Query 016931
Match_columns 380
No_of_seqs 398 out of 1670
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 04:06:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016931.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016931hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0012 DNA damage inducible p 100.0 5.1E-63 1.1E-67 471.5 23.6 321 1-324 1-363 (380)
2 PF09668 Asp_protease: Asparty 100.0 4.9E-42 1.1E-46 289.4 12.3 124 173-296 1-124 (124)
3 cd05480 NRIP_C NRIP_C; putativ 100.0 1.1E-33 2.4E-38 225.9 10.9 101 199-299 1-103 (103)
4 cd05479 RP_DDI RP_DDI; retrope 100.0 1.1E-29 2.3E-34 216.3 14.7 123 182-304 2-124 (124)
5 KOG0010 Ubiquitin-like protein 99.9 8.1E-27 1.7E-31 232.0 11.9 201 1-213 16-274 (493)
6 PF08284 RVP_2: Retroviral asp 99.8 2.1E-20 4.5E-25 161.4 12.4 112 196-307 21-132 (135)
7 cd01807 GDX_N ubiquitin-like d 99.7 2.1E-17 4.5E-22 128.0 9.1 72 1-72 1-72 (74)
8 TIGR02281 clan_AA_DTGA clan AA 99.7 1.6E-16 3.6E-21 134.7 13.2 108 194-304 9-119 (121)
9 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 9.8E-17 2.1E-21 124.0 8.2 70 1-70 2-71 (73)
10 cd05484 retropepsin_like_LTR_2 99.7 3.6E-16 7.8E-21 125.7 11.2 91 197-289 1-91 (91)
11 cd01797 NIRF_N amino-terminal 99.7 1.7E-16 3.7E-21 124.2 8.9 73 1-73 1-75 (78)
12 cd01793 Fubi Fubi ubiquitin-li 99.7 3.7E-16 7.9E-21 121.1 8.3 70 1-72 1-70 (74)
13 cd01805 RAD23_N Ubiquitin-like 99.7 6.3E-16 1.4E-20 120.3 9.5 73 1-73 1-75 (77)
14 PTZ00044 ubiquitin; Provisiona 99.7 4.7E-16 1E-20 120.8 8.7 72 1-72 1-72 (76)
15 cd01804 midnolin_N Ubiquitin-l 99.6 8.7E-16 1.9E-20 120.2 8.3 71 1-72 2-72 (78)
16 cd01806 Nedd8 Nebb8-like ubiq 99.6 1.7E-15 3.7E-20 117.2 9.2 72 1-72 1-72 (76)
17 cd01809 Scythe_N Ubiquitin-lik 99.6 1.8E-15 3.9E-20 115.8 9.0 71 1-71 1-71 (72)
18 cd01798 parkin_N amino-termina 99.6 1.4E-15 3E-20 116.5 7.8 69 3-71 1-69 (70)
19 cd01803 Ubiquitin Ubiquitin. U 99.6 1.8E-15 4E-20 117.0 8.6 72 1-72 1-72 (76)
20 cd01802 AN1_N ubiquitin-like d 99.6 1.7E-15 3.7E-20 124.8 8.5 72 1-72 28-99 (103)
21 cd01794 DC_UbP_C dendritic cel 99.6 1.5E-15 3.3E-20 116.4 7.6 69 3-71 1-69 (70)
22 cd01810 ISG15_repeat2 ISG15 ub 99.6 2.1E-15 4.6E-20 116.8 7.8 70 3-72 1-70 (74)
23 cd01792 ISG15_repeat1 ISG15 ub 99.6 3.8E-15 8.2E-20 117.1 8.5 72 1-72 3-76 (80)
24 cd01796 DDI1_N DNA damage indu 99.6 2.9E-15 6.4E-20 115.1 7.7 68 3-70 1-70 (71)
25 cd01808 hPLIC_N Ubiquitin-like 99.6 1.1E-14 2.3E-19 111.9 8.3 70 1-71 1-70 (71)
26 PF00240 ubiquitin: Ubiquitin 99.6 1.3E-14 2.8E-19 110.4 8.1 67 6-72 1-67 (69)
27 cd01790 Herp_N Homocysteine-re 99.6 8.9E-15 1.9E-19 114.2 7.3 70 1-70 2-77 (79)
28 cd01812 BAG1_N Ubiquitin-like 99.6 1.4E-14 3E-19 110.8 8.1 69 1-70 1-69 (71)
29 cd01813 UBP_N UBP ubiquitin pr 99.5 1.7E-14 3.7E-19 111.8 8.2 69 1-70 1-72 (74)
30 cd05483 retropepsin_like_bacte 99.5 4E-14 8.6E-19 113.3 10.6 92 196-289 2-96 (96)
31 PF13650 Asp_protease_2: Aspar 99.5 5.4E-14 1.2E-18 111.3 10.7 88 199-287 1-90 (90)
32 PF00077 RVP: Retroviral aspar 99.5 6.5E-14 1.4E-18 114.1 10.3 96 195-296 4-100 (100)
33 KOG0005 Ubiquitin-like protein 99.5 2.9E-14 6.3E-19 102.9 5.1 70 1-70 1-70 (70)
34 cd01800 SF3a120_C Ubiquitin-li 99.5 1.1E-13 2.3E-18 107.8 7.1 65 8-72 5-69 (76)
35 TIGR03698 clan_AA_DTGF clan AA 99.5 5.4E-13 1.2E-17 110.7 11.6 100 198-302 1-107 (107)
36 KOG0011 Nucleotide excision re 99.4 1.8E-12 4E-17 124.0 15.2 70 1-70 1-72 (340)
37 TIGR00601 rad23 UV excision re 99.4 3.8E-13 8.2E-18 134.1 10.1 71 1-71 1-74 (378)
38 smart00213 UBQ Ubiquitin homol 99.4 3.9E-13 8.5E-18 100.0 7.5 64 1-65 1-64 (64)
39 cd06095 RP_RTVL_H_like Retrope 99.4 6.7E-13 1.4E-17 105.7 9.2 85 199-289 1-86 (86)
40 KOG0003 Ubiquitin/60s ribosoma 99.4 5.1E-14 1.1E-18 113.4 1.5 72 1-72 1-72 (128)
41 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 8E-13 1.7E-17 101.9 5.5 54 19-72 19-75 (75)
42 cd01763 Sumo Small ubiquitin-r 99.3 4.7E-12 1E-16 101.2 8.9 72 1-72 12-83 (87)
43 cd01799 Hoil1_N Ubiquitin-like 99.3 2.2E-12 4.8E-17 100.2 6.7 63 7-70 9-73 (75)
44 KOG0004 Ubiquitin/40S ribosoma 99.3 1.8E-12 3.8E-17 111.8 3.9 71 1-71 1-71 (156)
45 COG3577 Predicted aspartyl pro 99.2 2.5E-11 5.5E-16 109.5 8.7 97 195-293 104-203 (215)
46 cd01769 UBL Ubiquitin-like dom 99.2 3.4E-11 7.3E-16 90.7 7.6 68 4-71 1-68 (69)
47 cd00303 retropepsin_like Retro 99.2 3E-10 6.5E-15 86.3 9.9 91 199-289 1-92 (92)
48 PF11976 Rad60-SLD: Ubiquitin- 99.1 1.8E-10 3.9E-15 88.3 7.4 70 1-70 1-71 (72)
49 cd05481 retropepsin_like_LTR_1 99.1 9.7E-10 2.1E-14 88.9 9.8 86 200-287 2-91 (93)
50 cd01795 USP48_C USP ubiquitin- 99.1 2.8E-10 6.1E-15 91.2 6.4 60 13-72 17-77 (107)
51 cd01789 Alp11_N Ubiquitin-like 99.0 1E-09 2.3E-14 87.0 8.6 71 2-72 3-81 (84)
52 cd01814 NTGP5 Ubiquitin-like N 99.0 6.1E-10 1.3E-14 91.8 5.9 74 2-75 6-93 (113)
53 PF12384 Peptidase_A2B: Ty3 tr 99.0 4.3E-09 9.2E-14 92.0 11.0 97 196-294 34-132 (177)
54 PF13975 gag-asp_proteas: gag- 99.0 1.9E-09 4.1E-14 83.0 7.1 65 193-257 5-70 (72)
55 PF14560 Ubiquitin_2: Ubiquiti 98.9 4.4E-09 9.5E-14 83.9 7.8 72 2-73 3-84 (87)
56 COG5550 Predicted aspartyl pro 98.9 2.3E-08 4.9E-13 83.6 11.0 94 207-305 26-120 (125)
57 PLN02560 enoyl-CoA reductase 98.8 2.3E-08 4.9E-13 97.7 9.1 72 1-72 1-83 (308)
58 KOG4248 Ubiquitin-like protein 98.8 9.5E-09 2.1E-13 110.5 6.5 73 2-75 4-76 (1143)
59 cd01801 Tsc13_N Ubiquitin-like 98.6 1.7E-07 3.7E-12 73.0 7.3 69 2-70 2-75 (77)
60 cd06094 RP_Saci_like RP_Saci_l 98.5 2.5E-07 5.5E-12 73.5 7.2 79 207-292 9-88 (89)
61 KOG0001 Ubiquitin and ubiquiti 98.5 4.9E-07 1.1E-11 67.6 8.6 70 3-72 2-71 (75)
62 cd01788 ElonginB Ubiquitin-lik 98.4 7.5E-07 1.6E-11 73.4 7.1 71 1-71 1-79 (119)
63 PF11543 UN_NPL4: Nuclear pore 98.4 5.5E-07 1.2E-11 70.8 5.4 69 1-70 5-78 (80)
64 PF13881 Rad60-SLD_2: Ubiquiti 98.4 2.9E-06 6.4E-11 70.8 9.5 73 2-74 4-90 (111)
65 PF02160 Peptidase_A3: Caulifl 98.3 2.1E-06 4.6E-11 78.3 8.2 102 196-306 4-117 (201)
66 cd00196 UBQ Ubiquitin-like pro 98.3 2.9E-06 6.4E-11 60.3 7.4 67 5-71 2-68 (69)
