE 262 (1115)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~-----~~~~~~~~l~~~Lq~Lf~~l~~s--~~~v~~~~ 262 (1115)
.....|.+||.|+|||||||++||||+.++.||...+..... ........+..+...++..++.. ..++.|..
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 345667899999999999999999999999999655543110 12223345667777777777764 45688999
Q ss_pred hhhhcC--CCcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------------cccccc
Q 001246 263 LTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------------VEGTIQ 305 (1115)
Q Consensus 263 l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------------~~~~i~ 305 (1115)
+...++ ...+.+..|||+|||+..+++.|++++.... ....|.
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 4566678899999999999999999886421 123478
Q ss_pred cccceEEeeeEEeeceeeecceeeeeeeeEeeccCC------CCHHHHHhhcceeEEecCCCcccccccCceeee---ee
Q 001246 306 QLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC------RDVYASFDKYVEVERLEGDNKYHAEEHGLQDAK---KG 376 (1115)
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 (1115)
++|.|++++.++|..|++.+.+.++|++++|+|+.. .+|++|+..|+..|.++|++.|.|+.|++..+. |+
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 999999999999999999999999999999999742 349999999999999999999999999865544 89
Q ss_pred eEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCc-ccCCcccCCCcCCCcCCCccccEEEEEEEEeeccCCCceEE
Q 001246 377 VLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYY 455 (1115)
Q Consensus 377 ~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ 455 (1115)
..|.+||++|++||+||.+|. +...|....++||.. .++ .++..... .....|+|+|||+|.|+.++|||+
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 44444333 234569999999999999999999
Q ss_pred EEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeecCccc
Q 001246 456 AFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRESDKDK 526 (1115)
Q Consensus 456 ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~~~~~ 526 (1115)
||++....+.|+.|||+.|+.++...+- +..||||||.|.+..++
T Consensus 607 a~~~~~~~~~W~~fdDs~Vs~~~~~~~~--------------------------~s~aYIlFY~~~~~~~~ 651 (653)
T KOG1868|consen 607 AYVYKNEKQRWFTFDDSEVSPISETDVG--------------------------SSSAYILFYERLGIFEE 651 (653)
T ss_pred EEEeecCCCceEEecCeeeecccccccc--------------------------CCCceEEEeecCCcccc
Confidence 9999877789999999999977655441 35899999999876544
No 28
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.9e-39 Score=369.00 Aligned_cols=221 Identities=24% Similarity=0.370 Sum_probs=190.2
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcCC-----------cc
Q 001246 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYND-----------TS 257 (1115)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~---~~~~~~~~~l~~~Lq~Lf~~l~~s~-----------~~ 257 (1115)
-.+||+||+|+||+||||||+|+|+.+|.|......... .....+..++-++|.+|...|..++ ..
T Consensus 303 ~gpgytGl~NlGNSCYlnSVmQ~Lf~i~~fq~~~~~~~~~f~~~~~~P~ndf~cQ~~Kl~~gm~sgkys~p~~~~~~qng 382 (763)
T KOG0944|consen 303 FGPGYTGLINLGNSCYLNSVMQSLFSIPSFQRRYLEQERIFNCYPKDPTNDFNCQLAKLLHGMLSGKYSKPLMDPSNQNG 382 (763)
T ss_pred cCCCccceeecCcchhHHHHHHHheecccHHHhhccccceeecCCCCcchhHHHHHHHHHHHhhcCcccCccCCccccCC
Confidence 457899999999999999999999999999877654422 1234567899999999999998742 25
Q ss_pred ccchhhhhhcC--CCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeE
Q 001246 258 VATKELTKSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQ 335 (1115)
Q Consensus 258 v~~~~l~~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~ 335 (1115)
|+|..|...++ .+.|..++||||+||+++||+.|++...... ..+.++|...+...+.|..|...+...++-+.|+
T Consensus 383 IsP~mFK~~igknHpeFst~~QQDA~EFllfLl~ki~~n~rs~~--~nptd~frF~ve~Rv~C~~c~kVrYs~~~~~~i~ 460 (763)
T KOG0944|consen 383 ISPLMFKALIGKNHPEFSTNRQQDAQEFLLFLLEKIRENSRSSL--PNPTDLFRFEVEDRVSCLGCRKVRYSYESEYLIQ 460 (763)
T ss_pred cCHHHHHHHHcCCCccccchhhhhHHHHHHHHHHHHhhcccccC--CCHHHHHHhhhhhhhhhhccccccccchhheeeE
Confidence 77877877775 5689999999999999999999988665432 5788999999999999999999999999999999
Q ss_pred eeccCCC------CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccce
Q 001246 336 LDVKGCR------DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDR 408 (1115)
Q Consensus 336 L~v~~~~------sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~ 408 (1115)
|+|+... ++.+||+.|+.+.+.+ |.|..|| +..|.|+..|++||++|+||.+||.| .....+|+...
T Consensus 461 lpv~~~~~v~~~v~~~~cleaff~pq~~d----f~s~ac~~K~~a~kt~~~ksfP~yLiiqv~rf~~--~dw~pkKld~~ 534 (763)
T KOG0944|consen 461 LPVPMTNEVREKVPISACLEAFFEPQVDD----FWSTACGEKKGATKTTRFKSFPDYLIIQVGRFTL--QDWVPKKLDVS 534 (763)
T ss_pred eeccccccccccCCHHHHHHHhcCCcchh----hhhHhhcCccccccccccccCCceEEEEeeEEEe--cCceeeeeccc
Confidence 9998633 8999999999994444 8898887 88999999999999999999999999 57889999999
Q ss_pred eecCCcccCCcc
Q 001246 409 YEFPLQLDLDRE 420 (1115)
Q Consensus 409 v~fP~~Ldl~~~ 420 (1115)
++.|++||++.|
T Consensus 535 iempe~ldls~~ 546 (763)
T KOG0944|consen 535 IEMPEELDLSSY 546 (763)
T ss_pred eecchhhchhhh
Confidence 999999999643
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=3.1e-37 Score=337.10 Aligned_cols=235 Identities=35% Similarity=0.590 Sum_probs=201.1
Q ss_pred ccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCccccccc
Q 001246 198 GLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFMQ 277 (1115)
Q Consensus 198 GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~Q 277 (1115)
||.|.|||||+||+||+|++ .|
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 001246 278 HDVQELNRVLCEKLEDKMKG--------TVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKG----CRDVY 345 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~--------~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~----~~sL~ 345 (1115)
|||+||+..+++.|+.++.. ....+.+.++|.|.+.+.+.|..|+..+.....+..++|+++. ..+|+
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 001246 346 ASFDKYVEVERLEGDNKYHAEEHG---LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENG 422 (1115)
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 (1115)
++|+.++..|.+++. .|..|+ .+.+.++..|.++|++|+|+|+||.++.. ....|++..+.||.++++ .
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 999999999999874 455554 77899999999999999999999998643 567899999999999999 5
Q ss_pred CCcCC----CcCCCccccEEEEEEEEeeccC-CCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCC
Q 001246 423 KYLSP----DADRSVRNLYTLHSVLVHSGGV-HGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTN 497 (1115)
Q Consensus 423 ~~l~~----~~~~~~~~~Y~L~gVVvH~Gs~-~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~ 497 (1115)
.++.. .........|+|+|||+|.|+. ++|||+||+|...+++||+|||+.|++++.++++.. +
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 001246 498 PGFNNTPFKFTKYSNAYMLVYI 519 (1115)
Q Consensus 498 ~~~~~~~~~~~~~~~AYmLfY~ 519 (1115)
....+||||||+
T Consensus 244 ----------~~~~~~yll~Y~ 255 (255)
T cd02257 244 ----------SLSSSAYILFYE 255 (255)
T ss_pred ----------CCCCceEEEEEC
Confidence 123589999995
No 30
>KOG1867 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.1e-37 Score=365.97 Aligned_cols=298 Identities=31% Similarity=0.482 Sum_probs=253.7
Q ss_pred CcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCC-CCCCC-CCCHHHHHHHHHHHHhcCC--ccccchhhhhhc
Q 001246 192 KETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT-ENDLP-SGSIPLALQSLFYKLQYND--TSVATKELTKSF 267 (1115)
Q Consensus 192 ~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~-~~~~~-~~~l~~~Lq~Lf~~l~~s~--~~v~~~~l~~s~ 267 (1115)
-..++.||.|+|+||+||++||+|.+.+..+...+..... +...+ ..++.+++.++|..++... .+++|..+....
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 4567899999999999999999999888887766543322 23333 5789999999999999854 677887776654
Q ss_pred C--CCcccccccccHHHHHHHHHHHHHHhhc--------CC---ccccccccccceEEeeeEEeeceeeecceeeeeeee
Q 001246 268 G--WDTYDSFMQHDVQELNRVLCEKLEDKMK--------GT---VVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDL 334 (1115)
Q Consensus 268 ~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~--------~~---~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L 334 (1115)
- -+.+.++.|||++||+..+++.++...+ .. ...+++...|.|.+.+.+.|..|+..|...++|++|
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 1 2456779999999999999999998871 11 136789999999999999999999999999999999
Q ss_pred EeeccCC----------CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeee
Q 001246 335 QLDVKGC----------RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMV 403 (1115)
Q Consensus 335 ~L~v~~~----------~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~ 403 (1115)
+|+++.. .++.+++..+...|.+....++.|..|+ ++.+.|+..+.++|.+|.+||+||++.......
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 5699999999999998889999999998 789999999999999999999999997655444
Q ss_pred eccceeecCCcccCCcccCCCcCCCcC---CCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechH
Q 001246 404 KINDRYEFPLQLDLDRENGKYLSPDAD---RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVK 480 (1115)
Q Consensus 404 Ki~~~v~fP~~Ldl~~~~~~~l~~~~~---~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~ 480 (1115)
|+++.+.||..|+| .+|+..+.. +..+..|+|.|||+|+|+.++|||+||.|. .+.||+|||+.|+.++.+
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 888775322 235689999999999999999999999999 699999999999999999
Q ss_pred hHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001246 481 RALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1115)
Q Consensus 481 evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~ 522 (1115)
+|+. +.||+|||.+..
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=8.6e-36 Score=329.54 Aligned_cols=236 Identities=20% Similarity=0.266 Sum_probs=193.5
Q ss_pred cccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhh
Q 001246 186 WSYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTK 265 (1115)
Q Consensus 186 ~~~ds~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~ 265 (1115)
+.++..+.|+++||.|.|.|||+||+||+|+++|+||+++.+.. .......|++++|+.||..
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 45677788999999999999999999999999999999855444 3355568999999999911
Q ss_pred hcCCCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC----
Q 001246 266 SFGWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC---- 341 (1115)
Q Consensus 266 s~~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~---- 341 (1115)
=+|-|.+.|++.+..+..++. ..|++.+.+.++|++|+|+++..
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 135588899999876543321 57899999999999999999853
Q ss_pred -CCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCC----eEEEEEeeEEeeccc-----Ceeeeccceee
Q 001246 342 -RDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPP----VLQLQLKRFEYDFMR-----DAMVKINDRYE 410 (1115)
Q Consensus 342 -~sL~e~L~~~~~~E~l~g~n~y~C~~c~-~~~a~k~~~i~~lP~----vL~i~LkRF~~d~~~-----~~~~Ki~~~v~ 410 (1115)
.+|.+||+.+++.|.. +++.|+.|+ ++.|.|+..|.++|+ ||+||||||.++... ....|++..+.
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 5899999999998854 568999997 689999999999999 999999999865422 23578889999
Q ss_pred cCCcccCCcccCCCcCCCcCCCccccEEEEEEEEeecc-CCCceEEEEEecCC----CCCEEEEeCceeeEech
Q 001246 411 FPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGG-VHGGHYYAFIRPTL----SDQWYKFDDERVTKEDV 479 (1115)
Q Consensus 411 fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs-~~~GHY~ayvr~~~----~~~W~~fnD~~Vt~v~~ 479 (1115)
||..+++ ..+.... .....+|+|+|||+|.|+ .++|||+||||... +++||.|||..|++++.
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 57899999999999864
No 32
>KOG1873 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.1e-36 Score=346.94 Aligned_cols=147 Identities=37% Similarity=0.565 Sum_probs=124.3
Q ss_pred HHHHHhhcceeEEecCCCcccccccCc------e----------------------eeeeeeEeecCCCeEEEEEeeEEe
Q 001246 344 VYASFDKYVEVERLEGDNKYHAEEHGL------Q----------------------DAKKGVLFIDFPPVLQLQLKRFEY 395 (1115)
Q Consensus 344 L~e~L~~~~~~E~l~g~n~y~C~~c~~------~----------------------~a~k~~~i~~lP~vL~i~LkRF~~ 395 (1115)
++.||.+|+..|.|.|+|+|.|++|.+ . -|+|.+.|..+||||+||||||.-
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 899999999999999999999999854 1 146778899999999999999986
Q ss_pred ecccCeeeeccceeecCCcccCCcccCCCcCCC---cCCCccccEEEEEEEEeeccCCCceEEEEEecC-----------
Q 001246 396 DFMRDAMVKINDRYEFPLQLDLDRENGKYLSPD---ADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPT----------- 461 (1115)
Q Consensus 396 d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~---~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~----------- 461 (1115)
+. .+...|.++.+.|++.+|| .+|+.-. .+......|+|+|||.|+|++..|||+||+|..
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 5554321 122256799999999999999999999999932
Q ss_pred ---------CCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEee
Q 001246 462 ---------LSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRE 521 (1115)
Q Consensus 462 ---------~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~ 521 (1115)
..|+||...|..|.++++++|+. ..||||||+|.
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=8.1e-34 Score=313.31 Aligned_cols=217 Identities=21% Similarity=0.321 Sum_probs=180.0
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCC---CCCCCCCCCHHHHHHHHHHHHhcCC-----ccccchhhhhhc
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPT---TENDLPSGSIPLALQSLFYKLQYND-----TSVATKELTKSF 267 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~---~~~~~~~~~l~~~Lq~Lf~~l~~s~-----~~v~~~~l~~s~ 267 (1115)
++||.|+||+||+||++|+|+....+...+..... ..-..|..++.|+|.+|...|.... ..++|..|...+
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 1234566789999999999887643 357888888888
Q ss_pred C--CCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecceeeeeeeeEeeccCC---C
Q 001246 268 G--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVKGC---R 342 (1115)
Q Consensus 268 ~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~---~ 342 (1115)
| ...|..++||||+||+.+||+.|.+.... .....|.++|...+...+.|..|+..+...++...+++...+. .
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 46789999999999999999999875433 3456788999999999999999999999999999999998765 4
Q ss_pred CHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCc--ccCCc
Q 001246 343 DVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ--LDLDR 419 (1115)
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 (1115)
++.++++.|+.+.+++ |.|+.|+ +..|.++.-|++||++|++|..||.+ +.....|+...+..... +++++
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 6999999999999998 9999996 88999999999999999999999986 45567777777776553 66643
No 34
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=6.1e-32 Score=339.48 Aligned_cols=297 Identities=29% Similarity=0.465 Sum_probs=253.3
Q ss_pred CCCcccccccccCCcccchhhHHHHHhcchhHHHHHccC------CCCCCCCCCCCHHHHHHHHHHHHhcCCc-cccchh
Q 001246 190 SKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHM------PTTENDLPSGSIPLALQSLFYKLQYNDT-SVATKE 262 (1115)
Q Consensus 190 s~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~------~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~-~v~~~~ 262 (1115)
.....|.+||.|+||||||||.+|+|.+++.++++++.. ...........+..+...+..+++.... ++.+..
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 456789999999999999999999999999999888532 2222333446777888889889988765 577776
Q ss_pred hhhhcCC--CcccccccccHHHHHHHHHHHHHHhhcCCc-----------------------------cccccccccceE
Q 001246 263 LTKSFGW--DTYDSFMQHDVQELNRVLCEKLEDKMKGTV-----------------------------VEGTIQQLFEGH 311 (1115)
Q Consensus 263 l~~s~~~--~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~-----------------------------~~~~i~~lF~g~ 311 (1115)
+...++. ..+.++.|||.+||+-+|+|.|++.+.... ..+.|.++|.|.
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 358999999999999999999999875321 235799999999
Q ss_pred EeeeEEeeceeeecceeeeeeeeEeeccCCCC------------------------------------------------
Q 001246 312 HMNYIECINVDYKSTRKESFYDLQLDVKGCRD------------------------------------------------ 343 (1115)
Q Consensus 312 ~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~s------------------------------------------------ 343 (1115)
.++...|..|+..+.++++|..|+|+++....
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 001246 344 -------------------------------------------------------------------------------- 343 (1115)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1115)
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 001246 344 -------------------------------------------------------------------------------- 343 (1115)
Q Consensus 344 -------------------------------------------------------------------------------- 343 (1115)
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 001246 344 ----------------------------------------------------------VYASFDKYVEVERLEGDNKYHA 365 (1115)
Q Consensus 344 ----------------------------------------------------------L~e~L~~~~~~E~l~g~n~y~C 365 (1115)
|++|++.|+.+|.|..+++|.|
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 001246 366 EEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQ-LDLDRENGKYLSPDADRSVRNLYTLHSVL 443 (1115)
Q Consensus 366 ~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~-Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVV 443 (1115)
+.|+ ++.|.|+..++++|++|+||||||+|. +....|+.+.++||.. ||+ ++|+..... ..|+|+||.
T Consensus 720 ~~Cke~~~A~Kk~~lwrlPeiLiihLKrF~~~--r~~~~k~~~~v~fPi~~ld~----s~~~~~~~~----~~Y~l~av~ 789 (842)
T KOG1870|consen 720 PQCKELRQATKKLDLWRLPEILIIHLKRFQYS--RESSSKVKTKVEFPLGSLDL----SEFVVNKEQ----VLYDLYAVG 789 (842)
T ss_pred hHHHHHHHHhhhhhhhhCCceEEEEeecceee--chhhhhhCccccCCCcCCCc----chhhccCcc----ceeeeeeee
Confidence 9997 789999999999999999999999995 4556999999999998 999 788765432 899999999
Q ss_pred EeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEeec
Q 001246 444 VHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIRES 522 (1115)
Q Consensus 444 vH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R~~ 522 (1115)
+|+|.+.+|||+||.|...+++||.|||+.|++++++++. ...||+|||+|++
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 9999999999999999987999999999999999887773 2489999999974
No 35
>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=9.7e-31 Score=282.50 Aligned_cols=184 Identities=22% Similarity=0.370 Sum_probs=145.2
Q ss_pred ccccCCc-ccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcCCCcccccc
Q 001246 198 GLKNQGA-TCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFGWDTYDSFM 276 (1115)
Q Consensus 198 GL~N~Gn-TCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~~~~~~~~~ 276 (1115)
|..|.+| +|||-|+|=+||. .
T Consensus 1 g~~~~~~~~cy~d~~~~~~f~----------------------------------------------------------~ 22 (241)
T cd02670 1 GAQNHCNVSCYLDALLFAMFA----------------------------------------------------------E 22 (241)
T ss_pred CCccccCceeehHHHHHHHHH----------------------------------------------------------H
Confidence 7899999 9999999999987 6
Q ss_pred cccHHHHHHHHHHHHHHhhcCCccccccccccce-EEeeeEEeeceeeecceeeeeeeeEeecc---CCCCHHHHHhhcc
Q 001246 277 QHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEG-HHMNYIECINVDYKSTRKESFYDLQLDVK---GCRDVYASFDKYV 352 (1115)
Q Consensus 277 QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g-~~~~~i~C~~C~~~s~~~e~f~~L~L~v~---~~~sL~e~L~~~~ 352 (1115)
|||+.||+..|++.|+..+-. ..-++|.| +...... +.-.|.++.|.++.. +..+|++||+.|+
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 999999999999999864432 23344444 2222111 233566777777664 3569999999999
Q ss_pred eeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCc---
Q 001246 353 EVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDA--- 429 (1115)
Q Consensus 353 ~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~--- 429 (1115)
+.|. |.++|++|+||||||.|+. +...|+++.|.||..||| .+|+.+..
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 9875 7899999999999999975 667899999999999999 66654431
Q ss_pred -----------------CCCccccEEEEEEEEeec-cCCCceEEEEEecCC-----------CCCEEEEeCceeeEech
Q 001246 430 -----------------DRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL-----------SDQWYKFDDERVTKEDV 479 (1115)
Q Consensus 430 -----------------~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~-----------~~~W~~fnD~~Vt~v~~ 479 (1115)
.......|+|+|||+|+| +.++|||+||+|... ++.|++|||..|+.+..
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 37999999999887754
No 36
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=99.97 E-value=4e-30 Score=290.74 Aligned_cols=266 Identities=25% Similarity=0.341 Sum_probs=227.3
Q ss_pred cccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHh-cC-CccccchhhhhhcCCC--cc
Q 001246 197 VGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQ-YN-DTSVATKELTKSFGWD--TY 272 (1115)
Q Consensus 197 ~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~-~s-~~~v~~~~l~~s~~~~--~~ 272 (1115)
+||.|.+++||+||+||+||++|++|+.+++.. ++....|++++|.-||.+|. .+ ...+.+..+.++|++. ..
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 25567899999999999999 65 4567888999999865 34
Q ss_pred cccccccHHHHHHHHHHHHHHhhcCCcc-------------ccccccccceEEeeeEEeeceeeecceeeeeeeeEeecc
Q 001246 273 DSFMQHDVQELNRVLCEKLEDKMKGTVV-------------EGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDVK 339 (1115)
Q Consensus 273 ~~~~QqDa~Efl~~Lld~Le~~~~~~~~-------------~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v~ 339 (1115)
..+.|+|+++|+++|++.|+.++..... ...|.++|+......++|..|+.++.+.+....+.|..+
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 4566999999999999999998865443 567899999999999999999999999999988888886
Q ss_pred C---CCCHHHHHhhcceeEEecCCCcccccccC-ceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcc
Q 001246 340 G---CRDVYASFDKYVEVERLEGDNKYHAEEHG-LQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQL 415 (1115)
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 (1115)
. ..++.+.|+.++..|...+ ..|+.|+ .+.+..+..|.++|+||.|.++|...+ .....|....+.+|..+
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 33488999999999999
Q ss_pred cCCcccCCCcCCCc-----CCCccccEEEEEEEEeec-cCCCceEEEEEecCC--CCCEEEEeCcee
Q 001246 416 DLDRENGKYLSPDA-----DRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTL--SDQWYKFDDERV 474 (1115)
Q Consensus 416 dl~~~~~~~l~~~~-----~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~--~~~W~~fnD~~V 474 (1115)
++ ..++..+. ......+|+|.|+|+|.| +.++|||+|+||... +++||.|||-.|
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 37
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=9.5e-31 Score=311.84 Aligned_cols=285 Identities=27% Similarity=0.430 Sum_probs=227.6
Q ss_pred CcccccccccCCcccchh--hHHHHHhcchhHHHHHccCCCCCCCC--CCCCHHHHHHHHHHHHhcC---Cccccchhhh
Q 001246 192 KETGYVGLKNQGATCYMN--SLLQTLYHIPYFRKAVYHMPTTENDL--PSGSIPLALQSLFYKLQYN---DTSVATKELT 264 (1115)
Q Consensus 192 ~~~g~~GL~N~GnTCY~N--SvLQ~L~~~~~fr~~l~~~~~~~~~~--~~~~l~~~Lq~Lf~~l~~s---~~~v~~~~l~ 264 (1115)
....+-|..|.+++|+.| ++.|.++.+..+|...+...+..... ....+...+..+|...... ...+.|..+.
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~i~p~~~~ 307 (587)
T KOG1864|consen 228 ANERVFGTNNFSNTCCCNFQSVEEALYFCRPFREAVLLYLTSLKRSYIIKEELLTCLLDLFSSISSRKKLVGRISPTRFI 307 (587)
T ss_pred ccccccCccccCccccccchhhHHHHHhhhhhcccccchhhcccchhhhhHHHHHHhhhhccchhhhcccccccCcchhh
Confidence 334568999999999999 99999999999997776544321110 1123333444444433322 2335555555
Q ss_pred hhcC--CCcccccccccHHHHHHHHHHHHHHhhcCCc--------------------------------cccccccccce
Q 001246 265 KSFG--WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV--------------------------------VEGTIQQLFEG 310 (1115)
Q Consensus 265 ~s~~--~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~--------------------------------~~~~i~~lF~g 310 (1115)
.-+. ...|..++||||+||+..+++.+++-..... ....+..+|.|
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 3568889999999999999999876542100 23468899999
Q ss_pred EEeeeEEeeceeeecceeeeeeeeEeecc--CCCCHHHHHhhcceeEEecCCCccccccc-CceeeeeeeEeecCCCeEE
Q 001246 311 HHMNYIECINVDYKSTRKESFYDLQLDVK--GCRDVYASFDKYVEVERLEGDNKYHAEEH-GLQDAKKGVLFIDFPPVLQ 387 (1115)
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 (1115)
++...++|.+|+..+.+.+.|.|+++++. ...++..+++.|..+|.+.|+|+|.|++| +.|+|.+.+.++++|.+|+
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 68899999999999999999999999887 5899999999999999999
Q ss_pred EEEeeEEeecccCeeeeccceeecCCcccCCcccCCCcCCCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCE
Q 001246 388 LQLKRFEYDFMRDAMVKINDRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQW 466 (1115)
Q Consensus 388 i~LkRF~~d~~~~~~~Ki~~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W 466 (1115)
||||||.|+.......|+...+.+|.++.+ ...+.+. ......|.|+|||||.| +.+.|||+||+|.. +-.|
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 999999998877778999999999999988 3333222 22247899999999999 79999999999995 2339
Q ss_pred EEEeCceeeEechHhHH
Q 001246 467 YKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 467 ~~fnD~~Vt~v~~~evl 483 (1115)
+.|||+.|+.++.+.+.
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=2e-26 Score=250.98 Aligned_cols=299 Identities=21% Similarity=0.329 Sum_probs=222.6
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCC--CCCCCHHHHHHHHHHHHhcC--------------C----
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEND--LPSGSIPLALQSLFYKLQYN--------------D---- 255 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~--~~~~~l~~~Lq~Lf~~l~~s--------------~---- 255 (1115)
.+|+.|-||-|||||+||+|..|++|.+.+..++....- ..+..++.++..+......- .
T Consensus 28 Prg~ink~n~c~~ns~Lqal~~c~pfy~l~~~i~~~~~~~~~~stp~lda~~~~~~df~n~~~~k~~r~N~~~~~~~~~~ 107 (420)
T KOG1871|consen 28 PRGSINKCNICFMNSILQALLYCSPFYNLLELIKRADGTVKEGSTPLLDASRPASSDFNNDSDAKLPRKNSLRVPEHVVE 107 (420)
T ss_pred CccccccceeEeeHHHHHHHHhCccHHHHHHhhhhhcCceecccchhHHHHHHHHhhccccchhhhhhhccCCccccccc
Confidence 489999999999999999999999999988766632111 11223444444443333210 0
Q ss_pred -----------ccccchhhhhhc-C---CCcccccccccHHHHHHHHHHHHHHhhcCCc---------------------
Q 001246 256 -----------TSVATKELTKSF-G---WDTYDSFMQHDVQELNRVLCEKLEDKMKGTV--------------------- 299 (1115)
Q Consensus 256 -----------~~v~~~~l~~s~-~---~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~--------------------- 299 (1115)
.++-+..+...+ + ......+.|.||.||+..++|.|++++-...
T Consensus 108 ~ses~~~d~~~dav~~d~~~~~l~t~~~~e~~~~g~qedAeefl~~~ld~lhee~~~v~~~~~~~n~e~t~~~~i~~~n~ 187 (420)
T KOG1871|consen 108 KSESNKSDLQGDAVKPDPIYLDLLTMSRFESLQVGKQEDAEEFLLDNLDFLHEESSEVPTELVPPNDEFTPRGLINNGNL 187 (420)
T ss_pred hhhhhhhcccCccccCCchhhhcccCCchhhccccccccHHHHHHHHHhhhhHHHHhhhhhhcCCccccccccccccccc
Confidence 011111111111 1 1234557899999999999999999873100
Q ss_pred ----------------------------------cccccccccceEEeeeEEeeceeeecceeeeeeeeEeec--cCCCC
Q 001246 300 ----------------------------------VEGTIQQLFEGHHMNYIECINVDYKSTRKESFYDLQLDV--KGCRD 343 (1115)
Q Consensus 300 ----------------------------------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~e~f~~L~L~v--~~~~s 343 (1115)
..++|.++|+|++++...-.. .++|...+||..|+|++ .+..+
T Consensus 188 ~n~~s~~e~~~~~~~~~~~~gk~~k~~i~r~~~~~~spiS~ifgg~~rs~l~~~~-nkeS~tlqPF~tlqldiq~~~i~s 266 (420)
T KOG1871|consen 188 CNLDSTEEAGLSESSGVQLLGKIQKTDIPRADSFVRSPISEIFGGQLRSVLYQPS-NKESATLQPFFTLQLDIQSEKIHS 266 (420)
T ss_pred ccccchhhcccccCchhhhcCCcccCccCCCCCcccCcHHHhhccccccceeccc-cccccccCccceeeeeeeccccCC
Confidence 235789999999998876544 45668899999999999 56779
Q ss_pred HHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcccCCccc-C
Q 001246 344 VYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLDLDREN-G 422 (1115)
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 (1115)
++++|+.+...|.+.+ |.-...+-..|.+++.+.+||++|++||+||.|- .++...|+-+.+++|-.+.++..+ .
T Consensus 267 v~~ales~~~re~lp~---~st~s~~eV~~s~q~~leklp~vlilhlkrF~ye-~tgg~~k~~K~i~~~~~l~i~~~~~s 342 (420)
T KOG1871|consen 267 VQDALESLVARESLPG---YSTKSGQEVEASSQTTLEKLPPVLILHLKRFVYE-KTGGARKLGKKIEYPWTLKISKNCFS 342 (420)
T ss_pred HHHHhhccChhhcccc---eecCCCCeechhhhhhHhhcchhhhhhhhHHHHH-hccchhhhchhhhccceeeechhhhc
Confidence 9999999999999986 5544445678999999999999999999999985 377889999999999998885321 1
Q ss_pred CCcCCCcCCCccccEEEEEEEEeec-cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCC
Q 001246 423 KYLSPDADRSVRNLYTLHSVLVHSG-GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFN 501 (1115)
Q Consensus 423 ~~l~~~~~~~~~~~Y~L~gVVvH~G-s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~ 501 (1115)
+.+.... ......|+|.||+.|.| ++.+|||.+-+-....+.|+++||..|..+..++|+.-
T Consensus 343 ~gvk~~~-~~~~~~yks~~vvyhtgtsatvghYl~dv~~s~~~gw~rIDD~~i~~v~q~dv~~~---------------- 405 (420)
T KOG1871|consen 343 QGLKIRI-LIATRPYKSLAVVYHTGTSATVGHYLEDVSRSVPSGWQRIDDALILFVAQEDVEKV---------------- 405 (420)
T ss_pred cccchhh-hccccccceEEEEEecccccccCceEEeeeecccCceeEeccceeeeccHhhhccc----------------
Confidence 2222111 23456799999999999 79999999999988788999999999999999998641
Q ss_pred CCCcccCCCCcEEEEEEEeec
Q 001246 502 NTPFKFTKYSNAYMLVYIRES 522 (1115)
Q Consensus 502 ~~~~~~~~~~~AYmLfY~R~~ 522 (1115)
+.+.+||+|.|+|.+
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=2.1e-26 Score=257.56 Aligned_cols=295 Identities=25% Similarity=0.344 Sum_probs=218.2
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHHccCCCC----CCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcC---
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTT----ENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFG--- 268 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~----~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~--- 268 (1115)
.+||.|+|||||||+.+|||...|+++..+-..... ........+..+++.+|..|+.+ .++.|..+...+.
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 379999999999999999999999988877543311 11112356778999999999998 8888877766552
Q ss_pred -----CCcccccccccHHHHHHHHHHHHHHhhcCCcc----ccccccccceEEeeeEEeeceeeecce--eeeeeeeEee
Q 001246 269 -----WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV----EGTIQQLFEGHHMNYIECINVDYKSTR--KESFYDLQLD 337 (1115)
Q Consensus 269 -----~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~----~~~i~~lF~g~~~~~i~C~~C~~~s~~--~e~f~~L~L~ 337 (1115)
|.....+.||||.|++..++..++........ ...+..+|++.+.....|.+-+..... .|.|..|+..
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 33445578999999999999999887764332 245788899999999999988766554 7889888888
Q ss_pred ccCC-CCHHHHHhhcceeEEecCCCcccccccCce-eeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCcc
Q 001246 338 VKGC-RDVYASFDKYVEVERLEGDNKYHAEEHGLQ-DAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQL 415 (1115)
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 (1115)
+... ..+...|+.=++.+.-. .-+.-|.. .-.|...|.+||.+|+|+..||.|-...+...|+-..|.||..|
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 001246 416 DLDRENGKYLSPDA-----------------------------------------------DRSV-RNLYTLHSVLVHSG 447 (1115)
Q Consensus 416 dl~~~~~~~l~~~~-----------------------------------------------~~~~-~~~Y~L~gVVvH~G 447 (1115)
|. ...++++. ..+. ...|+|.|||.|.|
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 -cCCCceEEEEEecCCCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEEEe
Q 001246 448 -GVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVYIR 520 (1115)
Q Consensus 448 -s~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY~R 520 (1115)
+..+|||+|++|.. .+.|++|||+.|+-+..+.++ ...||.+ +.+||+|+|.-
T Consensus 415 rss~sghy~aw~r~s-~~~w~~fdd~~vs~v~~e~i~-~lsgggd------------------~~~ayvllyk~ 468 (473)
T KOG1872|consen 415 RSSKSGHYVAWNRVS-EDKWGHFDDDMVSFVLGETIL-SLSGGGD------------------WHSAYVLLYKA 468 (473)
T ss_pred cccCCCcceEEEecc-CCceeecccccccccccccee-eecCCCc------------------cchhhheeecc
Confidence 79999999999997 669999999999999766654 4556543 46999999964
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=7.4e-23 Score=203.77 Aligned_cols=124 Identities=38% Similarity=0.704 Sum_probs=110.3
Q ss_pred EEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCCC-CceEEEEEecCCCC----CCCCceEEEEEEEEEEeeccc
Q 001246 54 KFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNV-DHLSMYLDVADSGT----LPYGWSRYAQFSLAVVNQIHS 128 (1115)
Q Consensus 54 ~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~~-~~lSiyL~~~~~~~----~~~~W~~~a~f~l~l~n~~~~ 128 (1115)
+|+|+|+|||.+ ++.+.|++|.||||.|+|++||+|+.. +++|+||++.+... .+.+|.++|+|.|.|+||.++
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 589999999999999999999999864 89999999976543 256899999999999999887
Q ss_pred ceeeeecceeeecCCCCCcccccccCCCCCCCC----CCCccccccceeeeeee
Q 001246 129 KYSIRKDTQHQFNARESDWGFTSFMPLGDLYDP----SRGYLVNDSVVVEAEVA 178 (1115)
Q Consensus 129 ~~~~~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p----~~gfl~nD~l~I~~~V~ 178 (1115)
..+....+.|+|+....+|||.+||++++|.+| .+|||.||+++|+++|+
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 57999999999999984
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=2.7e-22 Score=200.64 Aligned_cols=129 Identities=27% Similarity=0.581 Sum_probs=113.2
Q ss_pred CcEEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCC-----CCceEEEEEecCCCCCCCCceEEEEEEEEEEeec
Q 001246 52 TMKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNN-----VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQI 126 (1115)
Q Consensus 52 ~~~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~-----~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n~~ 126 (1115)
+++|+|+|+|||.+ ++.+.||.|.+||++|+|++||+|+. .+++|+||+|.+... ..+|++.|+|.|+|+|+.
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 289999999976543 348999999999999998
Q ss_pred ccceeeeecceeeecCCCCCcccccccCCCCCCCCCCCccccccceeeeeeeeecc
Q 001246 127 HSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKV 182 (1115)
Q Consensus 127 ~~~~~~~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~V~~~ 182 (1115)
++..+..+...|.|.+...+|||.+||+|++|.++.+|||.||+++|+|.|.+..+
T Consensus 80 ~~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~ 135 (137)
T cd03772 80 DDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADAP 135 (137)
T ss_pred CCcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence 65555556667899888889999999999999888899999999999999987653
No 42
>KOG2026 consensus Spindle pole body protein - Sad1p [Cytoskeleton]
Probab=99.84 E-value=1.5e-20 Score=204.07 Aligned_cols=274 Identities=22% Similarity=0.219 Sum_probs=210.2
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCC---ccccchhhhhhc
Q 001246 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYND---TSVATKELTKSF 267 (1115)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~---~~v~~~~l~~s~ 267 (1115)
.-.+|+|||.|+.++=|.|++||+|.+.+++|++++.-.. .......+...|..+...+|..+ ..++|.++.++.
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 4467999999999999999999999999999999986432 12233567788899999999864 679999998875
Q ss_pred ---CCCcccccccccHHHHHHHHHHHHHHhhcCCcc-ccccccccceEEeeeEEeec----eeeecceeeeeeeeEeecc
Q 001246 268 ---GWDTYDSFMQHDVQELNRVLCEKLEDKMKGTVV-EGTIQQLFEGHHMNYIECIN----VDYKSTRKESFYDLQLDVK 339 (1115)
Q Consensus 268 ---~~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~-~~~i~~lF~g~~~~~i~C~~----C~~~s~~~e~f~~L~L~v~ 339 (1115)
..+.+..++|.|+-||+.+||+.|+..+.++.. .++|+.-|+|.++....-.. -.......-+|+.|+|++|
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 457888999999999999999999999998874 48999999999987655433 1122345678999999998
Q ss_pred CCCC--------------HHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeec
Q 001246 340 GCRD--------------VYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKI 405 (1115)
Q Consensus 340 ~~~s--------------L~e~L~~~~~~E~l~g~n~y~C~~c~~~~a~k~~~i~~lP~vL~i~LkRF~~d~~~~~~~Ki 405 (1115)
...- |-+.|..|-....-+ --....| ++..+.++|++|++|++||. .+..-..|.