67 PF05585 DUF1758: Putative pep 98.2 3.9E-06 8.6E-11 74.6 7.9 69 207-275 12-81 (164)
68 cd05482 HIV_retropepsin_like R 98.2 4.8E-06 1E-10 66.5 7.5 86 200-289 2-87 (87)
69 KOG1872 Ubiquitin-specific pro 98.0 1.3E-05 2.9E-10 80.6 6.8 71 3-74 6-77 (473)
70 KOG3493 Ubiquitin-like protein 97.9 5.4E-06 1.2E-10 61.3 1.7 68 2-69 3-70 (73)
71 KOG0006 E3 ubiquitin-protein l 97.7 6.5E-05 1.4E-09 72.1 6.1 71 1-71 1-74 (446)
72 PF08817 YukD: WXG100 protein 97.6 0.00015 3.3E-09 56.6 6.2 69 2-70 4-79 (79)
73 cd01811 OASL_repeat1 2'-5' oli 97.5 0.00069 1.5E-08 51.8 7.9 71 1-72 1-76 (80)
74 KOG1769 Ubiquitin-like protein 97.3 0.0016 3.5E-08 52.6 8.2 71 2-72 22-92 (99)
75 KOG4495 RNA polymerase II tran 97.1 0.0006 1.3E-08 54.5 4.3 62 1-62 1-65 (110)
76 COG5417 Uncharacterized small 96.9 0.0033 7.2E-08 48.0 6.6 69 1-69 5-80 (81)
77 PF00789 UBX: UBX domain; Int 96.9 0.0064 1.4E-07 47.5 8.3 69 2-70 8-81 (82)
78 PF11470 TUG-UBL1: GLUT4 regul 96.7 0.0058 1.3E-07 46.1 6.6 63 7-69 3-65 (65)
79 smart00166 UBX Domain present 96.7 0.012 2.5E-07 46.0 8.6 69 2-70 6-79 (80)
80 KOG3206 Alpha-tubulin folding 96.6 0.0053 1.2E-07 56.0 6.7 74 2-75 3-84 (234)
81 cd01772 SAKS1_UBX SAKS1-like U 96.4 0.026 5.7E-07 44.0 8.6 68 2-70 6-78 (79)
82 KOG1639 Steroid reductase requ 96.4 0.009 1.9E-07 56.0 6.5 72 1-72 1-79 (297)
83 cd01767 UBX UBX (ubiquitin reg 96.4 0.034 7.3E-07 43.0 8.9 66 2-69 4-74 (77)
84 PF10302 DUF2407: DUF2407 ubiq 96.3 0.011 2.3E-07 48.2 5.9 59 2-60 2-65 (97)
85 PF12382 Peptidase_A2E: Retrot 96.3 0.014 3E-07 47.3 6.4 74 208-284 48-123 (137)
86 cd01770 p47_UBX p47-like ubiqu 96.1 0.045 9.7E-07 42.8 8.4 66 2-67 6-75 (79)
87 cd01773 Faf1_like1_UBX Faf1 ik 95.9 0.079 1.7E-06 41.8 8.8 69 2-71 7-80 (82)
88 cd01774 Faf1_like2_UBX Faf1 ik 95.5 0.12 2.7E-06 41.0 8.7 68 2-70 6-83 (85)
89 COG4067 Uncharacterized protei 95.4 0.04 8.6E-07 48.2 6.2 100 201-300 31-156 (162)
90 cd01771 Faf1_UBX Faf1 UBX doma 95.4 0.14 3.1E-06 40.1 8.7 68 2-70 6-78 (80)
91 PF09280 XPC-binding: XPC-bind 95.3 0.03 6.4E-07 41.4 4.3 41 94-135 11-55 (59)
92 PF00026 Asp: Eukaryotic aspar 95.1 0.11 2.3E-06 50.1 9.0 88 197-286 2-113 (317)
93 COG5227 SMT3 Ubiquitin-like pr 95.0 0.092 2E-06 41.8 6.3 69 3-71 27-95 (103)
94 cd05470 pepsin_retropepsin_lik 94.8 0.1 2.2E-06 42.3 6.7 85 199-285 1-109 (109)
95 cd05476 pepsin_A_like_plant Ch 94.6 0.084 1.8E-06 50.2 6.6 84 208-306 177-262 (265)
96 PF13019 Telomere_Sde2: Telome 94.5 0.2 4.3E-06 44.5 8.1 65 1-65 1-73 (162)
97 PTZ00013 plasmepsin 4 (PM4); P 94.3 0.14 3.1E-06 52.9 7.9 91 195-287 137-251 (450)
98 PTZ00147 plasmepsin-1; Provisi 94.3 0.18 3.9E-06 52.2 8.7 91 195-287 138-252 (453)
99 KOG0013 Uncharacterized conser 94.3 0.095 2.1E-06 48.1 5.6 63 9-71 155-219 (231)
100 cd06097 Aspergillopepsin_like 93.9 0.21 4.6E-06 47.7 7.8 89 198-287 2-114 (278)
101 cd05487 renin_like Renin stimu 93.1 0.38 8.3E-06 47.1 8.3 90 196-287 8-121 (326)
102 cd05478 pepsin_A Pepsin A, asp 92.9 0.97 2.1E-05 44.0 10.6 101 201-305 194-316 (317)
103 cd06096 Plasmepsin_5 Plasmepsi 92.7 0.48 1E-05 46.5 8.4 90 207-306 231-322 (326)
104 cd05477 gastricsin Gastricsins 92.6 0.53 1.2E-05 45.9 8.5 101 201-305 188-316 (318)
105 cd05474 SAP_like SAPs, pepsin- 92.5 0.69 1.5E-05 44.3 9.0 74 196-286 2-79 (295)
106 PF14453 ThiS-like: ThiS-like 92.2 0.62 1.4E-05 34.1 6.2 56 1-72 1-56 (57)
107 PRK06437 hypothetical protein; 92.1 0.99 2.1E-05 34.0 7.5 54 9-71 9-62 (67)
108 KOG0010 Ubiquitin-like protein 91.7 0.34 7.5E-06 49.8 5.9 40 93-135 175-214 (493)
109 cd05476 pepsin_A_like_plant Ch 91.7 0.5 1.1E-05 44.8 6.8 76 197-287 2-88 (265)
110 PF05618 Zn_protease: Putative 91.5 0.54 1.2E-05 40.8 6.2 45 257-301 87-133 (138)
111 cd05478 pepsin_A Pepsin A, asp 91.5 0.79 1.7E-05 44.7 8.2 91 195-287 9-122 (317)
112 cd06098 phytepsin Phytepsin, a 91.3 1.2 2.6E-05 43.5 9.3 96 201-305 197-316 (317)
113 cd05474 SAP_like SAPs, pepsin- 91.2 1.9 4.1E-05 41.2 10.4 96 208-306 179-294 (295)
114 cd06098 phytepsin Phytepsin, a 91.0 0.69 1.5E-05 45.2 7.1 91 195-287 9-123 (317)
115 cd05485 Cathepsin_D_like Cathe 91.0 1.9 4E-05 42.4 10.2 101 201-305 199-328 (329)
116 cd05477 gastricsin Gastricsins 90.7 1.3 2.8E-05 43.1 8.9 90 196-287 3-115 (318)
117 PF15044 CLU_N: Mitochondrial 90.7 0.45 9.8E-06 36.9 4.4 56 17-72 1-58 (76)
118 PF00026 Asp: Eukaryotic aspar 90.0 0.52 1.1E-05 45.3 5.3 98 201-305 187-315 (317)
119 PRK08364 sulfur carrier protei 90.0 1.9 4.2E-05 32.6 7.3 51 12-71 15-65 (70)
120 cd05490 Cathepsin_D2 Cathepsin 89.8 1 2.2E-05 44.0 7.3 90 196-287 6-120 (325)
121 PTZ00165 aspartyl protease; Pr 89.8 1 2.2E-05 47.0 7.6 100 186-287 108-237 (482)
122 TIGR02958 sec_mycoba_snm4 secr 89.4 2.1 4.6E-05 44.3 9.5 70 2-72 4-80 (452)
123 cd05473 beta_secretase_like Be 89.3 1.1 2.5E-05 44.5 7.3 87 196-287 3-113 (364)
124 cd05485 Cathepsin_D_like Cathe 89.3 1.5 3.3E-05 43.1 8.1 91 195-287 10-125 (329)
125 cd05488 Proteinase_A_fungi Fun 89.3 1.5 3.3E-05 42.8 8.0 90 196-287 10-122 (320)
126 cd05486 Cathespin_E Cathepsin 89.0 1.1 2.3E-05 43.7 6.7 88 198-287 2-112 (316)
127 cd06406 PB1_P67 A PB1 domain i 89.0 1.5 3.3E-05 34.3 6.1 37 12-48 12-48 (80)
128 cd05472 cnd41_like Chloroplast 88.9 1.4 3E-05 42.5 7.4 79 197-287 2-89 (299)
129 TIGR00601 rad23 UV excision re 88.4 0.63 1.4E-05 47.1 4.7 42 94-136 258-303 (378)
130 PF14836 Ubiquitin_3: Ubiquiti 88.0 2 4.3E-05 34.3 6.3 62 10-72 13-80 (88)
131 PF03539 Spuma_A9PTase: Spumav 87.8 1.3 2.8E-05 38.7 5.5 80 203-292 1-84 (163)
132 PF10790 DUF2604: Protein of U 87.5 2.5 5.5E-05 31.6 6.1 66 9-74 4-73 (76)
133 PF09379 FERM_N: FERM N-termin 87.4 2.9 6.3E-05 31.9 7.0 66 5-70 1-75 (80)
134 cd06097 Aspergillopepsin_like 87.2 0.93 2E-05 43.3 4.9 80 207-305 198-277 (278)
135 cd05471 pepsin_like Pepsin-lik 87.2 1 2.2E-05 42.3 5.2 81 207-305 202-282 (283)
136 PLN02799 Molybdopterin synthas 87.1 3 6.5E-05 32.3 6.9 66 1-71 2-77 (82)
137 PRK06488 sulfur carrier protei 86.9 2.6 5.6E-05 31.2 6.2 60 1-71 1-60 (65)
138 PRK05863 sulfur carrier protei 86.6 3.2 7E-05 30.9 6.6 60 1-71 1-60 (65)