T Consensus 287 ~~plfkD~~e~niiPQV~l~~lL~Kf~g~t~~e--------~~~~~~~-~rf~l~k~P~ylifh~~rF~--kNn~f~ekN 355 (442)
T KOG2026|consen 287 PPPLFKDVMEKNIIPQVALFDLLKKFDGETVTE--------VVTPKLA-MRFRLTKLPRYLIFHMKRFK--KNNFFKEKN 355 (442)
T ss_pred CCCcccchhhhcccccchHHHHHHHhcCceeee--------ecchhhh-hheeeecCCceEEEEeeecc--ccCcccccC
Confidence 6543 555555544322111 0111234 88889999999999999997 345667899
Q ss_pred cceeecC-CcccCCcccCCCcCCCcC-CCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCceeeEechHhHH
Q 001246 406 NDRYEFP-LQLDLDRENGKYLSPDAD-RSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDERVTKEDVKRAL 483 (1115)
Q Consensus 406 ~~~v~fP-~~Ldl~~~~~~~l~~~~~-~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~evl 483 (1115)
.+-++|| ..+|+ .+.+..... ...-..|.|.|-++|. ..-|||...|++...++||..+|-.|++...+-+.
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 55776 444332211 1122679999999997 67899999999998999999999999999776654
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=99.79 E-value=3.8e-19 Score=178.41 Aligned_cols=127 Identities=28% Similarity=0.452 Sum_probs=105.2
Q ss_pred CCcEEEEEEcCccCcC---CCccccCcEEEcce---EEEEEEEeCCCC---CCceEEEEEecCCCCCCCCceEEEEEEEE
Q 001246 51 PTMKFTWTIENFSRLN---TKKHYSDVFVVGGY---KWRILIFPKGNN---VDHLSMYLDVADSGTLPYGWSRYAQFSLA 121 (1115)
Q Consensus 51 ~~~~~tw~I~nfs~l~---~~~~~Sp~F~vGG~---~W~Ill~P~G~~---~~~lSiyL~~~~~~~~~~~W~~~a~f~l~ 121 (1115)
...+|+|+|+|||.++ ++.+.|++|.+||+ +|+|++||+|+. .+|+|+||++.+.. .|.+.|+|.|.
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 36789999999
Q ss_pred EEeecccceee-eecceeeecCCCCCcccccccCCCCCCCCCCCccccccceeeeeeeeecc
Q 001246 122 VVNQIHSKYSI-RKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKV 182 (1115)
Q Consensus 122 l~n~~~~~~~~-~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~V~~~ 182 (1115)
|+|+.+..... .....+.|.. ..+|||.+|+++++|.++.+|||.||+++|+|+|.|+.+
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 579999999999999877789999999999999999763
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=99.77 E-value=9.1e-19 Score=174.05 Aligned_cols=122 Identities=30% Similarity=0.631 Sum_probs=102.9
Q ss_pred CCCcEEEEEEcCccCcC--CCccccCcEEEcceEEEEEEEeCCCC---CCceEEEEEecCCCCCCCCceEEEEEEEEEEe
Q 001246 50 PPTMKFTWTIENFSRLN--TKKHYSDVFVVGGYKWRILIFPKGNN---VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVN 124 (1115)
Q Consensus 50 ~~~~~~tw~I~nfs~l~--~~~~~Sp~F~vGG~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n 124 (1115)
++..+++|+|+|||.++ ++.+.|++|.+|||.|+|.+||+|+. .+|||+||++.+. ..|.+.++|+|+|+|
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 35678999999999884 46899999999999999999999974 3799999998753 236688899999999
Q ss_pred ecccceeeeecceeeecCCCCCcccccccCCCCCCCCCCCcccc--ccceeeeeee
Q 001246 125 QIHSKYSIRKDTQHQFNARESDWGFTSFMPLGDLYDPSRGYLVN--DSVVVEAEVA 178 (1115)
Q Consensus 125 ~~~~~~~~~~~~~h~F~~~~~dwGf~~Fi~l~~L~~p~~gfl~n--D~l~I~~~V~ 178 (1115)
|.++..+......|.|.. ..+|||.+|+++++|.+ +|||.| |+++|+|.|+
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 966655666666788865 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=99.72 E-value=5.5e-18 Score=172.12 Aligned_cols=123 Identities=25% Similarity=0.534 Sum_probs=98.7
Q ss_pred cEEEEEEcCccCcC-------CCccccCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCC-CCCceEEEEEE
Q 001246 53 MKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTL-PYGWSRYAQFS 119 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~-------~~~~~Sp~F~vG--G~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~-~~~W~~~a~f~ 119 (1115)
|+|+|+|+|||.++ ++.+.||+|.+| ||.|+|.+||+|+. .+|||+||++.++... ...|.+.|+|+
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 247899999999 99999999999974 2799999998766432 45799999999
Q ss_pred EEEEeeccc--ceeeeec-----ceeeec-----CCCCCcccccccCCCCCCCCCCCccccccceeeeee
Q 001246 120 LAVVNQIHS--KYSIRKD-----TQHQFN-----ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1115)
Q Consensus 120 l~l~n~~~~--~~~~~~~-----~~h~F~-----~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V 177 (1115)
|+|+||.++ ..+.... ..+.|. ....+|||.+|+++++|.+ .|||.||+++|+|.|
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=99.69 E-value=5.1e-17 Score=163.28 Aligned_cols=125 Identities=19% Similarity=0.345 Sum_probs=100.4
Q ss_pred cEEEEEEcCccCcC-----CC--ccccCcE--EEcceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEEEEE
Q 001246 53 MKFTWTIENFSRLN-----TK--KHYSDVF--VVGGYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYAQFS 119 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~-----~~--~~~Sp~F--~vGG~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a~f~ 119 (1115)
|+|.|+|++||.++ ++ .+.||+| .+|||.|+|.+||+|.+ .+|||+||.+..++.++ ..|.+.++++
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 6899999 99999999999999975 36999999998765443 4899999999
Q ss_pred EEEEeeccccee---eeec--ceeeecCC----CCCcccccccCCCCCCCCCCCccccccceeeeee
Q 001246 120 LAVVNQIHSKYS---IRKD--TQHQFNAR----ESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1115)
Q Consensus 120 l~l~n~~~~~~~---~~~~--~~h~F~~~----~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V 177 (1115)
|+|++|.+.... .... ..+.|... +..||+.+||++++|...+++||.||++.|+|.|
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 999999754332 1111 13567544 4579999999999996545699999999999876
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=99.69 E-value=2.8e-17 Score=166.39 Aligned_cols=124 Identities=23% Similarity=0.428 Sum_probs=97.8
Q ss_pred cEEEEEEcCccCcC-----CC--ccccCcEEE--cceEEEEEEEeCCCC---CCceEEEEEecCCCC-CCCCceEEEEEE
Q 001246 53 MKFTWTIENFSRLN-----TK--KHYSDVFVV--GGYKWRILIFPKGNN---VDHLSMYLDVADSGT-LPYGWSRYAQFS 119 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~-----~~--~~~Sp~F~v--GG~~W~Ill~P~G~~---~~~lSiyL~~~~~~~-~~~~W~~~a~f~ 119 (1115)
|+|.|+|.|||.++ ++ .+.||+|.+ |||.|+|.+||+|+. .+|||+||.+..... ...+|.+.|+|+
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 68999999999763 23 378999986 799999999999974 379999999986543 345799999999
Q ss_pred EEEEeecccceeee-----ecceeeecC-----CCCCcccccccCCCCCCCCCCCccccccceeeeeee
Q 001246 120 LAVVNQIHSKYSIR-----KDTQHQFNA-----RESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1115)
Q Consensus 120 l~l~n~~~~~~~~~-----~~~~h~F~~-----~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~ 178 (1115)
|+|++|.++...+. ....+.|.. ...+|||.+||++++|.. .+||.||++.|+|.|.
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
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=99.68 E-value=1.7e-16 Score=187.51 Aligned_cols=305 Identities=16% Similarity=0.202 Sum_probs=207.2
Q ss_pred cccCCCCcccccccccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcC-Cccccchhhh
Q 001246 186 WSYDSKKETGYVGLKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYN-DTSVATKELT 264 (1115)
Q Consensus 186 ~~~ds~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s-~~~v~~~~l~ 264 (1115)
+++..-..|-|.||.-.+-.-|.||+||.|+++|++|.+++... +....|++|+|.-||.+|..+ ..++....|.
T Consensus 489 FDF~~~NqT~yaGLe~~i~N~YcNamiQllyfl~~~r~~vl~H~----C~~e~CL~CELGFLF~Ml~~S~G~~Cqa~NFl 564 (1118)
T KOG1275|consen 489 FDFQDYNQTTYAGLETDIPNSYCNAMIQLLYFLPPIRSIVLRHI----CTKEFCLLCELGFLFTMLDSSTGDPCQANNFL 564 (1118)
T ss_pred CCCcccccceeeccCCCCchHHHHHHHHHHHhccHHHHHHHcCc----cchhHHHHHHHHHHHHHHhhhcCCccchhHHH
Confidence 35556678889999999999999999999999999999999864 344679999999999999886 3467788888
Q ss_pred hhcCCCc-----------c-------cccc--------------cccHHHHHHHHHHHHHHh-hcCCccccccccccceE
Q 001246 265 KSFGWDT-----------Y-------DSFM--------------QHDVQELNRVLCEKLEDK-MKGTVVEGTIQQLFEGH 311 (1115)
Q Consensus 265 ~s~~~~~-----------~-------~~~~--------------QqDa~Efl~~Lld~Le~~-~~~~~~~~~i~~lF~g~ 311 (1115)
++|.... . .... .+|.+++.+......... .-.......+.+.|+-.
T Consensus 565 raf~t~~~a~~LG~vl~d~~~~~~~~~~~liq~~~~~~~set~~~~d~~~~~~~~~s~~~~~~~~~vn~~~~l~q~F~~~ 644 (1118)
T KOG1275|consen 565 RAFRTNPEASALGLVLSDTQISGTVNDDVLIQDAEGFISSETSRHLDCQDCRGLQQSESVDGESFKVNYAPVLQQSFCQE 644 (1118)
T ss_pred HHHhhChHhhhhcccccchhhccccchHHHhhhhhhccchhhhhhhhHHHhhhhhhhhcccCceeeecchhHHHHHhhhH
Confidence 8773110 0 0111 233333333333222111 00111345788999999
Q ss_pred EeeeEEeeceeeecceeeeeeeeEeeccCCC---------CHHHHHhhcceeEEecCCCcccccccCc-eeeeeeeEeec
Q 001246 312 HMNYIECINVDYKSTRKESFYDLQLDVKGCR---------DVYASFDKYVEVERLEGDNKYHAEEHGL-QDAKKGVLFID 381 (1115)
Q Consensus 312 ~~~~i~C~~C~~~s~~~e~f~~L~L~v~~~~---------sL~e~L~~~~~~E~l~g~n~y~C~~c~~-~~a~k~~~i~~ 381 (1115)
+.....|..|+.++.+......+.|..++.. +..+.|+.-+.. ...-+-.|+.|++ +....+..+..
T Consensus 645 ~e~~~~Cg~C~~~~~~~k~l~~~~lsyp~~~~id~~~~~~~F~~iL~R~l~l---~kn~~~~C~~C~k~ep~~q~~~vr~ 721 (1118)
T KOG1275|consen 645 IEKSLRCGECGDEKQKSKSLLRKVLSYPNVLLIDTLAKSNNFVEILKRSLSL---FKNKQAWCETCTKPEPTSQKKNVRS 721 (1118)
T ss_pred HHHhhhcccccchhhhhhhhhheeecCCCccchhhcccccchHHHhhhhhhc---ccccccccccccCCCCccccccccc
Confidence 9999999999998887776666666665322 234444433322 1112256999985 55667778899
Q ss_pred CCCeEEEEEeeEEeecccCe--eeeccceeecCCcccCCccc--CCCc----CC------CcCCCccccEEEEEEEEeec
Q 001246 382 FPPVLQLQLKRFEYDFMRDA--MVKINDRYEFPLQLDLDREN--GKYL----SP------DADRSVRNLYTLHSVLVHSG 447 (1115)
Q Consensus 382 lP~vL~i~LkRF~~d~~~~~--~~Ki~~~v~fP~~Ldl~~~~--~~~l----~~------~~~~~~~~~Y~L~gVVvH~G 447 (1115)
+|.+|.|...-+.-...... ..|.-..+-+|..+.|..-. +..+ +. +.+...-.+|+|.|+|+|.|
T Consensus 722 LPd~L~in~~~~~~~~~~~~a~q~~~~~~vWLP~~~~~~~~k~~~~~v~~~s~~~~~~~~~~d~~~~~vYeL~a~V~~I~ 801 (1118)
T KOG1275|consen 722 LPDCLSINTCLNVHELVDFWARQNKLLEDVWLPEWFHMIISKNKAQLVSTISDLDVSPLPDYDEPSAVVYELDAMVHAIG 801 (1118)
T ss_pred CcceeeeeeeccchhhhhhHHHhhccccccccchheeEEEecccceeeeeeccccCCCCccccCCceEEEEeeeEEEEec
Confidence 99999999887753222211 22455667788887662110 0000 00 11233457999999999999
Q ss_pred c-CCCceEEEEEecC--------CCCCEEEEeCceeeEechHhHHHhhcCCCCCCCCCCCCCCCCCcccCCCCcEEEEEE
Q 001246 448 G-VHGGHYYAFIRPT--------LSDQWYKFDDERVTKEDVKRALEEQYGGEEELPPTNPGFNNTPFKFTKYSNAYMLVY 518 (1115)
Q Consensus 448 s-~~~GHY~ayvr~~--------~~~~W~~fnD~~Vt~v~~~evl~~~fGg~~~~~~~~~~~~~~~~~~~~~~~AYmLfY 518 (1115)
+ .+.+|.+++||.. .+.+||.|||-.|++++++|++. |. ..+..+-||+|
T Consensus 802 d~~~e~~lVs~Ikv~~~~~~~~~~dsqWylFNDfLV~~ite~EAl~--~~-------------------~~WKvP~Il~Y 860 (1118)
T KOG1275|consen 802 DNENEVNLVSPIKVLRPYHVIKPDDSQWYLFNDFLVSEITEEEALH--FD-------------------GPWKVPAILYY 860 (1118)
T ss_pred cCCCccceEEEEEccCcccccCcCcceeEEEcceeeeeCChHHheE--ec-------------------cCccCcEEEEE
Confidence 5 6899999999942 24699999999999999999963 22 23678999999
No 49
>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=99.67 E-value=9.7e-17 Score=163.47 Aligned_cols=123 Identities=25% Similarity=0.478 Sum_probs=97.5
Q ss_pred cEEEEEEcCccCcC-------CCccccCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCCC-CCceEEEEEE
Q 001246 53 MKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTLP-YGWSRYAQFS 119 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~-------~~~~~Sp~F~vG--G~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~~-~~W~~~a~f~ 119 (1115)
|+|.|+|+|||.++ +..+.|++|.+| ||.|+|.+||+|+. .+|||+||.+..++... ..|.+.|+|+
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 246899999999 99999999999964 37999999998754433 4899999999
Q ss_pred EEEEeeccc--c--eeeee-----cceeeec--------CCCCCcccccccCCCCCCCCCCCccccccceeeeee
Q 001246 120 LAVVNQIHS--K--YSIRK-----DTQHQFN--------ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1115)
Q Consensus 120 l~l~n~~~~--~--~~~~~-----~~~h~F~--------~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V 177 (1115)
|+|++|.++ . .++.. ...+.|. .....|||..||++++|. +++||.||+++|+|.|
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 50
>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=99.67 E-value=1.6e-16 Score=165.31 Aligned_cols=127 Identities=20% Similarity=0.373 Sum_probs=100.3
Q ss_pred CCCcEEEEEEcCccCcC-----CC--ccccCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCC-CCCceEEE
Q 001246 50 PPTMKFTWTIENFSRLN-----TK--KHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTL-PYGWSRYA 116 (1115)
Q Consensus 50 ~~~~~~tw~I~nfs~l~-----~~--~~~Sp~F~vG--G~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~-~~~W~~~a 116 (1115)
...|+|.|+|+|||.++ ++ .+.||+|++| ||.|+|.+||+|++ .+|||+||.+..++.+ -..|.+.+
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 34699999999999864 23 6899999999 99999999999975 3699999999876433 24899999
Q ss_pred EEEEEEEeecccceeee-----ecceeeec-CC---CCCcccccccCCCCCCCCCCCccccccceeeeeee
Q 001246 117 QFSLAVVNQIHSKYSIR-----KDTQHQFN-AR---ESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1115)
Q Consensus 117 ~f~l~l~n~~~~~~~~~-----~~~~h~F~-~~---~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~ 178 (1115)
+|+|+|++|.+....+. ....+.|. +. +..||+..||++++|. +++||+||++.|+|.|.
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 01125575 33 4579999999999994 48999999999999875
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=99.66 E-value=4e-16 Score=152.38 Aligned_cols=123 Identities=46% Similarity=0.759 Sum_probs=101.6
Q ss_pred cEEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCC--CCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccce
Q 001246 53 MKFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNN--VDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKY 130 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~--~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n~~~~~~ 130 (1115)
++|+|+|.+|+...++.+.||.|.+||+.|+|.+||+|+. .+++|+||+|.........|.+.|+|.|.|+|++++.
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 4799999999876554568999999999999998433
Q ss_pred eeeecceeeec-CCCCCcccccccCCCCCCCCCCCccccccceeeeeee
Q 001246 131 SIRKDTQHQFN-ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVA 178 (1115)
Q Consensus 131 ~~~~~~~h~F~-~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~ 178 (1115)
.......+.|. ....+|||.+|+++++|.+ .+++.||++.|+|.|.