139 cd05488 Proteinase_A_fungi Fun 86.6 7.5 0.00016 37.9 11.0 94 208-305 206-319 (320)
140 cd00754 MoaD Ubiquitin domain 86.6 3 6.5E-05 31.8 6.6 55 12-71 17-75 (80)
141 KOG4583 Membrane-associated ER 86.2 0.44 9.6E-06 46.7 2.0 69 2-70 11-85 (391)
142 cd06096 Plasmepsin_5 Plasmepsi 85.9 2 4.4E-05 42.1 6.6 91 196-287 3-138 (326)
143 PF11620 GABP-alpha: GA-bindin 85.9 1.3 2.9E-05 35.0 4.1 59 12-70 4-62 (88)
144 PRK05659 sulfur carrier protei 85.8 3.9 8.4E-05 30.2 6.6 61 1-71 1-61 (66)
145 cd05472 cnd41_like Chloroplast 85.5 6.5 0.00014 37.8 9.9 27 280-306 270-296 (299)
146 cd05471 pepsin_like Pepsin-lik 85.2 3.8 8.2E-05 38.4 7.9 89 198-288 2-114 (283)
147 smart00727 STI1 Heat shock cha 84.4 1.3 2.9E-05 29.7 3.2 22 98-119 18-39 (41)
148 cd05487 renin_like Renin stimu 84.2 6.3 0.00014 38.5 9.2 26 280-305 299-324 (326)
149 cd06407 PB1_NLP A PB1 domain i 84.2 4.3 9.3E-05 31.9 6.4 45 1-46 1-46 (82)
150 cd05475 nucellin_like Nucellin 83.7 1.9 4.1E-05 41.2 5.2 27 280-306 244-270 (273)
151 cd05486 Cathespin_E Cathepsin 82.3 6.7 0.00014 38.1 8.5 26 280-305 290-315 (316)
152 cd06409 PB1_MUG70 The MUG70 pr 82.0 4.6 0.0001 32.1 5.8 43 3-45 3-48 (86)
153 smart00666 PB1 PB1 domain. Pho 81.7 5.9 0.00013 30.3 6.4 45 2-47 3-47 (81)
154 cd05490 Cathepsin_D2 Cathepsin 81.7 8.1 0.00018 37.6 8.9 94 208-305 207-324 (325)
155 PRK08053 sulfur carrier protei 81.5 9.1 0.0002 28.5 7.1 61 1-71 1-61 (66)
156 PLN03146 aspartyl protease fam 81.5 3 6.6E-05 42.8 6.0 27 280-306 399-425 (431)
157 cd06408 PB1_NoxR The PB1 domai 81.2 6.9 0.00015 31.1 6.6 43 2-46 4-46 (86)
158 PF09280 XPC-binding: XPC-bind 80.2 2.5 5.5E-05 31.1 3.6 23 99-121 3-27 (59)
159 PRK06944 sulfur carrier protei 79.4 12 0.00026 27.4 7.1 60 1-71 1-60 (65)
160 cd05475 nucellin_like Nucellin 78.8 6.2 0.00013 37.6 6.8 81 197-286 3-101 (273)
161 PF12754 Blt1: Cell-cycle cont 77.9 0.7 1.5E-05 45.0 0.0 43 20-62 103-160 (309)
162 KOG0011 Nucleotide excision re 77.6 3.1 6.8E-05 40.9 4.3 40 94-134 226-269 (340)
163 PRK07696 sulfur carrier protei 77.4 12 0.00025 28.1 6.6 61 1-71 1-62 (67)
164 PRK06083 sulfur carrier protei 76.9 9 0.00019 30.3 6.0 56 9-71 24-79 (84)
165 smart00455 RBD Raf-like Ras-bi 76.7 8.2 0.00018 29.3 5.6 49 3-51 2-52 (70)
166 cd01760 RBD Ubiquitin-like dom 76.6 7.5 0.00016 29.8 5.3 45 3-47 2-46 (72)
167 PRK07440 hypothetical protein; 76.4 12 0.00025 28.4 6.4 56 9-71 10-65 (70)
168 cd00565 ThiS ThiaminS ubiquiti 76.2 10 0.00022 28.0 5.9 56 9-71 5-60 (65)
169 PF14451 Ub-Mut7C: Mut7-C ubiq 75.4 9.8 0.00021 29.9 5.8 53 10-71 22-75 (81)
170 TIGR01682 moaD molybdopterin c 75.2 17 0.00037 27.9 7.2 55 12-71 17-75 (80)
171 PTZ00147 plasmepsin-1; Provisi 75.1 9.5 0.00021 39.6 7.4 95 207-306 332-448 (453)
172 COG2104 ThiS Sulfur transfer p 74.8 20 0.00044 27.1 7.2 63 1-71 1-63 (68)
173 PTZ00165 aspartyl protease; Pr 73.6 13 0.00028 38.9 8.0 28 279-306 418-445 (482)
174 TIGR01687 moaD_arch MoaD famil 73.2 24 0.00053 27.4 7.8 57 11-71 16-83 (88)
175 cd06411 PB1_p51 The PB1 domain 72.8 7.5 0.00016 30.4 4.5 42 4-47 2-43 (78)
176 smart00295 B41 Band 4.1 homolo 72.7 29 0.00062 31.0 9.2 71 2-72 5-83 (207)
177 TIGR01683 thiS thiamine biosyn 72.4 14 0.0003 27.2 5.8 56 9-71 4-59 (64)
178 cd05992 PB1 The PB1 domain is 70.3 16 0.00035 27.7 6.1 45 2-47 2-47 (81)
179 KOG2982 Uncharacterized conser 69.7 8.2 0.00018 38.1 5.0 56 16-71 353-416 (418)
180 PF14541 TAXi_C: Xylanase inhi 69.4 13 0.00028 32.4 6.0 29 277-305 132-160 (161)
181 smart00727 STI1 Heat shock cha 69.3 10 0.00023 25.2 4.2 22 114-135 10-33 (41)
182 PTZ00013 plasmepsin 4 (PM4); P 68.8 22 0.00048 36.8 8.4 26 280-305 421-446 (450)
183 PRK12751 cpxP periplasmic stre 68.3 21 0.00045 31.9 7.0 31 151-181 88-118 (162)
184 PF00564 PB1: PB1 domain; Int 68.1 14 0.0003 28.3 5.3 44 3-47 4-48 (84)
185 PF02597 ThiS: ThiS family; I 68.0 15 0.00031 27.6 5.3 58 12-71 13-72 (77)
186 cd05489 xylanase_inhibitor_I_l 67.4 26 0.00056 35.1 8.3 25 281-305 335-359 (362)
187 KOG4250 TANK binding protein k 67.0 11 0.00023 41.0 5.6 41 9-49 323-363 (732)
188 PTZ00380 microtubule-associate 66.2 7.1 0.00015 33.1 3.4 58 15-72 45-105 (121)
189 PF08337 Plexin_cytopl: Plexin 65.5 15 0.00034 38.8 6.4 63 11-73 202-290 (539)
190 KOG2086 Protein tyrosine phosp 64.8 13 0.00028 37.4 5.4 66 2-67 307-376 (380)
191 PF10209 DUF2340: Uncharacteri 64.2 15 0.00032 31.1 4.9 55 16-70 21-106 (122)
192 KOG2689 Predicted ubiquitin re 64.0 21 0.00046 34.4 6.4 69 2-70 212-285 (290)
193 cd03568 VHS_STAM VHS domain fa 63.3 44 0.00096 29.0 8.0 87 106-208 42-135 (144)
194 cd05473 beta_secretase_like Be 62.5 23 0.0005 35.2 6.9 27 280-306 318-344 (364)
195 PF11925 DUF3443: Protein of u 62.4 19 0.00041 36.2 6.1 96 194-289 21-150 (370)
196 PF02196 RBD: Raf-like Ras-bin 62.2 56 0.0012 24.7 7.4 56 3-58 3-60 (71)
197 PRK11840 bifunctional sulfur c 60.7 28 0.00061 34.5 6.9 61 1-71 1-61 (326)
198 KOG2561 Adaptor protein NUB1, 59.7 7.3 0.00016 40.0 2.7 58 14-71 53-110 (568)
199 PRK10363 cpxP periplasmic repr 58.8 27 0.00058 31.3 5.8 32 152-183 83-114 (166)
200 PRK01777 hypothetical protein; 58.0 66 0.0014 26.0 7.5 62 1-71 4-75 (95)
201 cd06396 PB1_NBR1 The PB1 domai 57.1 46 0.001 26.2 6.3 34 3-37 3-38 (81)
202 PF14732 UAE_UbL: Ubiquitin/SU 55.4 24 0.00053 27.9 4.6 53 19-71 7-68 (87)
203 cd01768 RA RA (Ras-associating 52.0 1.1E+02 0.0023 23.5 8.9 48 10-57 12-68 (87)
204 PF08825 E2_bind: E2 binding d 51.5 20 0.00043 28.4 3.4 58 15-73 1-72 (84)
205 PF14533 USP7_C2: Ubiquitin-sp 50.6 49 0.0011 30.6 6.5 56 12-69 35-98 (213)
206 cd03561 VHS VHS domain family; 48.5 73 0.0016 27.0 6.8 75 106-195 42-125 (133)
207 cd06410 PB1_UP2 Uncharacterize 48.4 59 0.0013 26.4 5.8 39 6-45 18-56 (97)
208 cd06398 PB1_Joka2 The PB1 doma 48.0 68 0.0015 25.7 6.1 44 3-47 3-52 (91)
209 PF14327 CSTF2_hinge: Hinge do 46.6 20 0.00043 28.2 2.8 26 96-121 38-63 (84)
210 PF02991 Atg8: Autophagy prote 46.6 33 0.00072 28.2 4.2 56 16-71 38-97 (104)
211 PRK12750 cpxP periplasmic repr 43.3 1.5E+02 0.0032 26.6 8.2 27 151-177 95-121 (170)
212 cd01787 GRB7_RA RA (RAS-associ 43.1 77 0.0017 25.2 5.5 67 3-69 5-82 (85)
213 PF12685 SpoIIIAH: SpoIIIAH-li 42.4 2.6E+02 0.0057 25.3 10.6 68 142-216 97-169 (196)
214 smart00266 CAD Domains present 42.1 65 0.0014 24.9 4.9 39 21-59 19-59 (74)
215 TIGR02105 III_needle type III 42.0 1.6E+02 0.0034 22.6 7.6 35 148-183 22-56 (72)
216 cd06397 PB1_UP1 Uncharacterize 41.8 89 0.0019 24.6 5.6 43 2-45 2-44 (82)
217 smart00288 VHS Domain present 41.7 1.6E+02 0.0036 24.9 8.0 36 148-189 82-118 (133)
218 cd01611 GABARAP Ubiquitin doma 41.1 43 0.00092 27.9 4.1 56 15-71 45-105 (112)
219 PRK11130 moaD molybdopterin sy 40.9 1.5E+02 0.0032 22.7 6.9 52 15-71 19-76 (81)
220 PF00788 RA: Ras association ( 40.7 89 0.0019 23.9 5.8 51 3-53 5-67 (93)
221 KOG1339 Aspartyl protease [Pos 40.6 99 0.0021 31.2 7.5 91 196-287 46-181 (398)
222 PF02017 CIDE-N: CIDE-N domain 40.5 62 0.0013 25.3 4.6 63 4-71 6-71 (78)
223 PF12436 USP7_ICP0_bdg: ICP0-b 40.3 25 0.00053 33.4 2.9 58 15-72 89-152 (249)
224 cd03569 VHS_Hrs_Vps27p VHS dom 39.8 1.8E+02 0.0039 25.1 7.9 37 147-189 85-121 (142)
225 TIGR02854 spore_II_GA sigma-E 39.1 26 0.00057 34.0 2.9 34 196-229 158-202 (288)
226 cd01782 AF6_RA_repeat1 Ubiquit 38.8 1.7E+02 0.0037 24.4 7.0 53 1-53 24-88 (112)
227 PF00276 Ribosomal_L23: Riboso 38.4 59 0.0013 25.9 4.4 42 10-51 20-62 (91)
228 cd01615 CIDE_N CIDE_N domain, 38.0 77 0.0017 24.8 4.7 48 21-70 21-70 (78)
229 cd01818 TIAM1_RBD Ubiquitin do 37.5 91 0.002 24.3 5.0 41 5-45 4-44 (77)
230 PF03419 Peptidase_U4: Sporula 36.9 30 0.00065 33.5 2.9 34 196-229 157-201 (293)
231 PF11834 DUF3354: Domain of un 36.3 49 0.0011 25.2 3.4 44 21-70 26-69 (69)
232 COG5100 NPL4 Nuclear pore prot 36.2 94 0.002 31.7 6.2 70 1-71 1-78 (571)
233 PF14847 Ras_bdg_2: Ras-bindin 34.9 85 0.0018 25.9 4.8 36 3-38 3-38 (105)
234 KOG3048 Molecular chaperone Pr 34.4 1E+02 0.0022 27.0 5.4 50 163-220 42-95 (153)
235 PF07946 DUF1682: Protein of u 33.7 1.2E+02 0.0025 30.0 6.5 20 156-175 299-318 (321)
236 smart00314 RA Ras association 33.6 1.7E+02 0.0037 22.6 6.3 43 10-52 15-64 (90)
237 PF00790 VHS: VHS domain; Int 33.4 1.2E+02 0.0027 25.8 5.9 37 148-190 87-126 (140)
238 PRK10353 3-methyl-adenine DNA 33.0 64 0.0014 29.5 4.2 73 147-229 72-149 (187)
239 PF14543 TAXi_N: Xylanase inhi 32.7 42 0.00092 29.4 3.0 25 197-221 1-27 (164)
240 KOG1464 COP9 signalosome, subu 32.7 77 0.0017 31.0 4.8 52 99-172 297-348 (440)
241 PF09469 Cobl: Cordon-bleu ubi 32.5 39 0.00085 26.3 2.3 41 29-72 2-45 (79)
242 KOG2507 Ubiquitin regulatory p 32.4 85 0.0018 32.3 5.3 74 2-75 316-394 (506)
243 cd01817 RGS12_RBD Ubiquitin do 32.0 1.5E+02 0.0033 22.8 5.5 47 5-51 4-52 (73)
244 cd06539 CIDE_N_A CIDE_N domain 31.9 1.2E+02 0.0026 23.7 5.0 49 21-71 21-71 (78)
245 PF11069 DUF2870: Protein of u 31.6 1.4E+02 0.003 24.4 5.4 25 42-66 3-27 (98)
246 PRK10963 hypothetical protein; 30.7 2.1E+02 0.0046 26.5 7.5 28 91-122 3-30 (223)
247 PF04340 DUF484: Protein of un 30.4 1.7E+02 0.0036 27.1 6.7 27 91-121 6-32 (225)
248 cd01777 SNX27_RA Ubiquitin dom 29.7 1.1E+02 0.0024 24.4 4.5 41 2-42 3-43 (87)
249 cd06538 CIDE_N_FSP27 CIDE_N do 29.6 1.3E+02 0.0028 23.6 4.8 47 21-70 21-68 (79)
250 cd06536 CIDE_N_ICAD CIDE_N dom 29.6 1.2E+02 0.0027 23.7 4.7 48 21-70 21-72 (80)
251 PF02505 MCR_D: Methyl-coenzym 28.2 1.1E+02 0.0023 27.1 4.5 55 2-64 69-124 (153)
252 PRK10455 periplasmic protein; 28.2 2.4E+02 0.0052 25.0 7.0 10 154-163 91-100 (161)
253 cd06537 CIDE_N_B CIDE_N domain 28.2 1.8E+02 0.0038 22.9 5.3 49 21-71 21-70 (81)
254 PF03671 Ufm1: Ubiquitin fold 28.0 2E+02 0.0043 22.2 5.3 58 13-70 18-76 (76)
255 PF12436 USP7_ICP0_bdg: ICP0-b 27.8 1.1E+02 0.0024 29.0 5.0 35 10-44 189-223 (249)
256 cd01775 CYR1_RA Ubiquitin doma 26.8 2.6E+02 0.0055 22.8 6.2 64 7-70 9-85 (97)
257 TIGR02302 aProt_lowcomp conser 26.8 3.2E+02 0.0069 30.9 9.0 33 106-138 501-534 (851)
258 PRK05738 rplW 50S ribosomal pr 26.6 1.6E+02 0.0035 23.5 5.1 40 10-49 20-60 (92)
259 cd01764 Urm1 Urm1-like ubuitin 26.2 1.5E+02 0.0033 23.7 4.9 55 15-71 23-89 (94)
260 PF05952 ComX: Bacillus compet 25.5 74 0.0016 23.3 2.6 23 94-116 3-25 (57)
261 TIGR03260 met_CoM_red_D methyl 25.2 1.2E+02 0.0026 26.6 4.3 51 2-59 68-118 (150)
262 PF09269 DUF1967: Domain of un 24.2 45 0.00097 25.2 1.4 18 53-70 46-63 (69)
263 TIGR03636 L23_arch archaeal ri 23.8 1.7E+02 0.0036 22.7 4.5 34 10-43 14-47 (77)
264 cd01766 Ufm1 Urm1-like ubiquit 23.7 3.5E+02 0.0076 21.0 6.3 59 13-71 18-77 (82)
265 PRK14011 prefoldin subunit alp 23.4 4.6E+02 0.01 22.8 7.7 35 185-220 47-82 (144)
266 PF00794 PI3K_rbd: PI3-kinase 23.3 2.5E+02 0.0055 22.5 5.8 59 2-60 18-85 (106)
267 cd01612 APG12_C Ubiquitin-like 23.0 1.8E+02 0.0038 23.1 4.6 57 14-71 19-80 (87)
268 PF09849 DUF2076: Uncharacteri 23.0 1.4E+02 0.0031 28.4 4.8 24 151-174 16-39 (247)
269 PF07319 DnaI_N: Primosomal pr 22.6 95 0.0021 24.8 3.1 40 94-133 22-61 (94)
270 TIGR00624 tag DNA-3-methyladen 22.1 1.2E+02 0.0025 27.6 3.8 52 147-208 71-122 (179)
271 PRK14548 50S ribosomal protein 21.9 2E+02 0.0042 22.8 4.6 34 10-43 21-54 (84)
272 TIGR03595 Obg_CgtA_exten Obg f 21.8 61 0.0013 24.5 1.7 18 53-70 46-63 (69)
273 PF14533 USP7_C2: Ubiquitin-sp 21.4 75 0.0016 29.4 2.5 31 10-40 132-162 (213)
274 PRK15443 pduE propanediol dehy 21.0 66 0.0014 27.7 1.9 35 156-190 46-82 (138)
275 KOG3192 Mitochondrial J-type c 20.6 6.1E+02 0.013 22.6 8.0 73 102-181 93-165 (168)
276 PF12508 DUF3714: Protein of u 20.2 4.6E+02 0.01 24.1 7.4 23 255-277 105-127 (200)
No 1
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=100.00 E-value=5.1e-63 Score=471.46 Aligned_cols=321 Identities=42% Similarity=0.689 Sum_probs=282.3
Q ss_pred CEEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc--ccchhcCCCCCcEEEEeecCCCC
Q 016931 1 MRITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA--EKLSALGVKDEDLVMMVSNAASS 76 (380)
Q Consensus 1 M~ItVk~~--~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~--~tL~~~gI~dg~~I~l~~~~~~s 76 (380)
|.++|.+. ..+.+.++|..+..+.+|+.+++..+|++.+..-|+|+++++.+. ..|.++|+++||++.+..+.+..