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 6678999999999999965 3338999999999873
No 52
>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=99.66 E-value=1.7e-16 Score=158.62 Aligned_cols=125 Identities=19% Similarity=0.352 Sum_probs=98.2
Q ss_pred cEEEEEEcCccCcC-----C--CccccCcEEEc--ceEEEEEEEeCCCC---CCceEEEEEecCCCCC-CCCceEEEEEE
Q 001246 53 MKFTWTIENFSRLN-----T--KKHYSDVFVVG--GYKWRILIFPKGNN---VDHLSMYLDVADSGTL-PYGWSRYAQFS 119 (1115)
Q Consensus 53 ~~~tw~I~nfs~l~-----~--~~~~Sp~F~vG--G~~W~Ill~P~G~~---~~~lSiyL~~~~~~~~-~~~W~~~a~f~ 119 (1115)
|+|.|+|+||+... + ..++||+|+.+ ||.|+|.+||+|++ .+|+|+||.+..++.+ -..|.+.++|+
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 26899999998 99999999999975 3799999999865322 24799999999
Q ss_pred EEEEeecccce-eeeecc---eeeec----CCCCCcccccccCCCCCCCCCCCccccccceeeeee
Q 001246 120 LAVVNQIHSKY-SIRKDT---QHQFN----ARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1115)
Q Consensus 120 l~l~n~~~~~~-~~~~~~---~h~F~----~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V 177 (1115)
|+|++|.+... ...... .+.|. ..+..||+.+||++++|....++||.||++.|+|.|
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 35686 455579999999999995433599999999999987
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=99.63 E-value=9.7e-16 Score=155.98 Aligned_cols=124 Identities=21% Similarity=0.448 Sum_probs=94.6
Q ss_pred CcEEEEEEcCccCcC-----CCccccCcE-EEcceEEEEEEEeCCCC--CCceEEEEEecCCCC-CCCCceE-EEEEEEE
Q 001246 52 TMKFTWTIENFSRLN-----TKKHYSDVF-VVGGYKWRILIFPKGNN--VDHLSMYLDVADSGT-LPYGWSR-YAQFSLA 121 (1115)
Q Consensus 52 ~~~~tw~I~nfs~l~-----~~~~~Sp~F-~vGG~~W~Ill~P~G~~--~~~lSiyL~~~~~~~-~~~~W~~-~a~f~l~ 121 (1115)
+.+|.|+|.|||.++ +..+.||+| .+|||.|+|.+||+|+. .+|||+||.+..++. ....|.+ .|+++|+
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 237899999 99999999999999985 479999999986543 3458994 8999999
Q ss_pred EEeeccc---ceeeee----cc------------------eeeecC-------CCCCcccccccCCCCCCCCCCCccccc
Q 001246 122 VVNQIHS---KYSIRK----DT------------------QHQFNA-------RESDWGFTSFMPLGDLYDPSRGYLVND 169 (1115)
Q Consensus 122 l~n~~~~---~~~~~~----~~------------------~h~F~~-------~~~dwGf~~Fi~l~~L~~p~~gfl~nD 169 (1115)
|++|... ..++.. .. .+.++. ...+|||..||++++|.. ++||+||
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 9999631 111111 10 011122 334799999999999954 7799999
Q ss_pred cceeeeee
Q 001246 170 SVVVEAEV 177 (1115)
Q Consensus 170 ~l~I~~~V 177 (1115)
++.|.+.+
T Consensus 159 tl~i~~~~ 166 (167)
T cd03771 159 DLIILLDF 166 (167)
T ss_pred EEEEEEEe
Confidence 99998875
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=99.59 E-value=3.7e-15 Score=150.53 Aligned_cols=126 Identities=21% Similarity=0.404 Sum_probs=101.2
Q ss_pred CCCcEEEEEEcCccCcCC-------CccccCcEEEc--ceEEEEEEEeCCCCC---CceEEEEEecCCCCCC-CCceEEE
Q 001246 50 PPTMKFTWTIENFSRLNT-------KKHYSDVFVVG--GYKWRILIFPKGNNV---DHLSMYLDVADSGTLP-YGWSRYA 116 (1115)
Q Consensus 50 ~~~~~~tw~I~nfs~l~~-------~~~~Sp~F~vG--G~~W~Ill~P~G~~~---~~lSiyL~~~~~~~~~-~~W~~~a 116 (1115)
...|+|+|+|.|||.+.. ..++||+|+.+ ||+|++.+||+|++. .|||+|+.+..++.++ ..|.+..
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 347999999999998641 26899999775 899999999999853 6899999999988777 7999999
Q ss_pred EEEEEEEeecccceeeeec--------ceeee-cCCCCCcccccccCCCCCCCCCCCccccccceeeeee
Q 001246 117 QFSLAVVNQIHSKYSIRKD--------TQHQF-NARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEV 177 (1115)
Q Consensus 117 ~f~l~l~n~~~~~~~~~~~--------~~h~F-~~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V 177 (1115)
+++|+|++|.+.. ++... +-+|. +..+..|||..|+++++|.. ++|||.||++.|+|.|
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 9999999997533 22211 12333 34456799999999999964 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=99.59 E-value=7.2e-16 Score=149.77 Aligned_cols=116 Identities=41% Similarity=0.723 Sum_probs=96.3
Q ss_pred EcCccCcCC-C-ccccCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCC-CCceEEEEEEEEEEeecccceeeeec
Q 001246 59 IENFSRLNT-K-KHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLP-YGWSRYAQFSLAVVNQIHSKYSIRKD 135 (1115)
Q Consensus 59 I~nfs~l~~-~-~~~Sp~F~vGG~~W~Ill~P~G~~~~~lSiyL~~~~~~~~~-~~W~~~a~f~l~l~n~~~~~~~~~~~ 135 (1115)
|+|||.+++ + .+.|+.|.+||++|+|.++|+|+ .+++|+||+|....... .+|+|.|++++.|+++.++.......
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 78999999999886654 68999999999999998887433333
Q ss_pred ceeeecCCCCCcccccccCCCCCCCCCCCccccccceeeeeeee
Q 001246 136 TQHQFNARESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAV 179 (1115)
Q Consensus 136 ~~h~F~~~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~V 179 (1115)
.|.|... .+|||.+|+++++|.++. |+.||+++|+|.|+|
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 6888665 789999999999996633 999999999999975
No 56
>smart00061 MATH meprin and TRAF homology.
Probab=99.53 E-value=4.1e-14 Score=131.51 Aligned_cols=93 Identities=31% Similarity=0.523 Sum_probs=80.2
Q ss_pred EEEEEcCccCcC-CCccccCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccceeee
Q 001246 55 FTWTIENFSRLN-TKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKYSIR 133 (1115)
Q Consensus 55 ~tw~I~nfs~l~-~~~~~Sp~F~vGG~~W~Ill~P~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n~~~~~~~~~ 133 (1115)
++|.|+||+.+. ++.+.||+|.+||+.|+|.+||+ .+++|+||+|.+....+.+|++.|+|+|.|+|+++... .
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 589999999983 67899999999999999999998 47899999998776555589999999999999987643 4
Q ss_pred ecceeeecCCCCCccccccc
Q 001246 134 KDTQHQFNARESDWGFTSFM 153 (1115)
Q Consensus 134 ~~~~h~F~~~~~dwGf~~Fi 153 (1115)
+...|.|.. ..+|||.+||
T Consensus 77 ~~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 77 KKDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred eeeeEEEcC-CCccceeeEC
Confidence 456788986 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=99.23 E-value=1.2e-11 Score=124.50 Aligned_cols=124 Identities=21% Similarity=0.440 Sum_probs=93.9
Q ss_pred CcEEEEEEcCccCcC-----CCccccCcEEEc-ceEEEEEEEeCCCC----CCceEEEEEecCCCCCC-CCceEE-EEEE
Q 001246 52 TMKFTWTIENFSRLN-----TKKHYSDVFVVG-GYKWRILIFPKGNN----VDHLSMYLDVADSGTLP-YGWSRY-AQFS 119 (1115)
Q Consensus 52 ~~~~tw~I~nfs~l~-----~~~~~Sp~F~vG-G~~W~Ill~P~G~~----~~~lSiyL~~~~~~~~~-~~W~~~-a~f~ 119 (1115)
+..+.|+|.||+++. ...++||+|+.+ ||..++.+||+|++ ..|+|+|+.+..++.+. ..|.|. -+++
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 457899999999863 346899999886 99999999999975 25999999999876654 489975 5999
Q ss_pred EEEEeecc---cceee----eeccee---------eec--------------CCCCCcccccccCCCCCCCCCCCccccc
Q 001246 120 LAVVNQIH---SKYSI----RKDTQH---------QFN--------------ARESDWGFTSFMPLGDLYDPSRGYLVND 169 (1115)
Q Consensus 120 l~l~n~~~---~~~~~----~~~~~h---------~F~--------------~~~~dwGf~~Fi~l~~L~~p~~gfl~nD 169 (1115)
|+|++|+. .+.++ ....++ .|. ....++||..|+++++|. +++||+||
T Consensus 81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdD 158 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKND 158 (167)
T ss_pred EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCC
Confidence 99999963 11111 111100 121 134589999999999995 49999999
Q ss_pred cceeeeee
Q 001246 170 SVVVEAEV 177 (1115)
Q Consensus 170 ~l~I~~~V 177 (1115)
++.|.+.+
T Consensus 159 tlfI~~~~ 166 (167)
T cd03783 159 DLIIFVDF 166 (167)
T ss_pred eEEEEEec
Confidence 99988765
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=99.19 E-value=3.5e-11 Score=120.36 Aligned_cols=124 Identities=23% Similarity=0.475 Sum_probs=95.2
Q ss_pred CcEEEEEEcCccCcC-----CCccccCcEEEc-ceEEEEEEEeCCCC--CCceEEEEEecCCCCCC-CCceEE-EEEEEE
Q 001246 52 TMKFTWTIENFSRLN-----TKKHYSDVFVVG-GYKWRILIFPKGNN--VDHLSMYLDVADSGTLP-YGWSRY-AQFSLA 121 (1115)
Q Consensus 52 ~~~~tw~I~nfs~l~-----~~~~~Sp~F~vG-G~~W~Ill~P~G~~--~~~lSiyL~~~~~~~~~-~~W~~~-a~f~l~ 121 (1115)
+.+|.|+|.||+++. ...++||+|+.+ ||+.++.+||+|++ ..|||+|+.+..++.+. ..|.+. -+++|+
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 468999999999864 347899999765 99999999999975 36999999999876654 489999 899999
Q ss_pred EEeecc---cceeeee----c-----c-eeee--c----------CC-------CCCcccccccCCCCCCCCCCCccccc
Q 001246 122 VVNQIH---SKYSIRK----D-----T-QHQF--N----------AR-------ESDWGFTSFMPLGDLYDPSRGYLVND 169 (1115)
Q Consensus 122 l~n~~~---~~~~~~~----~-----~-~h~F--~----------~~-------~~dwGf~~Fi~l~~L~~p~~gfl~nD 169 (1115)
|++|+. .+.++.. . . ...| . .. +.+|||+.|+++++|. ++.||+||
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 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIKGD 158 (167)
T ss_pred EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCcccCC
Confidence 999963 2222211 0 0 0123 1 11 5689999999999995 48999999
Q ss_pred cceeeeee
Q 001246 170 SVVVEAEV 177 (1115)
Q Consensus 170 ~l~I~~~V 177 (1115)
++.|-..+
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=98.36 E-value=1.3e-06 Score=92.43 Aligned_cols=224 Identities=17% Similarity=0.251 Sum_probs=126.5
Q ss_pred ccCCcccchhhHHHHHhcchhHHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhcC--CCccccccc
Q 001246 200 KNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSFG--WDTYDSFMQ 277 (1115)
Q Consensus 200 ~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~~--~~~~~~~~Q 277 (1115)
+|..|-||+-++|-+|.|+..+|+.+-+.. ....++...|...+.+.+. .+.+......-+ -.......=
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 688899999999999999999999985422 2234555554444433221 111111100000 000000001
Q ss_pred ccHHHHHHHHHHHHHHhhcC-------C---c---------cccccccccceEEeeeEEeeceeeeccee--eeeeeeEe
Q 001246 278 HDVQELNRVLCEKLEDKMKG-------T---V---------VEGTIQQLFEGHHMNYIECINVDYKSTRK--ESFYDLQL 336 (1115)
Q Consensus 278 qDa~Efl~~Lld~Le~~~~~-------~---~---------~~~~i~~lF~g~~~~~i~C~~C~~~s~~~--e~f~~L~L 336 (1115)
.+|..-+..+-+.+-..++. . + .+..+.++|.-.+.=.-.|..||+..... -.....+-
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 12222233222222222211 0 0 23567889999999999999999864421 11111111
Q ss_pred eccCCCCHHHHHhhcceeEEecCCCcccccccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeeccceeecCCccc
Q 001246 337 DVKGCRDVYASFDKYVEVERLEGDNKYHAEEHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKINDRYEFPLQLD 416 (1115)
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 (1115)
.++.-.-|.. ...--|.+|+...-.+++.+.++|+|+.+|+- .| .|.. |
T Consensus 158 v~pdwhPLnA-------------~h~~pCn~C~~ksQ~rkMvlekv~~vfmLHFV-------eG----------LP~n-d 206 (275)
T PF15499_consen 158 VIPDWHPLNA-------------VHFGPCNSCNSKSQRRKMVLEKVPPVFMLHFV-------EG----------LPHN-D 206 (275)
T ss_pred CCCCCCcccc-------------cccCCCcccCChHHhHhhhhhcCchhhhhhhh-------cc----------CCcc-C
Confidence 1222111221 12235899987778888999999999999953 22 1221 2
Q ss_pred CCcccCCCcCCCcCCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEEEEeCce
Q 001246 417 LDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWYKFDDER 473 (1115)
Q Consensus 417 l~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~~fnD~~ 473 (1115)
+..|.-.| .+..|++.+||-..-. --|++++|++. +|.|.++||-+
T Consensus 207 l~~ysF~f--------eg~~Y~Vt~VIQY~~~--~~HFvtWi~~~-dGsWLecDDLk 252 (275)
T PF15499_consen 207 LQHYSFHF--------EGCLYQVTSVIQYQAN--LNHFVTWIRDS-DGSWLECDDLK 252 (275)
T ss_pred CCccceee--------cCeeEEEEEEEEEecc--CceeEEEEEcC-CCCeEeeccCC
Confidence 21111111 3467999999988643 57999999997 88899999965
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=97.87 E-value=5.4e-05 Score=86.05 Aligned_cols=121 Identities=45% Similarity=0.762 Sum_probs=97.3
Q ss_pred EEEEEEcCccCcCCCccccCcEEEcceEEEEEEEeCCCCCCceEEEEEecCCCCCCCCceEEEEEEEEEEeecccce-ee
Q 001246 54 KFTWTIENFSRLNTKKHYSDVFVVGGYKWRILIFPKGNNVDHLSMYLDVADSGTLPYGWSRYAQFSLAVVNQIHSKY-SI 132 (1115)
Q Consensus 54 ~~tw~I~nfs~l~~~~~~Sp~F~vGG~~W~Ill~P~G~~~~~lSiyL~~~~~~~~~~~W~~~a~f~l~l~n~~~~~~-~~ 132 (1115)
.++|.|.+++... ..++|..|..||..|++.+||.|+ ++|.|+...... +|.+.|.+.|.+.|+..... ..
T Consensus 5 ~~~~~~~~~~~~~-l~~ys~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~~~~ 76 (297)
T KOG1987|consen 5 KFTWVISNFSSVG-LVIYSNGFVKGGCKWRLSAYPKGN---YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKYLST 76 (297)
T ss_pred ccceeeccCcchh-hhccccceeecCceEEEEEecCCC---EEEEEEEeccCC----CcceeEEEEEEEccCCCcceeee
Confidence 3449999999984 788999999999999999999997 788888876543 89999999999999987643 33
Q ss_pred eecceeeecC--CCCCcccccccCCCCCCCCCCCccccccceeeeeeeeecc
Q 001246 133 RKDTQHQFNA--RESDWGFTSFMPLGDLYDPSRGYLVNDSVVVEAEVAVRKV 182 (1115)
Q Consensus 133 ~~~~~h~F~~--~~~dwGf~~Fi~l~~L~~p~~gfl~nD~l~I~~~V~V~~~ 182 (1115)
.......|.. -..+||+..+++...+.++..|++.++.+.+.+.+.|.+.
T Consensus 77 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~ 128 (297)
T KOG1987|consen 77 VEEGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEA 128 (297)
T ss_pred eeeeEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceee
Confidence 3233444444 3678999999999999888899999988888777766664
No 61
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=96.47 E-value=0.00095 Score=81.45 Aligned_cols=100 Identities=24% Similarity=0.266 Sum_probs=59.3
Q ss_pred cccCCcccchhhHHHHHhcchhHHHHHccCCCCCC---------CCCCCCHHHHHHHHHHHHhc---C---Cc--cccch
Q 001246 199 LKNQGATCYMNSLLQTLYHIPYFRKAVYHMPTTEN---------DLPSGSIPLALQSLFYKLQY---N---DT--SVATK 261 (1115)
Q Consensus 199 L~N~GnTCY~NSvLQ~L~~~~~fr~~l~~~~~~~~---------~~~~~~l~~~Lq~Lf~~l~~---s---~~--~v~~~ 261 (1115)
|.|.||+||.||+||+|..+|+|+..+.+.+.... ........+..+.+-.-+.. . .. ..+..
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 99999999999999999999999988755432110 01111112222222111111 0 11 11222
Q ss_pred hhhhhcC-----CCcccccccccHHHHHHHHHHHHHHhhcCC
Q 001246 262 ELTKSFG-----WDTYDSFMQHDVQELNRVLCEKLEDKMKGT 298 (1115)
Q Consensus 262 ~l~~s~~-----~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~ 298 (1115)
.+...+. ...+....|+|+++++..|+-.+...+...
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~l~~~~~~~~~~~ 155 (587)
T KOG1864|consen 114 QLVQSRLNNGKKYAEFNNNDQRDAHNFLLELMAMVDDVMGVS 155 (587)
T ss_pred HHHHHHhhhhhhhhhhhcccHhhhhhhhhhhhHHHhhhcccC
Confidence 2222221 234667789999999999999998877643
No 62
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=94.03 E-value=0.12 Score=66.86 Aligned_cols=139 Identities=22% Similarity=0.269 Sum_probs=100.9
Q ss_pred EEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCc-
Q 001246 886 YEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPN- 964 (1115)
Q Consensus 886 YEvL~i~l~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~- 964 (1115)
+-.|++|+..=+....-.+.+..+.......+.+-++++++++||++.+.+.+++. ..+|++.+|.++++.+++..+
T Consensus 419 f~~Lslp~p~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~l~~~~~~~--~~~l~~~~i~~~~~~~~~~~~~ 496 (842)
T KOG1870|consen 419 FGYLSLPLPGKEIQKLEVTVPHGDGFRKPGALGVSVAKNGRIRDLLEYLSRTVGLL--SWELKPVEILFDCFNKIFAADE 496 (842)
T ss_pred cccccccCCCCcccceeEEEecCCCCCChhheeeeccccchHHHHHHHHHHHhccc--hhhcccceeccchhhhhhccCc
Confidence 44456676644444444555666666666788999999999999999999999987 778999999999999999999
Q ss_pred ccccccccccceeEeeecchhhhcCCCCCeEEEEEEeeccCc----ccccccccCCccEEEEecCCCC
Q 001246 965 EKIENINDQYWTLRAEEIPEEEKNLGPNDRLIHVYHFTKESA----QNQMQVQNFGEPFFLVIHEGET 1028 (1115)
Q Consensus 965 ~~i~~i~~~~~~~~~e~iP~~e~~~~~~~~li~v~hf~k~~~----~~h~~~~~fG~PF~~~v~~~E~ 1028 (1115)
.....|.. ...++..++|. .......-.++++.|-.+.+. +.|....+||.||++.+..|.+
T Consensus 497 ~~~~~i~~-~~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~p~~~~~~~~~~ 562 (842)
T KOG1870|consen 497 LKLDSIYS-DEELFDYELGV-LKVQGSIYAIIVVRFRSRLPRSKGIRSHVSSKLFGLPLLVSVLSGAQ 562 (842)
T ss_pred cccccccC-CcceEEeeccc-ccccccceEEEEEeeccccccccCcccCCCccccCCcceeeccCCCc
Confidence 46666654 45677778876 221122334666666666643 2344457999999999999753
No 63
>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=92.92 E-value=0.54 Score=53.46 Aligned_cols=101 Identities=13% Similarity=0.160 Sum_probs=53.0
Q ss_pred CCcccccccccCCcccchhhHHHHHhcchh-HHHHHccCCCCCCCCCCCCHHHHHHHHHHHHhcCCccccchhhhhhc-C
Q 001246 191 KKETGYVGLKNQGATCYMNSLLQTLYHIPY-FRKAVYHMPTTENDLPSGSIPLALQSLFYKLQYNDTSVATKELTKSF-G 268 (1115)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~~~-fr~~l~~~~~~~~~~~~~~l~~~Lq~Lf~~l~~s~~~v~~~~l~~s~-~ 268 (1115)
....|++=|+=.-|.||+||++=+|=++.. |+ .-+++.++.++..++. ..|...+ .