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr~ks~d~ 80 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALRCKSSDP 80 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEeccCCCCCC
Confidence 77888765 567788999999999999999999999999999999999999864 68999999999999997543221
Q ss_pred -------------CC--CC-----CCCC------------------CCCCCCCChHHHHHHHhcCHHHHHHHhhcCHHHH
Q 016931 77 -------------PA--TN-----NLSF------------------NPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELA 118 (380)
Q Consensus 77 -------------~~--~~-----~~~~------------------~~~g~~~~p~~~~q~~l~nP~~l~qL~~~nP~La 118 (380)
.+ .. +.+. .+.+...+|..++|.++++|..+..+++.+|.|+
T Consensus 81 r~~v~~~~~~~~dFat~A~~~fs~q~a~~~~gaq~~rg~~~~di~~a~~~~ldsp~~~Rq~~la~pf~L~~~r~~lp~La 160 (380)
T KOG0012|consen 81 RPIVPIQVRLISDFATIAVPMFSSQRARQLQGAQRTRGRLQTDIPEASSLSLDSPATFRQALLAMPFFLHLDRAYLPPLA 160 (380)
T ss_pred CccccccceehhcccccccccccchhccccccccccccccccccccccccCcCCHHHHHHHHhcCchhhhhchhhcCccc
Confidence 00 00 0000 0011136788899999999999999999999999
Q ss_pred HHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHHHhcCCccccccceeE
Q 016931 119 QVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLY 198 (380)
Q Consensus 119 ~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A~E~~Pe~f~~~~~ly 198 (380)
.++..+|.+.|.+.+...+..++ . +.....+.+.+||||+|+|++|+|.|||++|+|||.+|+||+||.|+.+.|||
T Consensus 161 ~~l~~g~~~k~~~~~~~~q~d~~-r--r~~~~~rl~eanPfd~E~q~rIee~irq~~i~eq~~~ai~~~pe~f~~v~ML~ 237 (380)
T KOG0012|consen 161 ALLVLGDLEKFDRTLKEMQKDYQ-R--RSVHQRRLLEANPFDLEAQRRIEEKIRQNAIDEQMSHAIEYHPEDFTQVTMLY 237 (380)
T ss_pred hhhcccchhhhhhhhhhhccccc-h--hhhhhHHHHhcCCcchhhhhhhhHHHHHHHHHHHHHHhhhcCccccccceEEE
Confidence 99999999999888874422222 1 12234567889999999999999999999999999999999999999999999
Q ss_pred EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCC
Q 016931 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPN 278 (380)
Q Consensus 199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~ 278 (380)
|+|+|||++||||||||||.|+||.+||+||||.+++|+||.|++.|||+.++.|+||.++++||+.+++|+|.|++...
T Consensus 238 iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~rlid~r~~g~a~gvg~~ki~g~Ih~~~lki~~~~l~c~ftV~d~~~ 317 (380)
T KOG0012|consen 238 INCEINGVPVKAFVDSGAQTTIMSAACAERCGLNRLIDKRFQGEARGVGTEKILGRIHQAQLKIEDLYLPCSFTVLDRRD 317 (380)
T ss_pred EEEEECCEEEEEEEcccchhhhhhHHHHHHhChHHHhhhhhhccccCCCcccccceeEEEEEEeccEeeccceEEecCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeeeHHHHhhcCeEEEcCCCEEEEcCCceeeeccCCCCCCcccc
Q 016931 279 MEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFL 324 (380)
Q Consensus 279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~~~~~~~pfl~~~e~~~~~~ 324 (380)
.|++||+|+|++|+||||+++|+|+||+++.++||++..++|.+..
T Consensus 318 ~d~llGLd~Lrr~~ccIdL~~~~L~ig~~~teiPfl~~~~lp~~~~ 363 (380)
T KOG0012|consen 318 MDLLLGLDMLRRHQCCIDLKTNVLRIGNTETEIPFLPSNELPSHNK 363 (380)
T ss_pred cchhhhHHHHHhccceeecccCeEEecCCCccccccccccCCcccc
Confidence 9999999999999999999999999999988999999999999764
No 2
>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 3S8I_A 2I1A_B.
Probab=100.00 E-value=4.9e-42 Score=289.45 Aligned_cols=124 Identities=60% Similarity=1.157 Sum_probs=87.3
Q ss_pred hhcHHHHHHHHHhcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE
Q 016931 173 QKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL 252 (380)
Q Consensus 173 q~~i~en~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~ 252 (380)
|+||+|||+.||||+||.|.++.||||+|+|||++++||||||||+|+||.+||+||||++++|+|+.+.+.|+|+.+++
T Consensus 1 q~~i~~~~~~a~e~~PE~f~~v~mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~~lid~r~~g~a~GvG~~~i~ 80 (124)
T PF09668_consen 1 QENIDENLENAMEHSPESFGQVSMLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLMRLIDKRFAGVAKGVGTQKIL 80 (124)
T ss_dssp -------------------------EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGGGGEEGGG-EE-------EEE
T ss_pred ChhHHHHHHHHHHhCcHhhcCcceEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCChhhccccccccccCCCcCcee
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHHHHhhcCeEEE
Q 016931 253 GRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIID 296 (380)
Q Consensus 253 g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID 296 (380)
|+||.++++||+.+++|+|.|++....|+|||+|||++|+|+||
T Consensus 81 G~Ih~~~l~ig~~~~~~s~~Vle~~~~d~llGld~L~~~~c~ID 124 (124)
T PF09668_consen 81 GRIHSVQLKIGGLFFPCSFTVLEDQDVDLLLGLDMLKRHKCCID 124 (124)
T ss_dssp EEEEEEEEEETTEEEEEEEEEETTSSSSEEEEHHHHHHTT-EEE
T ss_pred EEEEEEEEEECCEEEEEEEEEeCCCCcceeeeHHHHHHhCcccC
Confidence 99999999999999999999999989999999999999999998
No 3
>cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein. Proteins in this family have been described as probable nuclear receptor interacting proteins. The C-terminal domain of this family is homologous to the retroviral aspartyl protease domain. The domain is structurally related to one lobe of the pepsin molecule. The conserved active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=100.00 E-value=1.1e-33 Score=225.88 Aligned_cols=101 Identities=29% Similarity=0.547 Sum_probs=97.2
Q ss_pred EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCC-cceeEeecCcc-eeEEeEEEEEeEEEcCEEEeEEEEEecC
Q 016931 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVLDS 276 (380)
Q Consensus 199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~-~~~~~~~gvg~-~~~~g~i~~~~i~ig~~~~~~~~~Vl~~ 276 (380)
|+|++||++++||||||||+|+||++||+||||.+++++ ++.+++.|+|+ .+++|+||.++|+||+.+++|+|.|+|.
T Consensus 1 vnCk~nG~~vkAfVDsGaQ~timS~~caercgL~r~v~~~r~~g~A~gvgt~~kiiGrih~~~ikig~~~~~CSftVld~ 80 (103)
T cd05480 1 VSCQCAGKELRALVDTGCQYNLISAACLDRLGLKERVLKAKAEEEAPSLPTSVKVIGQIERLVLQLGQLTVECSAQVVDD 80 (103)
T ss_pred CceeECCEEEEEEEecCCchhhcCHHHHHHcChHhhhhhccccccccCCCcceeEeeEEEEEEEEeCCEEeeEEEEEEcC
Confidence 689999999999999999999999999999999988877 88899999998 6999999999999999999999999999
Q ss_pred CCCceeeeHHHHhhcCeEEEcCC
Q 016931 277 PNMEFLFGLDMLRKHQCIIDLKE 299 (380)
Q Consensus 277 ~~~d~iLG~D~L~~~~~~ID~~~ 299 (380)
.+.|++||+|+|+||+|+||+++
T Consensus 81 ~~~d~llGLdmLkrhqc~IdL~k 103 (103)
T cd05480 81 NEKNFSLGLQTLKSLKCVINLEK 103 (103)
T ss_pred CCcceEeeHHHHhhcceeeeccC
Confidence 99999999999999999999975
No 4
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=99.97 E-value=1.1e-29 Score=216.30 Aligned_cols=123 Identities=64% Similarity=1.232 Sum_probs=116.4
Q ss_pred HHHhcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEE
Q 016931 182 AALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIK 261 (380)
Q Consensus 182 ~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ 261 (380)
.|+|++||.|....++|++++|||++++|||||||++|+||+++|+|+||....+.++...+.|+|.....|+++.+.|+
T Consensus 2 ~~~~~~~~~~~~~~~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~~~~~l~ 81 (124)
T cd05479 2 NAMEHHPESFGKVPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRIHLAQVK 81 (124)
T ss_pred chhhcCcchhceeeEEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEEEEEEEE
Confidence 47899999999999999999999999999999999999999999999999776676777788888888899999999999
Q ss_pred EcCEEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEE
Q 016931 262 IGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRV 304 (380)
Q Consensus 262 ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i 304 (380)
||+..++++|.|++...+|+|||||||++++++|||++++|+|
T Consensus 82 i~~~~~~~~~~Vl~~~~~d~ILG~d~L~~~~~~ID~~~~~i~~ 124 (124)
T cd05479 82 IGNLFLPCSFTVLEDDDVDFLIGLDMLKRHQCVIDLKENVLRI 124 (124)
T ss_pred ECCEEeeeEEEEECCCCcCEEecHHHHHhCCeEEECCCCEEEC
Confidence 9999999999999998999999999999999999999999985
No 5
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.94 E-value=8.1e-27 Score=231.99 Aligned_cols=201 Identities=23% Similarity=0.430 Sum_probs=160.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCCCCCC-
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPAT- 79 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~s~~~- 79 (380)
++|+||+.++ .+.+.|..+.||.+||++|..++++++++++|||.||+|+|++||..|||+||.|||||++....+..
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~~~~~ 94 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPRPTGT 94 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCCCCCc
Confidence 4799999887 78999999999999999999999999999999999999999999999999999999999865431111
Q ss_pred ----------CC--------CCCCCC---------C----C------CCChHHHHHHHhcCHHHHHHHhhcCHHHHHHhc
Q 016931 80 ----------NN--------LSFNPD---------G----S------AVNPAAFQQHIRNDANLMTQLFQSDPELAQVLL 122 (380)
Q Consensus 80 ----------~~--------~~~~~~---------g----~------~~~p~~~~q~~l~nP~~l~qL~~~nP~La~ai~ 122 (380)
.| .+.++. | + ......++.++.++|+++.++++ ||-++..+
T Consensus 95 ~t~ap~~t~~~P~~~st~~~a~~~p~~l~~~~~~~g~~~~~~~~~~F~~l~~~~q~~~~snpe~~~~~m~-nP~vq~ll- 172 (493)
T KOG0010|consen 95 ATSAPSSTASTPNNISTGRSASSNPFSLLTVGGFAGLSSLGLFAAMFGELQSQMQNQLLSNPEALRQMME-NPIVQSLL- 172 (493)
T ss_pred cccccccccCCCCCCCCcccccCCcccccccccccccccCCcchhhcccccccchhccccCHHHHHHhhh-ChHHHHHh-
Confidence 01 000110 0 0 01123578899999999999986 99999999
Q ss_pred CCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCcc----HHH---HHHHHHHHHhhcHHHHHHHH---HhcCCcccc
Q 016931 123 GNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFD----VEA---QKKIEAAIRQKGIDENWAAA---LEHNPEAFA 192 (380)
Q Consensus 123 ~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~----~E~---Q~~I~E~Irq~~i~en~~~A---~E~~Pe~f~ 192 (380)
+|++.+++++..+ ++++++ +++++|+.|+++||.- +|. ...++|+|| |.++| +|.+|++|.
T Consensus 173 -~Npd~mrq~I~an-Pqmq~l-m~~npei~h~ln~p~i~rQtle~arNP~m~qemmr------n~d~a~SnlesiPgG~n 243 (493)
T KOG0010|consen 173 -NNPDLMRQLIMAN-PQMQDL-MQRNPEIGHLLNNPLILRQTLESARNPEMMQEMMR------NQDRAMSNLESIPGGYN 243 (493)
T ss_pred -cChHHHHHHHhcC-HHHHHH-HhhCCcchhhhcChHHHHHHHHhccCHHHHHHHHh------hccccccChhcCccHHH
Confidence 7899999999998 899888 6999999999999943 232 223555555 88888 999999999
Q ss_pred ccceeEEeee----------ecCeeEEEEEc
Q 016931 193 RVVMLYVDME----------VNGIPLKAFVD 213 (380)
Q Consensus 193 ~~~~lyv~v~----------Ing~~v~alVD 213 (380)
.+.++|.++. ..|-++..+..
T Consensus 244 ~l~~my~diqdPm~Na~~~~~g~Npfasl~~ 274 (493)
T KOG0010|consen 244 ALRRMYTDIQDPMLNAASEQFGGNPFASLPG 274 (493)
T ss_pred HHHHHhhhccchhhhhcccccCCCCcccccC
Confidence 9999999986 45556555553
No 6
>PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases.
Probab=99.84 E-value=2.1e-20 Score=161.43 Aligned_cols=112 Identities=26% Similarity=0.344 Sum_probs=95.6
Q ss_pred eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEec
Q 016931 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD 275 (380)
Q Consensus 196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~ 275 (380)
-+-..+.|+++++.+||||||+++|||.++|++++|......+...+..+.|.....+.++.+.+++++..+..+|.|++
T Consensus 21 vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~~g~~~~~~~~~~~~~~~i~g~~~~~dl~vl~ 100 (135)
T PF08284_consen 21 VITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSAPGGSINCEGVCPDVPLSIQGHEFVVDLLVLD 100 (135)
T ss_pred eEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEecccccccccceeeeEEEEECCeEEEeeeEEec
Confidence 34567889999999999999999999999999999954432233333334456667788899999999999999999999
Q ss_pred CCCCceeeeHHHHhhcCeEEEcCCCEEEEcCC
Q 016931 276 SPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG 307 (380)
Q Consensus 276 ~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~~ 307 (380)
..++|+|||||||++|++.|||.+++++|...
T Consensus 101 l~~~DvILGm~WL~~~~~~IDw~~k~v~f~~p 132 (135)
T PF08284_consen 101 LGGYDVILGMDWLKKHNPVIDWATKTVTFNSP 132 (135)
T ss_pred ccceeeEeccchHHhCCCEEEccCCEEEEeCC
Confidence 99999999999999999999999999999753
No 7
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=99.72 E-value=2.1e-17 Score=128.02 Aligned_cols=72 Identities=28% Similarity=0.427 Sum_probs=70.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++.+|+++.++|++++||++||++|+.++|+|+++|+|+|+|++|+|+.+|++|||++|++||++..
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 899999999999999999999999999999999999999999999999999999999999999999999865
No 8
>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family. This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Sequences in the seed alignment and those scoring above the trusted cutoff are Proteobacterial; homologs scroing between trusted and noise are found in Pyrobaculum aerophilum str. IM2 (archaeal), Pirellula sp. (Planctomycetes), and Nostoc sp. PCC 7120 (Cyanobacteria).
Probab=99.71 E-value=1.6e-16 Score=134.66 Aligned_cols=108 Identities=21% Similarity=0.247 Sum_probs=83.6
Q ss_pred cceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEE
Q 016931 194 VVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFV 272 (380)
Q Consensus 194 ~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~ 272 (380)
--++|++++|||+++.|+|||||++|+||.++|+++|+..... .+.....+.+.......+....|+||+..+. +++.
T Consensus 9 ~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~-~~~~~~~ta~G~~~~~~~~l~~l~iG~~~~~nv~~~ 87 (121)
T TIGR02281 9 DGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRL-GYTVTVSTANGQIKAARVTLDRVAIGGIVVNDVDAM 87 (121)
T ss_pred CCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccC-CceEEEEeCCCcEEEEEEEeCEEEECCEEEeCcEEE
Confidence 4578999999999999999999999999999999999964322 2222333332233456778889999997766 8999
Q ss_pred EecCC-CCceeeeHHHHhhcC-eEEEcCCCEEEE
Q 016931 273 VLDSP-NMEFLFGLDMLRKHQ-CIIDLKENVLRV 304 (380)
Q Consensus 273 Vl~~~-~~d~iLG~D~L~~~~-~~ID~~~~~l~i 304 (380)
|++.. ..++|||||||++++ +.||- ++|++
T Consensus 88 v~~~~~~~~~LLGm~fL~~~~~~~~~~--~~l~l 119 (121)
T TIGR02281 88 VAEGGALSESLLGMSFLNRLSRFTVRG--GKLIL 119 (121)
T ss_pred EeCCCcCCceEcCHHHHhccccEEEEC--CEEEE
Confidence 99875 358999999999997 77765 45544
No 9
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.68 E-value=9.8e-17 Score=123.98 Aligned_cols=70 Identities=11% Similarity=0.150 Sum_probs=68.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+|+|++..|+.+.+++++++||++||++|+.+.|+|+++|+|+|.|++|+|+++|++|||++|++|||-
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~ 71 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY 71 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence 7899999999999999999999999999999999999999999999999999999999999999999984
No 10
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=99.68 E-value=3.6e-16 Score=125.68 Aligned_cols=91 Identities=27% Similarity=0.302 Sum_probs=78.7
Q ss_pred eEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecC
Q 016931 197 LYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDS 276 (380)
Q Consensus 197 lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~ 276 (380)
.|+.++|||++++++|||||++|+||.+.+.++|+....+.......++....+..|++ .+.+++|+..+..+|+|++.
T Consensus 1 ~~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~-~~~v~~~~~~~~~~~~v~~~ 79 (91)
T cd05484 1 KTVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI-LVTVKYGGKTKVLTLYVVKN 79 (91)
T ss_pred CEEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE-EEEEEECCEEEEEEEEEEEC
Confidence 38999999999999999999999999999999999765554444444444467899999 67999999999999999998
Q ss_pred CCCceeeeHHHHh
Q 016931 277 PNMEFLFGLDMLR 289 (380)
Q Consensus 277 ~~~d~iLG~D~L~ 289 (380)
. ++.|||+|||.
T Consensus 80 ~-~~~lLG~~wl~ 91 (91)
T cd05484 80 E-GLNLLGRDWLD 91 (91)
T ss_pred C-CCCccChhhcC
Confidence 7 99999999984
No 11
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=99.68 E-value=1.7e-16 Score=124.23 Aligned_cols=73 Identities=23% Similarity=0.358 Sum_probs=69.4
Q ss_pred CEEEEEeCCCCE-EEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931 1 MRITVMTADEQI-ISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (380)
Q Consensus 1 M~ItVk~~~g~~-~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~ 73 (380)
|+|+|++.+|+. +.++ ++++.||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~ 75 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQ 75 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence 999999999996 7895 899999999999999999999999999999999999999999999999999998764
No 12
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.65 E-value=3.7e-16 Score=121.05 Aligned_cols=70 Identities=23% Similarity=0.334 Sum_probs=66.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+||+ ++++.++|++++||++||++|+.++|+|+++|+|+|+|++|+|+.||++|||+++++||++..
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 8999998 478999999999999999999999999999999999999999999999999999999999753
No 13
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=99.65 E-value=6.3e-16 Score=120.27 Aligned_cols=73 Identities=30% Similarity=0.580 Sum_probs=70.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC--CCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQV--PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gi--p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~ 73 (380)
|+|+|++.+|+.+.+++++++||.+||+.|+.++|+ |+++|+|+|+|++|+|+.+|++|||++|++|+++.+.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~ 75 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK 75 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence 899999999999999999999999999999999999 9999999999999999999999999999999998653
No 14
>PTZ00044 ubiquitin; Provisional
Probab=99.65 E-value=4.7e-16 Score=120.78 Aligned_cols=72 Identities=29% Similarity=0.452 Sum_probs=70.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++.+|+++.+++++++||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|+|++|++||++.+
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~ 72 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence 899999999999999999999999999999999999999999999999999999999999999999999854
No 15
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.63 E-value=8.7e-16 Score=120.25 Aligned_cols=71 Identities=27% Similarity=0.439 Sum_probs=68.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++..|+.+.++++++.||++||+.|+++.++|+++|+|+|+|+.|+|+ +|++|||++|++|||+..