T Consensus 97 ~~~~g~~~Lkq~dNNCwVna~~~~LQ~~~~~f~------------------~~~l~~aw~~f~~G~~----~~fVa~~Ya 154 (320)
T PF08715_consen 97 VVVNGFRVLKQSDNNCWVNAACLQLQALKIKFK------------------SPGLDEAWNEFKAGDP----APFVAWCYA 154 (320)
T ss_dssp EEETTEEEE---TTTHHHHHHHHHHTTST--BS------------------SHHHHHHHHHHHTT------HHHHHHHHH
T ss_pred EEECCEEEEEecCCCcHHHHHHHHHHhcCCccC------------------CHHHHHHHHHHhCCCh----HHHHHHHHH
Confidence 345677778888899999999876644421 21 1255666666555432 2222211 1
Q ss_pred CCcccccccccHHHHHHHHHHHHHHhhcCCccccccccccceEEeeeEEeeceeeecc
Q 001246 269 WDTYDSFMQHDVQELNRVLCEKLEDKMKGTVVEGTIQQLFEGHHMNYIECINVDYKST 326 (1115)
Q Consensus 269 ~~~~~~~~QqDa~Efl~~Lld~Le~~~~~~~~~~~i~~lF~g~~~~~i~C~~C~~~s~ 326 (1115)
......++..||+++|..|++.+... ....+.....|..||....
T Consensus 155 ~~~~~~G~~gDa~~~L~~ll~~~~~~-------------~~~~~~~~~~~c~CG~k~~ 199 (320)
T PF08715_consen 155 STNAKKGDPGDAEYVLSKLLKDADLD-------------YSVTMTKLEVCCGCGVKQE 199 (320)
T ss_dssp HTT--TTS---HHHHHHHHHTTB-TT-------------T-EEEEEEEEECTTEEEEE
T ss_pred HcCCCCCCCcCHHHHHHHHHHhcccc-------------ceEEEEEeeeeccCCccee
Confidence 12345567889999999998765432 2234445567889986543
No 64
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.44 Score=57.10 Aligned_cols=123 Identities=19% Similarity=0.276 Sum_probs=82.2
Q ss_pred EEEeccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcc
Q 001246 886 YEVLDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNE 965 (1115)
Q Consensus 886 YEvL~i~l~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~ 965 (1115)
|=-|++|++ .--++.+++.-.+.... .+.+.+.+.+|+.+|-+.+.+..+... -.+|.+.+|+.++.++++.+-.
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 334566666 44555555554444333 478999999999999999988887653 3489999999999999998765
Q ss_pred c--ccccccccceeEeeecchhhhcCCCCCeEEEEEEeeccCcccccccccCCccEEEEec
Q 001246 966 K--IENINDQYWTLRAEEIPEEEKNLGPNDRLIHVYHFTKESAQNQMQVQNFGEPFFLVIH 1024 (1115)
Q Consensus 966 ~--i~~i~~~~~~~~~e~iP~~e~~~~~~~~li~v~hf~k~~~~~h~~~~~fG~PF~~~v~ 1024 (1115)
. +..|.. ...++..+ -.+++.+|||+|---+... +.-..||.|| +.+.
T Consensus 518 k~ll~~I~~-~d~vylYe-------~~~ngi~vpvvh~~~~~gY--ks~rlFg~pf-lqln 567 (823)
T COG5560 518 KVLLQDIPQ-TDFVYLYE-------TNDNGIEVPVVHLRIEKGY--KSKRLFGDPF-LQLN 567 (823)
T ss_pred HHHHhhcCc-cceEEEee-------cCCCCeEEEEEeccccccc--cchhhhCCcc-eEEE
Confidence 4 334543 33333333 2346799999999444332 2347999997 4443
No 65
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=92.33 E-value=1.2 Score=48.21 Aligned_cols=152 Identities=19% Similarity=0.227 Sum_probs=80.5
Q ss_pred eEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCC--CCCceEEecccccCCCCCCCCccccCcchHHHhhhccC
Q 001246 801 QIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLD--DPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVHYN 878 (1115)
Q Consensus 801 ~~v~f~~~~~~~~~~f~l~ls~~~~Y~~la~~va~~l~~~--~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 878 (1115)
+.|.+..-.......+++.+++.-|-.+|.+++++++++. +..+||+|.. +++ ....+ .+...+|.++ ..+
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 3444443333334579999999999999999999999874 2458999983 221 11111 1123445554 111
Q ss_pred CccceEEEEEeccChhhhccC------ceEEEEEEcC--CCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCC-CCccEEE
Q 001246 879 QTSDILYYEVLDIPLPELQGL------KNLKVAFHHA--TKDEVVIHNIRLPKQSTVGDVINELKTKVELSH-PNAELRL 949 (1115)
Q Consensus 879 ~~~~~l~YEvL~i~l~elE~~------k~~kv~w~~~--~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~-~~~~lrl 949 (1115)
..++-| .||-.|++.. +.|.|.=... ...+-..+.|.|.++-|+.|+.+.|++++++++ +-.|+++
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 5677775543 5565554432 233446889999999999999999999999987 4578999
Q ss_pred EEEeccEEE--EecCCc
Q 001246 950 LEVFYHKIY--KIFAPN 964 (1115)
Q Consensus 950 ~~i~~~ki~--~~~~~~ 964 (1115)
.-+.+++.. ..+..+
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 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=92.22 E-value=1.2 Score=49.41 Aligned_cols=175 Identities=19% Similarity=0.275 Sum_probs=96.5
Q ss_pred cchHHHhhhccCC--ccceEEEEEec-----cChhhhccCc--eEEEEEEcCCCCeE-EEEEEEcCCCCCHHHHHHHHHh
Q 001246 867 VEHLSDMLVHYNQ--TSDILYYEVLD-----IPLPELQGLK--NLKVAFHHATKDEV-VIHNIRLPKQSTVGDVINELKT 936 (1115)
Q Consensus 867 ~~~l~~~l~~~~~--~~~~l~YEvL~-----i~l~elE~~k--~~kv~w~~~~~~~~-~~~~~~v~k~~tv~dll~~l~~ 936 (1115)
..++.++...... ..-+||=|+++ .+........ .|=+.+.++..+.. ..=.++|+++.+|.+|+..+.+
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 4677777754222 12367888753 2223222232 34455666655443 3447999999999999999999
Q ss_pred hccCCCCCccEEEEEE-eccEEEEecCCcccccc--cccccceeEeeecchhhhcCC---CC--------CeEEEEEEee
Q 001246 937 KVELSHPNAELRLLEV-FYHKIYKIFAPNEKIEN--INDQYWTLRAEEIPEEEKNLG---PN--------DRLIHVYHFT 1002 (1115)
Q Consensus 937 ~~~~~~~~~~lrl~~i-~~~ki~~~~~~~~~i~~--i~~~~~~~~~e~iP~~e~~~~---~~--------~~li~v~hf~ 1002 (1115)
.+|++.+ ..|.+||- ..++|..+ ++..++.. |.+ ++.|..+..+.++.... ++ -..|.| +|.
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 RAGLPPD-TPLLLYEEIKPNMIEPI-DPNQTFEKAELQD-GDIICFQRAPSEDLDKSSRYPDVKEYYDFLYNRVEV-EFK 182 (249)
T ss_dssp HHT--TT---EEEEEEEETTEEEE---SSSBHHHTT--T-TEEEEEEE--GG--GGGSSS-SHHHHHHHHHHEEEE-EEE
T ss_pred HcCCCCC-CceEEEEEeccceeeEc-CCCCchhhcccCC-CCEEEEEeccccccccccCCCCHHHHHHHHhCeEEE-EEE
Confidence 9999753 47999965 56788777 66665554 555 66787777664311111 11 022333 444
Q ss_pred c--cCcccccccccCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEec
Q 001246 1003 K--ESAQNQMQVQNFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSL 1057 (1115)
Q Consensus 1003 k--~~~~~h~~~~~fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~ 1057 (1115)
. .+. +-+|.+.+...-++.++-++|.++||+.. .+++|--+..
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 3 332 45999999999999999999999999955 5888877743
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=89.12 E-value=0.56 Score=41.11 Aligned_cols=56 Identities=27% Similarity=0.382 Sum_probs=43.4
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEE
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDII 771 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl 771 (1115)
-++.|..+.+++.|+...++..|+|+++.+.|+= + + +.++++.|+...+|.+||+|
T Consensus 13 ~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~f----d-G---~~L~~~~T~~~~~ied~d~I 68 (72)
T PF11976_consen 13 IKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIF----D-G---KRLDPNDTPEDLGIEDGDTI 68 (72)
T ss_dssp EEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEE----T-T---EEE-TTSCHHHHT-STTEEE
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCccceEEEEE----C-C---EEcCCCCCHHHCCCCCCCEE
Confidence 3567889999999999999999999966665531 1 2 45788899999999999997
No 68
>KOG1887 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=87.78 E-value=0.11 Score=63.95 Aligned_cols=190 Identities=17% Similarity=0.266 Sum_probs=107.2
Q ss_pred cccHHHHHHHHHHHHHHhhcCC--------------------ccccccccccceEEeeeEEeeceeeeccee-eeeeeeE
Q 001246 277 QHDVQELNRVLCEKLEDKMKGT--------------------VVEGTIQQLFEGHHMNYIECINVDYKSTRK-ESFYDLQ 335 (1115)
Q Consensus 277 QqDa~Efl~~Lld~Le~~~~~~--------------------~~~~~i~~lF~g~~~~~i~C~~C~~~s~~~-e~f~~L~ 335 (1115)
-.++.++|..++..|++..... ...+..+++|+-.......|..|...+... ..-+-+.
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 3456667777777766554322 134567889999888899999998765533 1111122
Q ss_pred eeccCCCCHHHHHh-----hcceeEEecCCCccccc----ccCceeeeeeeEeecCCCeEEEEEeeEEeecccCeeeecc
Q 001246 336 LDVKGCRDVYASFD-----KYVEVERLEGDNKYHAE----EHGLQDAKKGVLFIDFPPVLQLQLKRFEYDFMRDAMVKIN 406 (1115)
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 (1115)
+....-..+.-++. .+++. +.-..+..|+ +||+..- -...|.+.|+|++|.|.- ++....|..
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--IRMNDKMLCDKETGGCGKANL-VHHILSPCPPVFTIVLEW-----EKSETEKEI 700 (806)
T ss_pred ccchhhhhHHHHhhhhhHHHHHHH--hhhhhhhcccccCCCCcchhh-hhhhcCCCCCeeEeeeeh-----hcccchHHH
Confidence 22222222222222 22222 1111234453 3775432 334577899999996542 222222221
Q ss_pred --ceeecCCcccCCcccCCCcCCCcCCCccccEEEEEEEEeeccCCCceEEEEEecCCCCCEE--EEeCceeeEe-chHh
Q 001246 407 --DRYEFPLQLDLDRENGKYLSPDADRSVRNLYTLHSVLVHSGGVHGGHYYAFIRPTLSDQWY--KFDDERVTKE-DVKR 481 (1115)
Q Consensus 407 --~~v~fP~~Ldl~~~~~~~l~~~~~~~~~~~Y~L~gVVvH~Gs~~~GHY~ayvr~~~~~~W~--~fnD~~Vt~v-~~~e 481 (1115)
+...+..++|++ ..| ... -.....|+|+++|.-.+. +++|.|+... .+.|. +.+|..+..+ +|.+
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---RLY-REG--LEPNTKYRLVSMVGNHEE--GEEYICFAYE--PNRWVSLRHEDSQGEVVGDWKD 770 (806)
T ss_pred HHHHHHHHhhhhHH---HHh-hhc--cCcCceeEEEEEeeeccc--cceEEEeecc--CCcchhhHHHHHHhhhccchHH
Confidence 122344556763 222 111 123578999999976543 7899999998 57777 9999888777 5667
Q ss_pred HHH
Q 001246 482 ALE 484 (1115)
Q Consensus 482 vl~ 484 (1115)
|+.
T Consensus 771 vvr 773 (806)
T KOG1887|consen 771 VVR 773 (806)
T ss_pred HHH
Confidence 764
No 69
>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=87.31 E-value=0.8 Score=41.32 Aligned_cols=62 Identities=15% Similarity=0.229 Sum_probs=37.2
Q ss_pred EEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccC--CccCccccccCCCCCEEEE
Q 001246 706 YVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHL--DKRTSFRLSQIEDGDIICF 773 (1115)
Q Consensus 706 ~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i--~~~~t~~~~el~~GDIl~f 773 (1115)
|.-.+-++.++++++|...|.+.+++|.+ .+.||-+-. +. ..+ ....|+.+..|.|||+|..
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 22 334 4578999999999999965
No 70
>KOG3556 consensus Familial cylindromatosis protein [General function prediction only]
Probab=86.54 E-value=0.31 Score=56.76 Aligned_cols=30 Identities=17% Similarity=0.440 Sum_probs=22.7
Q ss_pred ccccccCCcccchhhHHHHHhcchhHHHHH
Q 001246 196 YVGLKNQGATCYMNSLLQTLYHIPYFRKAV 225 (1115)
Q Consensus 196 ~~GL~N~GnTCY~NSvLQ~L~~~~~fr~~l 225 (1115)
+.|+.-+-|.||+||.|-++|.-......+
T Consensus 368 ~kgiqgh~nscyldstlf~~f~f~sv~dS~ 397 (724)
T KOG3556|consen 368 IKGIQGHPNSCYLDSTLFKPFEFDSVTDST 397 (724)
T ss_pred cccccCCcchhhcccccccccccccccccc
Confidence 467777789999999999888765554444
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=86.52 E-value=0.29 Score=50.07 Aligned_cols=30 Identities=27% Similarity=0.262 Sum_probs=23.4
Q ss_pred CCCceEEEEEecCCCCCEEEEeCceeeEechH
Q 001246 449 VHGGHYYAFIRPTLSDQWYKFDDERVTKEDVK 480 (1115)
Q Consensus 449 ~~~GHY~ayvr~~~~~~W~~fnD~~Vt~v~~~ 480 (1115)
-..||-+.+.+. .+.||.+||+.+.+.++.
T Consensus 136 ~g~~Havfa~~t--s~gWy~iDDe~~y~~tPd 165 (193)
T PF05408_consen 136 KGQEHAVFACVT--SDGWYAIDDEDFYPWTPD 165 (193)
T ss_dssp ESTTEEEEEEEE--TTCEEEEETTEEEE----
T ss_pred cCCcceEEEEEe--eCcEEEecCCeeeeCCCC
Confidence 346899999998 699999999999998753
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=85.85 E-value=2.6 Score=37.76 Aligned_cols=68 Identities=10% Similarity=0.192 Sum_probs=46.2
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeee
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~ 671 (1115)
...+|++...++.+|+++|++.++++++.+.|+.-....|.. -++.+++ |+.+.. ...+.-+.||.+.
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~----v~l~d~d----le~aws---~~~~~~lTLwC~~ 79 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGED----VILSDTN----MEDVWS---QAKDGCLTLWCTL 79 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCc----cCcChHH----HHHHHH---hhcCCeEEEEEec
Confidence 346899999999999999999999999999987644333332 1343333 343332 2234568899874
No 73
>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=84.22 E-value=4.7 Score=36.70 Aligned_cols=64 Identities=25% Similarity=0.354 Sum_probs=48.1
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEecc-EEEEecCCcccc
Q 001246 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYH-KIYKIFAPNEKI 967 (1115)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~-ki~~~~~~~~~i 967 (1115)
+||+--+. .....-++.|+++.|..||+..+.+++++.+......|+++..+ ...+.+.+++..
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 74
>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=83.95 E-value=2.1 Score=39.24 Aligned_cols=73 Identities=19% Similarity=0.196 Sum_probs=55.6
Q ss_pred CCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCC
Q 001246 687 KDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIE 766 (1115)
Q Consensus 687 ~~~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~ 766 (1115)
+..|.||+|.- ....+. +-|..+++++.|...++++.|+|++.--.+|.= ..|+++.|.....++
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 44567777544 333333 458999999999999999999998765555542 457788999999999
Q ss_pred CCCEEEEE
Q 001246 767 DGDIICFQ 774 (1115)
Q Consensus 767 ~GDIl~fQ 774 (1115)
+||+|-+-
T Consensus 74 d~d~I~v~ 81 (87)
T cd01763 74 DGDEIEVM 81 (87)
T ss_pred CCCEEEEE
Confidence 99999764
No 75
>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=82.35 E-value=6 Score=36.26 Aligned_cols=63 Identities=24% Similarity=0.323 Sum_probs=47.2
Q ss_pred eEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcc
Q 001246 901 NLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNE 965 (1115)
Q Consensus 901 ~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~ 965 (1115)
.+||+.-.. ....--.+.|+++.|+.||+..+.+++++.+......|+++..+...+.+.+++
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 466666442 222344899999999999999999999997666789999998555566666655
No 76
>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=80.62 E-value=2.2 Score=38.35 Aligned_cols=62 Identities=18% Similarity=0.286 Sum_probs=39.0
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEE--EEEEeecCccceeccCCccCccccccCCCCCEEEE
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIE--LYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICF 773 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~--lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~f 773 (1115)
--+.+|.+.+|++|+|.|.+.++.+....-. -|.=.+ ..+ .+++++.|+.++.+.|||+|+-
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 3467899999999999999999986443110 122221 122 3799999999999999999975
No 77
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=80.12 E-value=1.2 Score=52.59 Aligned_cols=76 Identities=25% Similarity=0.463 Sum_probs=60.6
Q ss_pred CCCcEEEEEEcCccCcC-------CCccccCcEEEc--ceEEEEEEEeCCCCC---CceEEEEEecCCCCCCC-CceEEE
Q 001246 50 PPTMKFTWTIENFSRLN-------TKKHYSDVFVVG--GYKWRILIFPKGNNV---DHLSMYLDVADSGTLPY-GWSRYA 116 (1115)
Q Consensus 50 ~~~~~~tw~I~nfs~l~-------~~~~~Sp~F~vG--G~~W~Ill~P~G~~~---~~lSiyL~~~~~~~~~~-~W~~~a 116 (1115)
...|++.|+|.+|+..+ ...+.|+.|... ||.-+..+|-+|++. -++|+|+....++.++. .|...-
T Consensus 277 ~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~ 356 (391)
T KOG0297|consen 277 SYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQ 356 (391)
T ss_pred ccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCC
Confidence 35799999999996543 347889999774 887777777777642 58999999988766554 899999
Q ss_pred EEEEEEEee
Q 001246 117 QFSLAVVNQ 125 (1115)
Q Consensus 117 ~f~l~l~n~ 125 (1115)
+.++.+++|
T Consensus 357 ~v~~~l~dq 365 (391)
T KOG0297|consen 357 KVTLMLLDQ 365 (391)
T ss_pred ceEEEEecc
Confidence 999999998
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=78.74 E-value=5.3 Score=35.36 Aligned_cols=70 Identities=17% Similarity=0.301 Sum_probs=51.8
Q ss_pred EEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCC--CCCCcEEEEEEeecCccceeccCCccCccccccCCCCC
Q 001246 692 LFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGF--DPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGD 769 (1115)
Q Consensus 692 ~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~--p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GD 769 (1115)
||+|..+-.+ -.+-+..+.+|++|...|.+..|+ |++..-.+|. + ..++.+.++....+++|+
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 001246 770 IICFQKS 776 (1115)
Q Consensus 770 Il~fQ~~ 776 (1115)
+|..-..