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~ 72 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT 72 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence 89999999999999999999999999999999999999999999999999999 999999999999999864
No 16
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.62 E-value=1.7e-15 Score=117.20 Aligned_cols=72 Identities=29% Similarity=0.525 Sum_probs=70.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++.+|+.+.++++++.||++||++|+.++|+|+++|+|+|+|+.|.|+++|++|||++|++||++..
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~ 72 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLA 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEE
Confidence 899999999999999999999999999999999999999999999999999999999999999999999864
No 17
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.62 E-value=1.8e-15 Score=115.83 Aligned_cols=71 Identities=32% Similarity=0.515 Sum_probs=69.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|++.+|+.+.++++++.||.+||++|+..+|+|++.|+|+|+|+.|+|+.+|++|||++|++||++.
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999999999999974
No 18
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.62 E-value=1.4e-15 Score=116.47 Aligned_cols=69 Identities=19% Similarity=0.442 Sum_probs=66.8
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|++..|+.+.+++++++||++||++|+.++|+|+++|+|+|+|++|+|+.+|++|||++|++||++.
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~ 69 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR 69 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 578999999999999999999999999999999999999999999999999999999999999999975
No 19
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.62 E-value=1.8e-15 Score=117.03 Aligned_cols=72 Identities=32% Similarity=0.583 Sum_probs=70.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++.+|+.+.++++++.||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence 899999999999999999999999999999999999999999999999999999999999999999999864
No 20
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.61 E-value=1.7e-15 Score=124.75 Aligned_cols=72 Identities=26% Similarity=0.378 Sum_probs=69.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++.+|+.+.++|++++||.+||++|+.+.|+|+++|+|+|+|+.|+|+.+|++|+|++|++||++..
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLA 99 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence 899999999999999999999999999999999999999999999999999999999999999999999753
No 21
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=99.61 E-value=1.5e-15 Score=116.42 Aligned_cols=69 Identities=17% Similarity=0.321 Sum_probs=66.0
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+.|+..+|+.+.++|++++||.+||++|+...|+|+++|+|+|+|++|+|+.+|++|||++|++|||+.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 467888999999999999999999999999999999999999999999999999999999999999974
No 22
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.60 E-value=2.1e-15 Score=116.77 Aligned_cols=70 Identities=24% Similarity=0.287 Sum_probs=67.4
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|++..|+++.+++++++||.+||++|+.+.|+|+++|+|+|+|+.|+|+++|++|||++|++|+++..
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence 6899999999999999999999999999999999999999999999999999999999999999999754
No 23
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.59 E-value=3.8e-15 Score=117.15 Aligned_cols=72 Identities=19% Similarity=0.238 Sum_probs=69.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEE--ecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQL--LYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~L--i~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|++..|+.+.++++++.||.+||+.|+.++|+|+++|+| +|+|+.|+|+++|++|||++|++|+|+.+
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEE
Confidence 7899999999999999999999999999999999999999999 89999999999999999999999999865
No 24
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.59 E-value=2.9e-15 Score=115.14 Aligned_cols=68 Identities=54% Similarity=0.764 Sum_probs=64.9
Q ss_pred EEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEe
Q 016931 3 ITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMV 70 (380)
Q Consensus 3 ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~ 70 (380)
|+|++. +|+++.+++++++||++||++|+.++|+|+++|+|+|+|+.|+|+ .+|++|||++|++||+.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 589999 899999999999999999999999999999999999999999987 68999999999999985
No 25
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=99.56 E-value=1.1e-14 Score=111.86 Aligned_cols=70 Identities=19% Similarity=0.376 Sum_probs=66.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|++..|+ ..++++++.||.+||+.|+.++|+|+++|+|+|+|+.|.|+++|++|||++|++||++.
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~ 70 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI 70 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence 68999999887 58999999999999999999999999999999999999999999999999999999974
No 26
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.56 E-value=1.3e-14 Score=110.43 Aligned_cols=67 Identities=36% Similarity=0.651 Sum_probs=64.3
Q ss_pred EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 6 MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 6 k~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+.+|+.+.++|+++.||.+||++|+.++++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k 67 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIK 67 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEES
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEe
Confidence 5778999999999999999999999999999999999999999999999999999999999999865
No 27
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=99.56 E-value=8.9e-15 Score=114.17 Aligned_cols=70 Identities=19% Similarity=0.235 Sum_probs=63.2
Q ss_pred CEEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcC--CCCCcEEEEe
Q 016931 1 MRITVMTADEQI--ISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALG--VKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~--~~i~V~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~g--I~dg~~I~l~ 70 (380)
+.|+||+++++. +.+++++++||.+||++|+...+ .|+++|+|||.||+|+|+.||++|+ +++|.+|||+
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV 77 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLV 77 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEE
Confidence 578999999998 55555899999999999999885 4579999999999999999999997 9999999997
No 28
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.55 E-value=1.4e-14 Score=110.76 Aligned_cols=69 Identities=30% Similarity=0.502 Sum_probs=66.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+|+|++. |+.+.+++++++||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|++|+++
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence 68999995 8899999999999999999999999999999999999999999999999999999999986
No 29
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=99.55 E-value=1.7e-14 Score=111.83 Aligned_cols=69 Identities=28% Similarity=0.332 Sum_probs=66.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec---CCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~---~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|.|+|+. +|+.|.++|++++||++||++|+..+|+|+++|+|+| +|+.|+|+.+|++|+|++|+.|+|+
T Consensus 1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 6899998 7888999999999999999999999999999999996 9999999999999999999999987
No 30
>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=99.55 E-value=4e-14 Score=113.32 Aligned_cols=92 Identities=29% Similarity=0.466 Sum_probs=72.3
Q ss_pred eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEEEe
Q 016931 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFVVL 274 (380)
Q Consensus 196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~Vl 274 (380)
++|++++|||++++|+|||||+.|+|+.++|+++++..... ......+++...........+++||+..+. +.+.|+
T Consensus 2 ~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~--~~~~~~~~~G~~~~~~~~~~~i~ig~~~~~~~~~~v~ 79 (96)
T cd05483 2 HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLG--GKVTVQTANGRVRAARVRLDSLQIGGITLRNVPAVVL 79 (96)
T ss_pred cEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCC--CcEEEEecCCCccceEEEcceEEECCcEEeccEEEEe
Confidence 68999999999999999999999999999999999822222 222334444333344555778999997665 899999
Q ss_pred cCCC--CceeeeHHHHh
Q 016931 275 DSPN--MEFLFGLDMLR 289 (380)
Q Consensus 275 ~~~~--~d~iLG~D~L~ 289 (380)
+... .|+|||+|||+
T Consensus 80 d~~~~~~~gIlG~d~l~ 96 (96)
T cd05483 80 PGDALGVDGLLGMDFLR 96 (96)
T ss_pred CCcccCCceEeChHHhC
Confidence 9876 99999999995
No 31
>PF13650 Asp_protease_2: Aspartyl protease
Probab=99.54 E-value=5.4e-14 Score=111.35 Aligned_cols=88 Identities=31% Similarity=0.489 Sum_probs=70.1
Q ss_pred EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEE-eEEEEEec-C
Q 016931 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-PCSFVVLD-S 276 (380)
Q Consensus 199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~-~~~~~Vl~-~ 276 (380)
|+++|||++++|+|||||+.++|++++|+++|+...... ......+.+...........+++||+..+ .+.+.|++ .
T Consensus 1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~i~ig~~~~~~~~~~v~~~~ 79 (90)
T PF13650_consen 1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKS-VPISVSGAGGSVTVYRGRVDSITIGGITLKNVPFLVVDLG 79 (90)
T ss_pred CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCc-eeEEEEeCCCCEEEEEEEEEEEEECCEEEEeEEEEEECCC
Confidence 689999999999999999999999999999999544331 12333444433455666666899999776 78999999 7
Q ss_pred CCCceeeeHHH
Q 016931 277 PNMEFLFGLDM 287 (380)
Q Consensus 277 ~~~d~iLG~D~ 287 (380)
..+|+|||+||
T Consensus 80 ~~~~~iLG~df 90 (90)
T PF13650_consen 80 DPIDGILGMDF 90 (90)
T ss_pred CCCEEEeCCcC
Confidence 78999999998
No 32
>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....
Probab=99.53 E-value=6.5e-14 Score=114.06 Aligned_cols=96 Identities=30% Similarity=0.509 Sum_probs=78.0
Q ss_pred ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc-eeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931 195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVV 273 (380)
Q Consensus 195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~-~~~~g~i~~~~i~ig~~~~~~~~~V 273 (380)
.+-|+.++|||++++|||||||+.|+|+.+++.+.+.. ........|.|. ....|.. .+.+++++..+...|.|
T Consensus 4 ~rp~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~----~~~~~~v~~~~g~~~~~~~~-~~~v~~~~~~~~~~~~v 78 (100)
T PF00077_consen 4 NRPYITVKINGKKIKALLDTGADVSIISEKDWKKLGPP----PKTSITVRGAGGSSSILGST-TVEVKIGGKEFNHTFLV 78 (100)
T ss_dssp SSSEEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE----EEEEEEEEETTEEEEEEEEE-EEEEEETTEEEEEEEEE
T ss_pred CCceEEEeECCEEEEEEEecCCCcceeccccccccccc----ccCCceeccCCCcceeeeEE-EEEEEEECccceEEEEe
Confidence 35689999999999999999999999999988776654 122334556654 3455544 55999999999999999
Q ss_pred ecCCCCceeeeHHHHhhcCeEEE
Q 016931 274 LDSPNMEFLFGLDMLRKHQCIID 296 (380)
Q Consensus 274 l~~~~~d~iLG~D~L~~~~~~ID 296 (380)
++....| |||.|||+++++.|+
T Consensus 79 ~~~~~~~-ILG~D~L~~~~~~i~ 100 (100)
T PF00077_consen 79 VPDLPMN-ILGRDFLKKLNAVIN 100 (100)
T ss_dssp SSTCSSE-EEEHHHHTTTTCEEE
T ss_pred cCCCCCC-EeChhHHHHcCCEEC
Confidence 9987788 999999999999985
No 33
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=2.9e-14 Score=102.85 Aligned_cols=70 Identities=30% Similarity=0.535 Sum_probs=68.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|.|.|++++|+.+.+++++.++|+.+|+.|+++.||||.+|+|+|.||.+.|++|-++|++.-|+++|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 7899999999999999999999999999999999999999999999999999999999999999999985
No 34
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=99.47 E-value=1.1e-13 Score=107.85 Aligned_cols=65 Identities=17% Similarity=0.346 Sum_probs=62.3
Q ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 8 ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 8 ~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
++|+++.++|++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~ 69 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLK 69 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence 46899999999999999999999999999999999999999999999999999999999999865
No 35
>TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family. Members of this protein family are clan AA aspartic proteases, related to family TIGR02281. These proteins resemble retropepsins, pepsin-like proteases of retroviruses such as HIV. Members of this family are found in archaea and bacteria.