T Consensus 68 ~i~~~~~ 74 (77)
T cd01805 68 FVVVMVS 74 (77)
T ss_pred EEEEEEe
Confidence 8877643
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=77.65 E-value=9.3 Score=35.64 Aligned_cols=62 Identities=31% Similarity=0.377 Sum_probs=46.8
Q ss_pred eEEEE--EEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEe--ccEEEEecCCcc
Q 001246 901 NLKVA--FHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVF--YHKIYKIFAPNE 965 (1115)
Q Consensus 901 ~~kv~--w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~--~~ki~~~~~~~~ 965 (1115)
.+||+ |+... ..-.++.|+++.|+.|++.++..++|+..+ ....+|.||. .+-..+++..++
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 35665 55542 223489999999999999999999999874 4789999996 444567776666
No 80
>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=76.77 E-value=5.4 Score=34.59 Aligned_cols=68 Identities=15% Similarity=0.277 Sum_probs=52.0
Q ss_pred EEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCE
Q 001246 691 LLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDI 770 (1115)
Q Consensus 691 l~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDI 770 (1115)
-||+|..+-.+- .+.++.+.+|++|...|.+..|.|++..-.+|. + ..++.+.++....+++|+.
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 577787764322 366778899999999999999999886655552 2 3567788999999999998
Q ss_pred EEE
Q 001246 771 ICF 773 (1115)
Q Consensus 771 l~f 773 (1115)
|-.
T Consensus 67 l~l 69 (72)
T cd01809 67 IHL 69 (72)
T ss_pred EEE
Confidence 753
No 81
>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=76.19 E-value=3.2 Score=36.37 Aligned_cols=33 Identities=27% Similarity=0.308 Sum_probs=30.3
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.+..++|+.+|+++|++..|+|++++|||.
T Consensus 12 ~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~ 44 (71)
T cd01796 12 FSLDVDPDLELENFKALCEAESGIPASQQQLIY 44 (71)
T ss_pred EEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEE
Confidence 467888899999999999999999999999985
No 82
>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=76.05 E-value=3.2 Score=36.37 Aligned_cols=33 Identities=15% Similarity=0.279 Sum_probs=29.9
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.+..++|+.+++++|++..|++++++|||.
T Consensus 11 ~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~ 43 (70)
T cd01794 11 VKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFF 43 (70)
T ss_pred EEEEECCcChHHHHHHHHHHHhCCCHHHeEEEE
Confidence 457888899999999999999999999999984
No 83
>PTZ00044 ubiquitin; Provisional
Probab=75.41 E-value=3.5 Score=36.42 Aligned_cols=34 Identities=18% Similarity=0.295 Sum_probs=30.9
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..++++..++|+.+++++|++..|+|++++|||.
T Consensus 12 ~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~ 45 (76)
T PTZ00044 12 KQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIY 45 (76)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE
Confidence 3467889999999999999999999999999993
No 84
>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=75.31 E-value=3.5 Score=36.40 Aligned_cols=33 Identities=21% Similarity=0.275 Sum_probs=30.2
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.+..++|+.+++++|++..|+|++++|||.
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 85
>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=74.98 E-value=7.8 Score=34.84 Aligned_cols=63 Identities=14% Similarity=0.339 Sum_probs=43.8
Q ss_pred eEEEEEecCCCCCCcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhhc
Q 001246 801 QIVRFRALDRPKEDAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLVH 876 (1115)
Q Consensus 801 ~~v~f~~~~~~~~~~f~l~ls~~~~Y~~la~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~ 876 (1115)
|.|+|.- .+.+.+....+|.||.++|+++|++. |++++|.= ...+...-... +...|.+.+..
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 5666663 58999999999999999999999985 78887753 22222211222 35677777754
No 86
>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=74.30 E-value=3.8 Score=35.52 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=29.9
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..+++..++|+.+|+++|++..|++++++||+.
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 87
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=72.86 E-value=13 Score=33.90 Aligned_cols=69 Identities=19% Similarity=0.160 Sum_probs=49.3
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeCC
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~~ 777 (1115)
.-.-++.+.+|++|...|..+.|.|++.....+..-+ ++...+...+...++....+.+|++|-+.-..
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 3467889999999999999999999998765554222 23334344456889999999999999887553
No 88
>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=72.71 E-value=4.2 Score=36.00 Aligned_cols=31 Identities=13% Similarity=0.089 Sum_probs=28.0
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCCceeEE
Q 001246 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1115)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1115)
.+.+..++|+.+|+++|++..|++++++||-
T Consensus 15 ~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi 45 (73)
T cd01791 15 RVKCNPDDTIGDLKKLIAAQTGTRPEKIVLK 45 (73)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHHEEEE
Confidence 4577888999999999999999999999985
No 89
>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=72.70 E-value=5 Score=35.71 Aligned_cols=33 Identities=18% Similarity=0.410 Sum_probs=30.3
Q ss_pred CceEEEEeccccHHHHHHHHHHHhCCCCCceeE
Q 001246 592 KVRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRF 624 (1115)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~ 624 (1115)
...++.+..++|+.+++.+|.+..|+|++++||
T Consensus 13 ~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL 45 (75)
T cd01799 13 VTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW 45 (75)
T ss_pred CeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE
Confidence 345789999999999999999999999999999
No 90
>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=72.68 E-value=4.4 Score=35.74 Aligned_cols=33 Identities=21% Similarity=0.413 Sum_probs=30.0
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.|..++|+.+++++|++..|++++++||+.
T Consensus 13 ~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~ 45 (74)
T cd01807 13 CSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLF 45 (74)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE
Confidence 457888999999999999999999999999973
No 91
>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=72.65 E-value=4.4 Score=35.26 Aligned_cols=33 Identities=27% Similarity=0.350 Sum_probs=29.9
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.+..++|+.++++.|++..|++++++|||.
T Consensus 11 ~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~ 43 (70)
T cd01798 11 FPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIF 43 (70)
T ss_pred EEEEECCCChHHHHHHHHHHHHCCCHHHeEEEE
Confidence 457888999999999999999999999999974
No 92
>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=71.16 E-value=7.5 Score=34.23 Aligned_cols=68 Identities=10% Similarity=0.135 Sum_probs=51.6
Q ss_pred EEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCE
Q 001246 691 LLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDI 770 (1115)
Q Consensus 691 l~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDI 770 (1115)
-||+|..+-.+ + .+-|..+.+|++|...|.+..|+|++..-.+|.- ..++.+.++....|++|+.
T Consensus 2 ~i~vk~~~G~~--~----~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G---------~~L~d~~~L~~~~i~~~~~ 66 (74)
T cd01807 2 FLTVKLLQGRE--C----SLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKG---------KALADDKRLSDYSIGPNAK 66 (74)
T ss_pred EEEEEeCCCCE--E----EEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECC---------EECCCCCCHHHCCCCCCCE
Confidence 46777775432 2 2357889999999999999999998765555542 3467789999999999998
Q ss_pred EEE
Q 001246 771 ICF 773 (1115)
Q Consensus 771 l~f 773 (1115)
|..
T Consensus 67 l~l 69 (74)
T cd01807 67 LNL 69 (74)
T ss_pred EEE
Confidence 854
No 93
>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=70.98 E-value=5.7 Score=34.86 Aligned_cols=33 Identities=24% Similarity=0.342 Sum_probs=29.9
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..+++..+.|+.+|+++|++..|++++++||+.
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~ 45 (76)
T cd01806 13 IEIDIEPTDKVERIKERVEEKEGIPPQQQRLIY 45 (76)
T ss_pred EEEEECCCCCHHHHHHHHhHhhCCChhhEEEEE
Confidence 457888999999999999999999999999983
No 94
>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=70.74 E-value=7 Score=33.70 Aligned_cols=58 Identities=19% Similarity=0.354 Sum_probs=48.0
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEe
Q 001246 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQK 775 (1115)
Q Consensus 709 ~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~ 775 (1115)
.+-|+.+.+|.+|...|.+..|+|++....+|. + ..++...|+....|.+|++|..-.
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 356789999999999999999999987777763 2 235889999999999999987643
No 95
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=70.00 E-value=5.5 Score=34.98 Aligned_cols=33 Identities=24% Similarity=0.365 Sum_probs=29.8
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..+.+..++|+.+|+++|++..|++++++|||.
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 96
>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=69.89 E-value=11 Score=33.11 Aligned_cols=70 Identities=11% Similarity=0.284 Sum_probs=51.8
Q ss_pred EEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEE
Q 001246 692 LFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDII 771 (1115)
Q Consensus 692 ~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl 771 (1115)
|++|-.+-.+ +. +-++.+.+|++|...|.+..|+|++..-.+|. + ..++.+.|+....+++|+.|
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 45788999999999999999999987544453 2 34567789999999999998
Q ss_pred EEEeC
Q 001246 772 CFQKS 776 (1115)
Q Consensus 772 ~fQ~~ 776 (1115)
-+-..
T Consensus 68 ~l~~~ 72 (76)
T cd01806 68 HLVLA 72 (76)
T ss_pred EEEEE
Confidence 76543
No 97
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=69.76 E-value=6.2 Score=33.11 Aligned_cols=34 Identities=29% Similarity=0.463 Sum_probs=30.0
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
...+++..++|+.+|++.|++.+|++++++||+.
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~ 44 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIY 44 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE
Confidence 3457888899999999999999999999999864
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=69.38 E-value=6.9 Score=35.81 Aligned_cols=34 Identities=18% Similarity=0.377 Sum_probs=31.6
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
...++|.+++|+..|++++++..|++++++||+.
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
>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=69.34 E-value=7 Score=34.47 Aligned_cols=57 Identities=7% Similarity=0.098 Sum_probs=45.6
Q ss_pred EEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEe
Q 001246 710 LFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQK 775 (1115)
Q Consensus 710 ~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~ 775 (1115)
+-|..+.+|.+|...|.+..|+|++..-.+|. + ..++.+.++....+++|+.|..-.
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 100
>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=68.27 E-value=7.6 Score=40.13 Aligned_cols=37 Identities=27% Similarity=0.502 Sum_probs=20.9
Q ss_pred CCcccccccccCCcccchhhHHHHHhcc-hhHHHHHcc
Q 001246 191 KKETGYVGLKNQGATCYMNSLLQTLYHI-PYFRKAVYH 227 (1115)
Q Consensus 191 ~~~~g~~GL~N~GnTCY~NSvLQ~L~~~-~~fr~~l~~ 227 (1115)
+....+.|+.|.+|+|++||++|.+-.. .+|-+.+|.
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 3444567999999999999999997543 245455553
No 101
>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=68.21 E-value=6.7 Score=34.01 Aligned_cols=34 Identities=35% Similarity=0.686 Sum_probs=30.5
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..++++..+.|+.+|+++|++..|++++++||+.
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 102
>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=67.12 E-value=9.7 Score=34.18 Aligned_cols=49 Identities=27% Similarity=0.420 Sum_probs=38.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCCccccCcccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~~~~~~l~~~~~~ 1069 (1115)
|-.|.+.+.++.|++++|+.|+++.|++. ++.|+.++..+ +-|.|+..+
T Consensus 12 G~~~~~~v~~~~TV~~lK~~I~~~~~i~~---~~qrL~~~~~G--~~L~D~~tL 60 (80)
T cd01792 12 GNEFLVSLRDSMTVSELKQQIAQKIGVPA---FQQRLAHLDSR--EVLQDGVPL 60 (80)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHhCCCH---HHEEEEeccCC--CCCCCCCCH
Confidence 88999999999999999999999999866 56677655433 346666543
No 103
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=66.02 E-value=17 Score=33.16 Aligned_cols=59 Identities=15% Similarity=0.183 Sum_probs=40.9
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEec
Q 001246 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIF 961 (1115)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~ 961 (1115)
|+|....+.... ...+..+|++.||++|..+|.+.+|.+.+.-+|.++...++.....+
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 34579999999999999999999999877767766633333333333
No 104
>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=65.92 E-value=7.6 Score=33.91 Aligned_cols=32 Identities=19% Similarity=0.316 Sum_probs=28.8
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
++.+..++|+.+|+++|++..|++++++||+.
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 105
>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=65.03 E-value=18 Score=32.95 Aligned_cols=68 Identities=15% Similarity=0.080 Sum_probs=47.1
Q ss_pred eEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEE-EEeccEEEEecCCcccccc
Q 001246 901 NLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLL-EVFYHKIYKIFAPNEKIEN 969 (1115)
Q Consensus 901 ~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~-~i~~~ki~~~~~~~~~i~~ 969 (1115)
.+||+--...... ..-.+.|+++.|+.||+..+.+++++.+......|| ....+...+.+.+++..-.
T Consensus 4 ~lrVy~~~~~~~~-~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~ 72 (93)
T PF00788_consen 4 VLRVYDGDGSPGS-TYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQ 72 (93)
T ss_dssp EEEEEETTSSSCC-SEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHH
T ss_pred EEEEEcCCCCCCc-cEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHH
Confidence 3566654433222 234799999999999999999999995566789998 3445556667766664433
No 106
>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=64.92 E-value=9 Score=33.00 Aligned_cols=31 Identities=26% Similarity=0.516 Sum_probs=28.6
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
|--|.|.+.+.+|+.++|++|.+++|++..+
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 107
>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=64.71 E-value=8.3 Score=34.24 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=30.6
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..++.+..++|+.+|+++|....|+|+++++|+.
T Consensus 9 ~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~ 42 (76)
T cd01800 9 MLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQY 42 (76)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE
Confidence 3457888899999999999999999999999985
No 108
>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=64.70 E-value=9.1 Score=33.29 Aligned_cols=54 Identities=11% Similarity=0.236 Sum_probs=43.4
Q ss_pred EEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEE
Q 001246 710 LFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIIC 772 (1115)
Q Consensus 710 ~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~ 772 (1115)
+-+..+.+|+++...|.+..|+|++..-.+|. + .+++.+.++....+++|.+|-
T Consensus 13 ~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~------G---~~L~d~~~l~~~~i~~~stl~ 66 (70)
T cd01798 13 VEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFA------G---KELRNTTTIQECDLGQQSILH 66 (70)
T ss_pred EEECCCChHHHHHHHHHHHHCCCHHHeEEEEC------C---eECCCCCcHHHcCCCCCCEEE
Confidence 45788999999999999999999875544443 2 347788999999999999873
No 109
>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=64.44 E-value=9.3 Score=34.01 Aligned_cols=33 Identities=12% Similarity=0.200 Sum_probs=30.3
Q ss_pred cCCccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1014 NFGEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1014 ~fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
++|-.+.+.+.+..|++++|++|.++.|++...
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 110
>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=64.26 E-value=8.4 Score=32.79 Aligned_cols=31 Identities=35% Similarity=0.480 Sum_probs=28.9
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
|.++.+.+.+++|+.++|++|.+++|++...
T Consensus 7 ~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~ 37 (69)
T cd01769 7 GKTFELEVSPDDTVAELKAKIAAKEGVPPEQ 37 (69)
T ss_pred CCEEEEEECCCChHHHHHHHHHHHHCcChHH
Confidence 8999999999999999999999999987765
No 111
>PTZ00044 ubiquitin; Provisional
Probab=63.92 E-value=10 Score=33.48 Aligned_cols=31 Identities=19% Similarity=0.192 Sum_probs=28.8
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
|..+.+.+.+.+|.+++|++|+++.|++..+
T Consensus 10 G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~ 40 (76)
T PTZ00044 10 GKKQSFNFEPDNTVQQVKMALQEKEGIDVKQ 40 (76)
T ss_pred CCEEEEEECCCCcHHHHHHHHHHHHCCCHHH
Confidence 8889999999999999999999999998754
No 112
>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=63.56 E-value=59 Score=30.95 Aligned_cols=66 Identities=26% Similarity=0.350 Sum_probs=54.3
Q ss_pred eccChhhhccCceEEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCC---CCccEEEEEEecc
Q 001246 889 LDIPLPELQGLKNLKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSH---PNAELRLLEVFYH 955 (1115)
Q Consensus 889 L~i~l~elE~~k~~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~---~~~~lrl~~i~~~ 955 (1115)
|+.|-.+||=.--+++++...+- ++..--+.|+-+.|+.++++.|.+|+.... +..+.-||+++..
T Consensus 11 ~s~p~e~lef~gvmrf~~qd~~~-k~atK~VrVsS~~tt~eVI~~LLeKFk~d~~~~s~p~FALYevh~n 79 (112)
T cd01782 11 LSYPTEDLEFHGVMRFYFQDGGE-KVATKCIRVSSTATTRDVIDTLSEKFRPDMRMLSNPTYSLYEVHEN 79 (112)
T ss_pred ecCCCcccEEeeEEEEEEEcCCC-cEEEEEEEEecCCCHHHHHHHHHHHhcccccccCCcceEEEEEecC
Confidence 78888899999999999998884 466667999999999999999999998541 2348888988743
No 113
>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=63.41 E-value=9.8 Score=34.62 Aligned_cols=37 Identities=11% Similarity=0.207 Sum_probs=32.6
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEEEeec
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKR 630 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~ 630 (1115)
...|+++++|+.+|++++...+|++++.+||..+..+
T Consensus 15 ~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 15 FEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred eeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 4578999999999999999999999999999776544
No 114
>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=63.12 E-value=8 Score=34.59 Aligned_cols=32 Identities=13% Similarity=0.257 Sum_probs=28.5
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1115)
.++.+..++|+.+|+++|++..|++++++||-
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~ 45 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKERLALL 45 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChHHEEEE
Confidence 45788888999999999999999999999885
No 115
>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=62.91 E-value=10 Score=32.18 Aligned_cols=33 Identities=24% Similarity=0.361 Sum_probs=29.1
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..+++..++|+.+|++.|++..|+++++++||.
T Consensus 10 ~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~ 42 (69)
T cd01769 10 FELEVSPDDTVAELKAKIAAKEGVPPEQQRLIY 42 (69)
T ss_pred EEEEECCCChHHHHHHHHHHHHCcChHHEEEEE
Confidence 356788889999999999999999999999854
No 116
>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=62.70 E-value=10 Score=33.60 Aligned_cols=45 Identities=16% Similarity=0.149 Sum_probs=35.0
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCCccccCcc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTD 1067 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~~~~~~l~~~~ 1067 (1115)
|.+|.+.+.+..|++++|++|+++.|++.. +.|+. .. ++.|.|+.
T Consensus 11 Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~---~qrLi--~~--Gk~L~D~~ 55 (73)
T cd01791 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRPE---KIVLK--KW--YTIFKDHI 55 (73)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCChH---HEEEE--eC--CcCCCCCC
Confidence 999999999999999999999999998764 34543 22 34466654
No 117
>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=62.65 E-value=8.9 Score=33.82 Aligned_cols=33 Identities=9% Similarity=0.140 Sum_probs=29.9
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1115)
..++.+..++|+.+++++|++..|++++++||+
T Consensus 10 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~ 42 (74)
T cd01810 10 SSIYEVQLTQTVATLKQQVSQRERVQADQFWLS 42 (74)
T ss_pred EEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE
Confidence 346788899999999999999999999999997
No 118
>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=61.57 E-value=9.9 Score=36.07 Aligned_cols=33 Identities=24% Similarity=0.352 Sum_probs=30.2
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.++.+..++|+.+|+++|++..|++++++|||.
T Consensus 40 ~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~ 72 (103)
T cd01802 40 FELRVSPFETVISVKAKIQRLEGIPVAQQHLIW 72 (103)
T ss_pred EEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE
Confidence 457888999999999999999999999999984
No 119
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=61.54 E-value=20 Score=32.91 Aligned_cols=68 Identities=19% Similarity=0.142 Sum_probs=42.0
Q ss_pred CceEEEEeccccHHHHHHHHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeee
Q 001246 592 KVRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1115)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~ 671 (1115)
.+.+-...+.+|+..+...+.+.|.+ .+..|||.... .|+.-+ |. ..++||+++.- .....|.+|+
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 77799998653 333222 21 22456665321 1245788888
Q ss_pred ec
Q 001246 672 EF 673 (1115)
Q Consensus 672 ~~ 673 (1115)
..
T Consensus 80 rn 81 (88)
T PF14836_consen 80 RN 81 (88)
T ss_dssp --
T ss_pred ec
Confidence 64
No 120
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=61.47 E-value=9.5 Score=33.45 Aligned_cols=31 Identities=26% Similarity=0.439 Sum_probs=28.5
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
|-.|.+.+.+.+|.+++|++|++++|++..+
T Consensus 10 g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~ 40 (76)
T cd01803 10 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQ 40 (76)
T ss_pred CCEEEEEECCcCcHHHHHHHHHHHhCCCHHH
Confidence 8889999999999999999999999998753
No 121
>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=60.11 E-value=8.5 Score=34.54 Aligned_cols=31 Identities=23% Similarity=0.412 Sum_probs=27.3
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCCceeEE
Q 001246 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFW 625 (1115)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w 625 (1115)
++.+..+.|+.+|+++|++..|++++++||-
T Consensus 16 ~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~ 46 (80)
T cd01792 16 LVSLRDSMTVSELKQQIAQKIGVPAFQQRLA 46 (80)
T ss_pred EEEcCCCCcHHHHHHHHHHHhCCCHHHEEEE
Confidence 3566778899999999999999999999983
No 122
>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=59.40 E-value=10 Score=33.59 Aligned_cols=32 Identities=16% Similarity=0.154 Sum_probs=28.5
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.+.+..++|+.+|+++|++..|+|+++++|-.
T Consensus 13 ~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~ 44 (74)
T cd01813 13 SVTTLSEDTVLDLKQFIKTLTGVLPERQKLLG 44 (74)
T ss_pred EEEECCCCCHHHHHHHHHHHHCCCHHHEEEEe
Confidence 45777788999999999999999999999864
No 123
>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=59.17 E-value=27 Score=31.31 Aligned_cols=56 Identities=16% Similarity=0.242 Sum_probs=46.7
Q ss_pred EecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeC
Q 001246 712 LKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKS 776 (1115)
Q Consensus 712 v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~ 776 (1115)
+..+.+|+++...|.+..|+|++..-.+|. + ..++.+.++....|++|++|.....
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 124
>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=58.70 E-value=13 Score=33.01 Aligned_cols=36 Identities=22% Similarity=0.287 Sum_probs=30.8
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEE
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAF 1054 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai 1054 (1115)
|.-|-+.+.+++|++++|++|++++||+.. +-|+-.
T Consensus 9 g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~---~QKLi~ 44 (74)
T cd01813 9 GQEYSVTTLSEDTVLDLKQFIKTLTGVLPE---RQKLLG 44 (74)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHCCCHH---HEEEEe
Confidence 777889999999999999999999999874 566543
No 125
>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=58.54 E-value=15 Score=34.34 Aligned_cols=35 Identities=17% Similarity=0.172 Sum_probs=31.7
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIW 627 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~ 627 (1115)
..++.|..++|+.+|+.+|.+.+++++++++||.-
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 35678899999999999999999999999999874
No 126
>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=58.42 E-value=17 Score=31.84 Aligned_cols=56 Identities=14% Similarity=0.255 Sum_probs=44.3
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCc-cCccccccCCCCCEEEE
Q 001246 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDK-RTSFRLSQIEDGDIICF 773 (1115)
Q Consensus 709 ~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~-~~t~~~~el~~GDIl~f 773 (1115)
.+-|+.+.+|++|...|.+.-|+|++..-.+|.- ..++. ..++....+++|+.|..
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~G---------k~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 13 SLDVDPDLELENFKALCEAESGIPASQQQLIYNG---------RELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred EEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECC---------eEccCCcccHHHcCCCCCCEEEE
Confidence 3667888999999999999999999876666542 23444 46788899999999875
No 127
>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=57.75 E-value=12 Score=32.73 Aligned_cols=47 Identities=19% Similarity=0.283 Sum_probs=37.0
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCCccccCcccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDTV 1069 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~~~~~~l~~~~~~ 1069 (1115)
|-.|.+.+.+.+|+.++|++|+++.|++..+. |+ +..++ -|+|+..+
T Consensus 8 G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q---~L--i~~G~--~L~D~~~l 54 (70)
T cd01794 8 GKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQ---RW--FFSGK--LLTDKTRL 54 (70)
T ss_pred CCEEEEEECCcChHHHHHHHHHHHhCCCHHHe---EE--EECCe--ECCCCCCH
Confidence 99999999999999999999999999988653 33 33344 47776544
No 128
>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=57.40 E-value=25 Score=33.33 Aligned_cols=74 Identities=15% Similarity=0.199 Sum_probs=56.0
Q ss_pred CCcEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCC
Q 001246 687 KDDILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIE 766 (1115)
Q Consensus 687 ~~~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~ 766 (1115)
.+.+-||+|..+-.+-. +.|..+.+|++|...|.++-|+|++..-.+|.- ..++.+.++....|+
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 347778899999999
Q ss_pred CCCEEEEEe
Q 001246 767 DGDIICFQK 775 (1115)
Q Consensus 767 ~GDIl~fQ~ 775 (1115)
+|+.|-...
T Consensus 90 ~~stL~l~~ 98 (103)
T cd01802 90 EGCTLKLVL 98 (103)
T ss_pred CCCEEEEEE
Confidence 999886543
No 129
>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=56.26 E-value=9.9 Score=34.08 Aligned_cols=29 Identities=21% Similarity=0.408 Sum_probs=26.5
Q ss_pred EeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 598 VQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 598 ~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
+..++|+.+|+++|++..|++++++|||.
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~QrLi~ 47 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQRLFY 47 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeEEEe
Confidence 56678999999999999999999999985
No 130
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=55.36 E-value=68 Score=29.57 Aligned_cols=66 Identities=12% Similarity=0.190 Sum_probs=45.0
Q ss_pred EeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccC-CccCccccccCCCCCEEEEEeCC
Q 001246 707 VGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHL-DKRTSFRLSQIEDGDIICFQKSP 777 (1115)
Q Consensus 707 ~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i-~~~~t~~~~el~~GDIl~fQ~~~ 777 (1115)
+-+...++.++|+.+...+++++..+ ++..||--- .++.- |.+ ++..|+..+.|.+|..|+++...
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i~--~E~RLW~~~--~~~~~-e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNIQ--EETRLWNKY--SENSY-ELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT-T--S-EEEEEEC--TTTCE-EEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred HhHhhccccChHHHHHHHHHHHhCCC--ccceehhcc--CCcch-hhhCCCCccHHHccCcCCCEEEEEeec
Confidence 44556789999999999999999995 445666543 24433 665 55789999999999999999774
No 131
>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=55.06 E-value=19 Score=31.26 Aligned_cols=35 Identities=14% Similarity=0.232 Sum_probs=30.8
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEE
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKF 1052 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kf 1052 (1115)
|.++.|.|++..+|+.+.++++++.|++.. ++++|
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 889999999999999999999999999996 45555
No 132
>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=54.63 E-value=17 Score=31.98 Aligned_cols=33 Identities=24% Similarity=0.356 Sum_probs=29.0
Q ss_pred eEEEEeccccHHHHHHHHHHHhCC--CCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGI--PIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~r~w~ 626 (1115)
.++.+..++|+.+|++.|++..|+ +++++||+.
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 133
>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=54.08 E-value=13 Score=38.12 Aligned_cols=28 Identities=25% Similarity=0.548 Sum_probs=25.5
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001246 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1115)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rlg 1041 (1115)
.-||.||++.++ |.+..++-.-+++|++
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 134
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=52.98 E-value=17 Score=30.30 Aligned_cols=28 Identities=25% Similarity=0.345 Sum_probs=25.4
Q ss_pred cEEEEecCCCCHHHHHHHHHHHhCCCcc
Q 001246 1018 PFFLVIHEGETLAEVKERIQRKLQVLDE 1045 (1115)
Q Consensus 1018 PF~~~v~~~E~~~~~k~Rl~~rlgv~~k 1045 (1115)
.+-+.|.++.|++++|++|++++|++..
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~ 38 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVE 38 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHH
Confidence 5678899999999999999999999765
No 135
>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=51.83 E-value=21 Score=32.44 Aligned_cols=25 Identities=16% Similarity=0.288 Sum_probs=22.7
Q ss_pred EEEecCCCCHHHHHHHHHHHhCCCc
Q 001246 1020 FLVIHEGETLAEVKERIQRKLQVLD 1044 (1115)
Q Consensus 1020 ~~~v~~~E~~~~~k~Rl~~rlgv~~ 1044 (1115)
.|++.++.+|.++++.|++|+++.+
T Consensus 13 r~~l~~~~~~~~L~~~i~~r~~~~~ 37 (82)
T cd06407 13 RFRLPPSWGFTELKQEIAKRFKLDD 37 (82)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCC
Confidence 5888899999999999999999864
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=49.97 E-value=20 Score=32.09 Aligned_cols=30 Identities=37% Similarity=0.554 Sum_probs=27.9
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCcc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDE 1045 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~k 1045 (1115)
|-+|-+.+.+..|++++|++|+++.|++..
T Consensus 11 G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~ 40 (78)
T cd01804 11 GTRFDLSVPPDETVEGLKKRISQRLKVPKE 40 (78)
T ss_pred CCEEEEEECCcCHHHHHHHHHHHHhCCChH
Confidence 889999999999999999999999998763
No 137
>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=48.36 E-value=22 Score=28.34 Aligned_cols=32 Identities=31% Similarity=0.546 Sum_probs=27.9
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCcccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEF 1047 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef 1047 (1115)
|..+.+.+.++.|+.++++.|.+++|++..++
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~ 38 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLPPEQQ 38 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcChHHe
Confidence 88889999999999999999999999665443
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=48.11 E-value=21 Score=30.80 Aligned_cols=31 Identities=23% Similarity=0.269 Sum_probs=28.5
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
|-.+-+.+.+.+|+.++|+.|+++.|++...
T Consensus 9 g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~ 39 (71)
T cd01812 9 GESHDLSISSQATFGDLKKMLAPVTGVEPRD 39 (71)
T ss_pred CEEEEEEECCCCcHHHHHHHHHHhhCCChHH
Confidence 7788899999999999999999999998865
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=46.75 E-value=83 Score=28.57 Aligned_cols=66 Identities=11% Similarity=0.142 Sum_probs=42.1
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcccccc
Q 001246 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNEKIEN 969 (1115)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~ 969 (1115)
++|....+.- ....+..+|+..||.+|.+++.+.+|.+.+..+|.++...+..+..+-+.+..+..
T Consensus 2 v~v~i~~~~~--~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~ 67 (84)
T cd01789 2 VTVNITSSAD--SFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGS 67 (84)
T ss_pred EEEEEEeCCC--ceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeee
Confidence 3455555442 23457889999999999999999999987665555555444444333333334443
No 140
>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=46.46 E-value=44 Score=31.36 Aligned_cols=64 Identities=8% Similarity=0.018 Sum_probs=52.8
Q ss_pred EEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeCC
Q 001246 706 YVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1115)
Q Consensus 706 ~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~~ 777 (1115)
+--++.|+.+++|.+|...|.+..|.|++..-.+|. . . +..|...|+....|..|.+|+-=...
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 344667999999999999999999999987766655 2 1 56788899999999999999987653
No 141
>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=46.26 E-value=52 Score=39.82 Aligned_cols=66 Identities=12% Similarity=0.148 Sum_probs=48.8
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCC--CCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeCC
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDP--DEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKSP 777 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~--dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~~ 777 (1115)
--+.+|.+..+.||+|.|.+.+|-.. .+.=.-|.=.+ ++. .+++++.|+.+..+.|||+|..++..
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 58999999999999999999999854
No 142
>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=45.50 E-value=30 Score=30.42 Aligned_cols=56 Identities=13% Similarity=0.195 Sum_probs=45.7
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEE
Q 001246 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICF 773 (1115)
Q Consensus 709 ~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~f 773 (1115)
.+-|..+.+|+++...|.+.-|+|++..-.+|. + ..++...|+....+++|++|-.
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 356788999999999999999999887766654 2 3477889999999999998743
No 143
>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=44.61 E-value=52 Score=28.93 Aligned_cols=39 Identities=13% Similarity=0.090 Sum_probs=31.7
Q ss_pred cCCccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEE
Q 001246 1014 NFGEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKF 1052 (1115)
Q Consensus 1014 ~fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kf 1052 (1115)
.+|.+=++.+++|+|..|.-.++-+|-|+......=+..
T Consensus 8 P~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~ 46 (71)
T PF02196_consen 8 PNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLV 46 (71)
T ss_dssp TTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEE
T ss_pred CCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEc
Confidence 458999999999999999999999999999988776643
No 144
>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=43.62 E-value=30 Score=30.66 Aligned_cols=32 Identities=9% Similarity=0.198 Sum_probs=28.7
Q ss_pred CCccEEEEecCCCCHHHHHHHHHHHhCCCccc
Q 001246 1015 FGEPFFLVIHEGETLAEVKERIQRKLQVLDEE 1046 (1115)
Q Consensus 1015 fG~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ke 1046 (1115)
=|.-|-+.+.++.|+.++|++|+...|++...
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 145
>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=42.70 E-value=27 Score=31.50 Aligned_cols=29 Identities=24% Similarity=0.376 Sum_probs=21.8
Q ss_pred EEEEecCCCCHHHHHHHHHHHhCCCcccc
Q 001246 1019 FFLVIHEGETLAEVKERIQRKLQVLDEEF 1047 (1115)
Q Consensus 1019 F~~~v~~~E~~~~~k~Rl~~rlgv~~kef 1047 (1115)
|.+.+.++.|++++++.|++.++++...|
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 57889999999999999999999998744
No 146
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=42.67 E-value=70 Score=30.02 Aligned_cols=59 Identities=14% Similarity=0.197 Sum_probs=47.0
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCCCEEEEEeC
Q 001246 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDGDIICFQKS 776 (1115)
Q Consensus 709 ~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~GDIl~fQ~~ 776 (1115)
++-|.++.+++.|+..-+++.|++-++==-+|. + ..|+...|-.+.+..+||.||+=.+
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 445889999999999999999999765434443 2 4678888999999999999998544
No 147
>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=42.13 E-value=81 Score=28.36 Aligned_cols=68 Identities=9% Similarity=0.142 Sum_probs=46.3
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEee
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLE 670 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le 670 (1115)
..+++++..++.+|...|++.|+.+++...|+......++-. .|+..+ ..|+++... ..+..+.||+.
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 357889999999999999999999999999987543332111 234312 256666532 23456788875
No 148
>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=39.94 E-value=47 Score=29.53 Aligned_cols=29 Identities=10% Similarity=0.342 Sum_probs=26.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLD 1044 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~ 1044 (1115)
|.-+.|.+.++-+|.+++.+|++++++..
T Consensus 10 ~~~~~~~~~~~~s~~dL~~~i~~~~~~~~ 38 (81)
T smart00666 10 GETRRLSVPRDISFEDLRSKVAKRFGLDN 38 (81)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHhCCCC
Confidence 56778999999999999999999999876
No 149
>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=38.77 E-value=30 Score=35.53 Aligned_cols=28 Identities=25% Similarity=0.597 Sum_probs=23.6
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001246 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1115)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rlg 1041 (1115)
.-||.||++.|+ |-+-.++-.-+++|++
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 150
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=36.47 E-value=34 Score=35.47 Aligned_cols=28 Identities=25% Similarity=0.542 Sum_probs=23.4
Q ss_pred ccCCccEEEEecCCCCHHHHHHHHHHHhC
Q 001246 1013 QNFGEPFFLVIHEGETLAEVKERIQRKLQ 1041 (1115)
Q Consensus 1013 ~~fG~PF~~~v~~~E~~~~~k~Rl~~rlg 1041 (1115)
.-||.||++.++ |-+-.++-.-+++|++
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 151
>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=35.48 E-value=63 Score=29.73 Aligned_cols=34 Identities=9% Similarity=0.159 Sum_probs=30.4
Q ss_pred EEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEE
Q 001246 709 RLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEE 742 (1115)
Q Consensus 709 ~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEE 742 (1115)
.+.|+.+.++++++..|++++++++...|-+|=.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvn 52 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYIN 52 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEEC
Confidence 3558999999999999999999999999988864
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=34.96 E-value=83 Score=28.30 Aligned_cols=34 Identities=6% Similarity=0.105 Sum_probs=29.1
Q ss_pred cEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEec
Q 001246 815 AFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTP 849 (1115)
Q Consensus 815 ~f~l~ls~~~~Y~~la~~va~~l~~~~p~~lr~~~ 849 (1115)
.|.+.+....+|.+|...|+++|++ .|++++|-=
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l-~~~~~~LSY 41 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQ-QAQRGQLSY 41 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcC-ChhhcEEEe
Confidence 3778888999999999999999997 488888753
No 153
>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=34.80 E-value=52 Score=26.06 Aligned_cols=33 Identities=30% Similarity=0.519 Sum_probs=28.5
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
..+++...+|+.+++..+++.+|++++.++|+.
T Consensus 10 ~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~ 42 (69)
T cd00196 10 VELLVPSGTTVADLKEKLAKKLGLPPEQQRLLV 42 (69)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEE
Confidence 456777789999999999999999999998865
No 154
>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=33.88 E-value=1.8e+02 Score=26.34 Aligned_cols=62 Identities=13% Similarity=0.210 Sum_probs=40.3
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhcc-CCCCCccEEEEEEeccEEEEecCCccccccc
Q 001246 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVE-LSHPNAELRLLEVFYHKIYKIFAPNEKIENI 970 (1115)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~-~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~i 970 (1115)
++++.-.++.+. -.+++-++.+.||.||.+.+.+..+ .++ ..+.|| |+.|| ++..+.++.+.
T Consensus 2 i~l~IK~~~~~~-~~~~ve~~~~~TV~~lK~~i~~~~~~~~~-~~~QrL--Iy~GK---iLkD~~tL~~~ 64 (79)
T cd01790 2 VTLLIKSPNQKY-EDQTVSCFLNWTVGELKTHLSRVYPSKPL-EQDQRL--IYSGK---LLPDHLKLRDV 64 (79)
T ss_pred eEEEEECCCCCe-EEEEEecCCcChHHHHHHHHHHhcCCCCC-hhHeEE--EEcCe---eccchhhHHHH
Confidence 556665655543 2345666889999999999988774 222 234555 57786 45677777665
No 155
>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=31.28 E-value=1.2e+02 Score=27.82 Aligned_cols=54 Identities=11% Similarity=0.222 Sum_probs=36.3
Q ss_pred CcEEEEEcCCCCHHHHHHHHHHHhCCCCCCceEEecccccCCCCCCCCccccCcchHHHhhh
Q 001246 814 DAFCLELSKQHSYDEVVERVARKIGLDDPSKIRLTPHNCYSQQPKPQPIKYRGVEHLSDMLV 875 (1115)
Q Consensus 814 ~~f~l~ls~~~~Y~~la~~va~~l~~~~p~~lr~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 875 (1115)
+-..+.+...++|.+|.++|-+++++..|-.|+ |. ..+.+.+ ..+..-|...+.
T Consensus 12 Dv~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iK-yk-----DEGD~it--i~sq~DLd~Ai~ 65 (86)
T cd06408 12 DTRYIMIGPDTGFADFEDKIRDKFGFKRRLKIK-MK-----DDGDMIT--MGDQDDLDMAID 65 (86)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHhCCCCceEEE-EE-----cCCCCcc--ccCHHHHHHHHH
Confidence 468999999999999999999999986444444 22 2233333 334455666664
No 156
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=30.83 E-value=69 Score=30.56 Aligned_cols=52 Identities=17% Similarity=0.190 Sum_probs=33.2
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEec-----CCCccccCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSL-----GRPEYLVDTDT 1068 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~-----~~~~~l~~~~~ 1068 (1115)
|.-=.|.|..=-+-.++++|+.+|||+++ ....|-|.++.. +....|.|.++
T Consensus 10 G~tk~VNV~~c~~a~eI~~rvLKKfg~~~-~~~~~~~~v~d~~~~~~~~~~~LsD~EL 66 (105)
T PF14847_consen 10 GSTKTVNVSGCFNAQEIKRRVLKKFGLPE-HPRNYCFYVLDGESPDPSNCRPLSDVEL 66 (105)
T ss_dssp TEEEEEE--S--HHHHHHHHHHHHHTSS---CCCEEEEEE-S-----SSEEEE-SSHH
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHcCCcc-ccccceEEEecccccccccceECcHHHH
Confidence 33334555555578899999999999999 899999999865 22456666654
No 157
>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=30.35 E-value=1.3e+02 Score=27.05 Aligned_cols=38 Identities=18% Similarity=0.309 Sum_probs=33.1
Q ss_pred EeEEEEecCCChhHHHHHHHHhcCCC-CCCcEEEEEEee
Q 001246 707 VGRLFLKSSSKPIEILRKLNQMAGFD-PDEEIELYEEIK 744 (1115)
Q Consensus 707 ~g~~~v~~~~~i~~l~~~i~~~~g~p-~dt~l~lyEEik 744 (1115)
.-++.|+.+.+.+++++.+.++.|+. ....-.|||.+.
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 158
>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=29.97 E-value=1.3e+02 Score=27.14 Aligned_cols=62 Identities=23% Similarity=0.270 Sum_probs=41.5
Q ss_pred EEEEeccccHHHHHHHHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeee
Q 001246 595 SFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEV 671 (1115)
Q Consensus 595 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~ 671 (1115)
.-|...+.++++++.-|... |.+++.++|- |.=|.+.+...+.++||.++. ..+.-.||||.
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 233555665445567888864 11345788885
No 159
>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=28.89 E-value=92 Score=29.67 Aligned_cols=33 Identities=6% Similarity=0.233 Sum_probs=27.2
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEE
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELY 740 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~ly 740 (1115)
..+.|+.+.+|++++-.|++++.+++++.|-||
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 456689999999999999999999999999887
No 160
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=28.53 E-value=47 Score=28.45 Aligned_cols=34 Identities=15% Similarity=0.281 Sum_probs=23.9
Q ss_pred CcccccccCceeee-eeeEe--ecCCCeEEEEEeeEE
Q 001246 361 NKYHAEEHGLQDAK-KGVLF--IDFPPVLQLQLKRFE 394 (1115)
Q Consensus 361 n~y~C~~c~~~~a~-k~~~i--~~lP~vL~i~LkRF~ 394 (1115)
+.+.|.+||..... |.+.. ..+.+++-||.++|-
T Consensus 3 ~~~kCpKCgn~~~~ekei~~tg~~lskifdvq~n~f~ 39 (68)
T COG3478 3 NAFKCPKCGNTNYEEKEIAATGGGLSKIFDVQNNKFI 39 (68)
T ss_pred ccccCCCcCCcchhhceeeccCCCcceeEEecccEEE
Confidence 45679999865443 22222 358899999999996
No 161
>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=28.44 E-value=1.8e+02 Score=27.50 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=32.5
Q ss_pred EEEcCCCCCHHHHHHHHHhhccCCCC-CccEEEEEEe
Q 001246 918 NIRLPKQSTVGDVINELKTKVELSHP-NAELRLLEVF 953 (1115)
Q Consensus 918 ~~~v~k~~tv~dll~~l~~~~~~~~~-~~~lrl~~i~ 953 (1115)
+++|..+.++.+++.++..|+++.++ .....|.+|.
T Consensus 19 SIlvt~~~~a~~vV~eALeKygL~~e~p~~Y~LveV~ 55 (100)
T cd01781 19 TILLSINDNADRIVGEALEKYGLEKSDPDDYCLVEVS 55 (100)
T ss_pred EEEecCCccHHHHHHHHHHHhCCCccCccceEEEEEe
Confidence 79999999999999999999999875 5689999985
No 162
>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=27.79 E-value=77 Score=27.52 Aligned_cols=45 Identities=27% Similarity=0.389 Sum_probs=33.0
Q ss_pred CccEEEEecCCCCHHHHHHHHHHHhCCCccccceeEEEEEecCCCccccCccc
Q 001246 1016 GEPFFLVIHEGETLAEVKERIQRKLQVLDEEFSKWKFAFLSLGRPEYLVDTDT 1068 (1115)
Q Consensus 1016 G~PF~~~v~~~E~~~~~k~Rl~~rlgv~~kef~k~Kfai~~~~~~~~l~~~~~ 1068 (1115)
| ++.+.+.+..|.+++|+.|+++.|++..++ + ++..+ +-|.|+..
T Consensus 10 g-~~~l~v~~~~TV~~lK~~I~~~~~i~~~~~---~--Li~~G--k~L~d~~t 54 (71)
T cd01808 10 D-KEEIEIAEDASVKDFKEAVSKKFKANQEQL---V--LIFAG--KILKDTDT 54 (71)
T ss_pred C-CEEEEECCCChHHHHHHHHHHHhCCCHHHE---E--EEECC--eEcCCCCc
Confidence 6 578999999999999999999999876444 3 23333 34666543
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=27.63 E-value=1.4e+02 Score=27.02 Aligned_cols=63 Identities=17% Similarity=0.173 Sum_probs=42.3
Q ss_pred EEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCC-CcEEEEEEeecCccceeccCCcc
Q 001246 693 FFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPD-EEIELYEEIKFEPCVMCEHLDKR 757 (1115)
Q Consensus 693 FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~d-t~l~lyEEik~~p~~~ie~i~~~ 757 (1115)
++|.|+.....=.-.-++.|+.+.++.+++..+.+++|++.+ ..-.|||... ..+ ....+.++
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~-~~~-~er~L~~~ 67 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEE-SGG-EERPLDDD 67 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEEC-TTT-EEEEETTT
T ss_pred EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEc-CCC-EEEEcCCC
Confidence 567776654432245678899999999999999999999333 5578875543 233 32445543
No 164
>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=27.57 E-value=1.9e+02 Score=25.67 Aligned_cols=77 Identities=12% Similarity=0.099 Sum_probs=52.3
Q ss_pred cEEEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEEeecCccceeccCCccCccccccCCCC
Q 001246 689 DILLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIEDG 768 (1115)
Q Consensus 689 ~il~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~G 768 (1115)
.+.|=+|+-|-. ++ ......+++|++|...|...++-+......|+--. |...+...+ +.||..+.|..+
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 355666665543 22 12235899999999999998887765546665433 654444444 689999999999
Q ss_pred CEEEEEe
Q 001246 769 DIICFQK 775 (1115)
Q Consensus 769 DIl~fQ~ 775 (1115)
..|+.++
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 165
>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=26.88 E-value=96 Score=29.97 Aligned_cols=35 Identities=9% Similarity=0.203 Sum_probs=30.9
Q ss_pred eEEEEecCCChhHHHHHHHHhcCCCCCCcEEEEEE
Q 001246 708 GRLFLKSSSKPIEILRKLNQMAGFDPDEEIELYEE 742 (1115)
Q Consensus 708 g~~~v~~~~~i~~l~~~i~~~~g~p~dt~l~lyEE 742 (1115)
-.+.|+.+.+|++++-.|++++++++++.|-||=.
T Consensus 43 ~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn 77 (112)
T cd01611 43 KKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVN 77 (112)
T ss_pred ceEEecCCCCHHHHHHHHHHHhCCCccceEEEEEC
Confidence 45669999999999999999999999999888754
No 166
>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=26.36 E-value=69 Score=28.93 Aligned_cols=30 Identities=13% Similarity=0.026 Sum_probs=24.2
Q ss_pred EEeccccHHHHHHHHHHHhC--CCCCceeEEE
Q 001246 597 RVQKQTSFMAFKEEIAKEFG--IPIQLQRFWI 626 (1115)
Q Consensus 597 ~~~~~~~~~~~~~~i~~~~~--~~~~~~r~w~ 626 (1115)
.+..++|+.+|+++|++..+ .+++++||-.
T Consensus 19 e~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy 50 (79)
T cd01790 19 SCFLNWTVGELKTHLSRVYPSKPLEQDQRLIY 50 (79)
T ss_pred ecCCcChHHHHHHHHHHhcCCCCChhHeEEEE
Confidence 34678899999999999885 4579999853
No 167
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=26.22 E-value=1.8e+02 Score=28.54 Aligned_cols=63 Identities=11% Similarity=0.242 Sum_probs=44.8
Q ss_pred EE-EEeccccHHHHHHHHHHHhCCCCCceeEEEEeecCCCcCCCCCCCCCchhhhhHHHHHhhhccccccceeeEeeeec
Q 001246 595 SF-RVQKQTSFMAFKEEIAKEFGIPIQLQRFWIWAKRQNHTYRPNRPLLPQEEAQTVGQLREVSNKTHTAELRLFLEVEF 673 (1115)
Q Consensus 595 ~~-~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~~~n~~~rp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~le~~~ 673 (1115)
.| -|++++|+.+|...|.+.+++++++ ++..+ |+++-| ...+|+++++.. ++.+=-||+-...
T Consensus 43 KfllVP~d~tV~qF~~iIRkrl~l~~~k--~flfV---nn~lp~--------~s~~mg~lYe~~---KDeDGFLYi~Ys~ 106 (121)
T PTZ00380 43 HFLALPRDATVAELEAAVRQALGTSAKK--VTLAI---EGSTPA--------VTATVGDIADAC---KRDDGFLYVSVRT 106 (121)
T ss_pred EEEEcCCCCcHHHHHHHHHHHcCCChhH--EEEEE---CCccCC--------ccchHHHHHHHh---cCCCCeEEEEEcc
Confidence 35 6999999999999999999999998 34444 334311 135899998543 3446677877654
No 168
>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=25.39 E-value=55 Score=31.50 Aligned_cols=42 Identities=17% Similarity=0.236 Sum_probs=33.3
Q ss_pred ecccCCCCceEEEEeccccHHHHHHHHHHHhC-------CCCCceeEEE
Q 001246 585 FDLVDHDKVRSFRVQKQTSFMAFKEEIAKEFG-------IPIQLQRFWI 626 (1115)
Q Consensus 585 fdl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-------~~~~~~r~w~ 626 (1115)
|-|.|-.++-++++..++|+.+++++|++..+ .+++++||-.
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 66666666677889999999999999997764 5588888743
No 169
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=24.80 E-value=1.2e+02 Score=27.86 Aligned_cols=33 Identities=21% Similarity=0.427 Sum_probs=30.1
Q ss_pred eEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 594 RSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 594 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
.-|+|+++++|..|.+..++..|...+.+|+..
T Consensus 37 lfFkiKktT~f~klm~af~~rqGK~m~slRfL~ 69 (103)
T COG5227 37 LFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLF 69 (103)
T ss_pred EEEEEeccchHHHHHHHHHHHhCcCcceeEEEE
Confidence 458999999999999999999999999999865
No 170
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=23.92 E-value=1.9e+02 Score=30.77 Aligned_cols=81 Identities=16% Similarity=0.119 Sum_probs=58.3
Q ss_pred EEEEEEcCCCCeEEEEEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCcccccccccccceeEeee
Q 001246 902 LKVAFHHATKDEVVIHNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNEKIENINDQYWTLRAEE 981 (1115)
Q Consensus 902 ~kv~w~~~~~~~~~~~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~~i~~i~~~~~~~~~e~ 981 (1115)
++|...++.+.- ..+...|+..||.+|.++|-...+-+.++.+|-|+.....+....=+++..+..+.. ..-+|+-.
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 VRVVISSSLNDF--RTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKV-EDGLRIHV 78 (234)
T ss_pred eEEEEecccccc--hhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCC-CCceEEEE
Confidence 455555554442 456788999999999999999999888888999999887777666666777766643 34566655
Q ss_pred cchh
Q 001246 982 IPEE 985 (1115)
Q Consensus 982 iP~~ 985 (1115)
|-..
T Consensus 79 iD~~ 82 (234)
T KOG3206|consen 79 IDSN 82 (234)
T ss_pred EecC
Confidence 4433
No 171
>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=23.06 E-value=2.2e+02 Score=25.91 Aligned_cols=28 Identities=21% Similarity=0.503 Sum_probs=24.0
Q ss_pred CcEEEEEcCCCCHHHHHHHHHHHhCCCC
Q 001246 814 DAFCLELSKQHSYDEVVERVARKIGLDD 841 (1115)
Q Consensus 814 ~~f~l~ls~~~~Y~~la~~va~~l~~~~ 841 (1115)
+-..+.|...++|.+|.+.|++++++++
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~ 37 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDD 37 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCC
Confidence 3577888889999999999999999753
No 172
>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=22.99 E-value=3.6e+02 Score=25.35 Aligned_cols=48 Identities=25% Similarity=0.404 Sum_probs=35.5
Q ss_pred EEEEcCCCCCHHHHHHHHHhhccCCCCCccEEEEEEeccEEEEecCCccc
Q 001246 917 HNIRLPKQSTVGDVINELKTKVELSHPNAELRLLEVFYHKIYKIFAPNEK 966 (1115)
Q Consensus 917 ~~~~v~k~~tv~dll~~l~~~~~~~~~~~~lrl~~i~~~ki~~~~~~~~~ 966 (1115)
.++..|-+.||+||+..|.+|.-++++ ++.+++=-. |...+++.+.+.
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~-~ny~l~l~~-~~l~RvL~p~Er 62 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSG-GNYQLSLKK-HDLSRVLRPTEK 62 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCC-CCeEEEEEE-CCeeeecCCcCC
Confidence 378899999999999999999988765 455554333 445577776663
No 173
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=22.43 E-value=1.9e+02 Score=27.16 Aligned_cols=34 Identities=18% Similarity=0.428 Sum_probs=31.3
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeEEE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRFWI 626 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~w~ 626 (1115)
...|+|.+++++..|.+.-++..|++.+.+||..
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 4579999999999999999999999999999865
No 174
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=21.68 E-value=77 Score=29.36 Aligned_cols=30 Identities=13% Similarity=0.326 Sum_probs=26.7
Q ss_pred ccccHHHHHHHHHHHhCCCCCceeEEEEee
Q 001246 600 KQTSFMAFKEEIAKEFGIPIQLQRFWIWAK 629 (1115)
Q Consensus 600 ~~~~~~~~~~~i~~~~~~~~~~~r~w~~~~ 629 (1115)
.+.|+-|++..++-.+.-|++.+|||.|..
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 175
>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=21.63 E-value=1.7e+02 Score=34.53 Aligned_cols=71 Identities=18% Similarity=0.281 Sum_probs=53.3
Q ss_pred EEEEEeecCCCCeEEEEeEEEEecCCChhHHHHHHHHhcC---CCCCCcEEEEEEeecCccceeccCCccCccccccCCC
Q 001246 691 LLFFKLYDPEKGELRYVGRLFLKSSSKPIEILRKLNQMAG---FDPDEEIELYEEIKFEPCVMCEHLDKRTSFRLSQIED 767 (1115)
Q Consensus 691 l~FlK~fd~~~~~l~~~g~~~v~~~~~i~~l~~~i~~~~g---~p~dt~l~lyEEik~~p~~~ie~i~~~~t~~~~el~~ 767 (1115)
-|++|..+-.+ -.+-|..+.+|.+|...|.+.-| +|.+..-.+|. + ..++...++....|.+
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 46777765442 12467889999999999999988 88776544553 2 3467778999999999
Q ss_pred CCEEEEEeC
Q 001246 768 GDIICFQKS 776 (1115)
Q Consensus 768 GDIl~fQ~~ 776 (1115)
||.|++-..
T Consensus 67 ~~~Ivvmv~ 75 (378)
T TIGR00601 67 KDFVVVMVS 75 (378)
T ss_pred CCEEEEEec
Confidence 999988765
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=20.43 E-value=4.1e+02 Score=24.98 Aligned_cols=31 Identities=19% Similarity=0.370 Sum_probs=26.1
Q ss_pred ceEEEEeccccHHHHHHHHHHHhCCCCCceeE
Q 001246 593 VRSFRVQKQTSFMAFKEEIAKEFGIPIQLQRF 624 (1115)
Q Consensus 593 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~r~ 624 (1115)
.+-+.|.+..++.+|..++++.++++.. +.+
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 3568999999999999999999999866 443
Done!