Probab=99.47 E-value=5.4e-13 Score=110.74 Aligned_cols=100 Identities=25% Similarity=0.358 Sum_probs=75.9
Q ss_pred EEeeeecC------eeEEEEEcCCccccc-cCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEE
Q 016931 198 YVDMEVNG------IPLKAFVDSGAQSTI-ISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCS 270 (380)
Q Consensus 198 yv~v~Ing------~~v~alVDTGA~~si-Is~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~ 270 (380)
|++++|.+ .+++|||||||+..+ |+.+.|+++||..... .. ...+.|. ....++....+++|+....+.
T Consensus 1 ~~~v~~~~p~~~~~~~v~~LVDTGat~~~~l~~~~a~~lgl~~~~~-~~--~~tA~G~-~~~~~v~~~~v~igg~~~~~~ 76 (107)
T TIGR03698 1 TLDVELSNPKNPEFMEVRALVDTGFSGFLLVPPDIVNKLGLPELDQ-RR--VYLADGR-EVLTDVAKASIIINGLEIDAF 76 (107)
T ss_pred CEEEEEeCCCCCCceEEEEEEECCCCeEEecCHHHHHHcCCCcccC-cE--EEecCCc-EEEEEEEEEEEEECCEEEEEE
Confidence 45666644 389999999999997 9999999999976432 22 2222232 344557788999999888666
Q ss_pred EEEecCCCCceeeeHHHHhhcCeEEEcCCCEE
Q 016931 271 FVVLDSPNMEFLFGLDMLRKHQCIIDLKENVL 302 (380)
Q Consensus 271 ~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l 302 (380)
+.+.+..+ +.||||.||++++.+||++++++
T Consensus 77 v~~~~~~~-~~LLG~~~L~~l~l~id~~~~~~ 107 (107)
T TIGR03698 77 VESLGYVD-EPLLGTELLEGLGIVIDYRNQGL 107 (107)
T ss_pred EEecCCCC-ccEecHHHHhhCCEEEehhhCcC
Confidence 66556544 89999999999999999998864
No 36
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.45 E-value=1.8e-12 Score=123.99 Aligned_cols=70 Identities=30% Similarity=0.593 Sum_probs=68.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+||||++.+.+|++++.++.||.++|++|+...| .|+++|+|||+||+|+|+.|+++|+|++++.|.|+
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvM 72 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVM 72 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEE
Confidence 89999999999999999999999999999999999 99999999999999999999999999999988776
No 37
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.44 E-value=3.8e-13 Score=134.15 Aligned_cols=71 Identities=30% Similarity=0.591 Sum_probs=68.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC---CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+||+.+|+++.|+|++++||.+||++|+.+.| +|+++|+|+|+||+|+|+++|++|||++|++|+++.
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv 74 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMV 74 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEe
Confidence 89999999999999999999999999999999998 999999999999999999999999999999998874
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.43 E-value=3.9e-13 Score=99.97 Aligned_cols=64 Identities=31% Similarity=0.597 Sum_probs=61.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCc
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED 65 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~ 65 (380)
|+|+|++.+ +.+.++|+++.||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 899999988 7899999999999999999999999999999999999999999999999999985
No 39
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=99.43 E-value=6.7e-13 Score=105.73 Aligned_cols=85 Identities=22% Similarity=0.348 Sum_probs=64.1
Q ss_pred EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEE-eEEEcCEEEeEEEEEecCC
Q 016931 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVA-PIKIGNVFYPCSFVVLDSP 277 (380)
Q Consensus 199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~-~i~ig~~~~~~~~~Vl~~~ 277 (380)
|++.|||+++.|||||||+.|+|+.++|+++.+ . .......|+|.....-..... .+++|+......+.|.+.
T Consensus 1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~~~---~--~~~~~v~gagG~~~~~v~~~~~~v~vg~~~~~~~~~v~~~- 74 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQEL---S--TTSVLIRGVSGQSQQPVTTYRTLVDLGGHTVSHSFLVVPN- 74 (86)
T ss_pred CEEEECCEEEEEEEECCCCeEEECHHHhhhccC---C--CCcEEEEeCCCcccccEEEeeeEEEECCEEEEEEEEEEcC-
Confidence 478999999999999999999999999999822 1 233455666544311111222 699999988888988885
Q ss_pred CCceeeeHHHHh
Q 016931 278 NMEFLFGLDMLR 289 (380)
Q Consensus 278 ~~d~iLG~D~L~ 289 (380)
..+.|||||||+
T Consensus 75 ~~~~lLG~dfL~ 86 (86)
T cd06095 75 CPDPLLGRDLLS 86 (86)
T ss_pred CCCcEechhhcC
Confidence 369999999984
No 40
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.41 E-value=5.1e-14 Score=113.36 Aligned_cols=72 Identities=29% Similarity=0.574 Sum_probs=69.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|++++++..|+++++++.+++||.++|++|..+.|+|+++|+|+|+|++|+|..||++|||+..||||++.+
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~r 72 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHH
Confidence 789999999999999999999999999999999999999999999999999999999999999999999854
No 41
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=99.36 E-value=8e-13 Score=101.90 Aligned_cols=54 Identities=17% Similarity=0.362 Sum_probs=50.0
Q ss_pred CCCCHHHHHHHHHHHh--CCC-CcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 19 PHETVENVKALLEVET--QVP-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 19 ~~~TV~~LK~~I~~~~--gip-~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
.++||.+||++|+.++ |++ +++|+|+|+||+|+|++||++|||++|++|||+++
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 5789999999999996 475 89999999999999999999999999999999864
No 42
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.34 E-value=4.7e-12 Score=101.17 Aligned_cols=72 Identities=11% Similarity=0.307 Sum_probs=68.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|.|+|++.+|+.+.+.|.+++|+..||..++.+.|+|+++|+|+|+|+.|.++.|+++||+++||+|+++..
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 578999999999999999999999999999999999999999999999999999999999999999999753
No 43
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=99.34 E-value=2.2e-12 Score=100.18 Aligned_cols=63 Identities=22% Similarity=0.334 Sum_probs=57.9
Q ss_pred eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC-CcccchhcCCC-CCcEEEEe
Q 016931 7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVK-DEDLVMMV 70 (380)
Q Consensus 7 ~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-D~~tL~~~gI~-dg~~I~l~ 70 (380)
...|.++.++|++++||++||.+|+.++|+|+++|+| |+|+.|. |+++|++|||+ +|+++||-
T Consensus 9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~ 73 (75)
T cd01799 9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY 73 (75)
T ss_pred ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence 3468889999999999999999999999999999999 9999886 66999999998 88999984
No 44
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.29 E-value=1.8e-12 Score=111.80 Aligned_cols=71 Identities=30% Similarity=0.558 Sum_probs=69.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|+++.++++.+++.++.||..+|++|+...|||+++|+|+|.|+.|.|+.||++|+|+..++||++-
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l 71 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 71 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEE
Confidence 89999999999999999999999999999999999999999999999999999999999999999999983
No 45
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=99.24 E-value=2.5e-11 Score=109.55 Aligned_cols=97 Identities=21% Similarity=0.237 Sum_probs=76.2
Q ss_pred ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccC-CcceeEeecCcceeEEeEEEEEeEEEcCE-EEeEEEE
Q 016931 195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLD-DRYRGVAHGVGQSEILGRIHVAPIKIGNV-FYPCSFV 272 (380)
Q Consensus 195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~-~~~~~~~~gvg~~~~~g~i~~~~i~ig~~-~~~~~~~ 272 (380)
-|.+++..|||+++++||||||+...++.+.|+|+|+..-.. ..+. +....| ......|...+|+||++ .-.++..
T Consensus 104 GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~-v~TANG-~~~AA~V~Ld~v~IG~I~~~nV~A~ 181 (215)
T COG3577 104 GHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTIT-VSTANG-RARAAPVTLDRVQIGGIRVKNVDAM 181 (215)
T ss_pred CcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceE-EEccCC-ccccceEEeeeEEEccEEEcCchhh
Confidence 478999999999999999999999999999999999965433 2222 222223 33456788889999994 4558999
Q ss_pred EecCC-CCceeeeHHHHhhcCe
Q 016931 273 VLDSP-NMEFLFGLDMLRKHQC 293 (380)
Q Consensus 273 Vl~~~-~~d~iLG~D~L~~~~~ 293 (380)
|++.. -...||||+||++++.
T Consensus 182 V~~~g~L~~sLLGMSfL~rL~~ 203 (215)
T COG3577 182 VAEDGALDESLLGMSFLNRLSG 203 (215)
T ss_pred eecCCccchhhhhHHHHhhccc
Confidence 99754 5678999999999874
No 46
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.23 E-value=3.4e-11 Score=90.70 Aligned_cols=68 Identities=32% Similarity=0.556 Sum_probs=63.7
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 4 tVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+..+|+.+.+++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++||+++|+.|++..
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 36777799999999999999999999999999999999999999999999999999999999999863
No 47
>cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples
Probab=99.16 E-value=3e-10 Score=86.31 Aligned_cols=91 Identities=33% Similarity=0.491 Sum_probs=68.4
Q ss_pred EeeeecCeeEEEEEcCCccccccCHHHHHHcCC-ccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCC
Q 016931 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGL-LRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSP 277 (380)
Q Consensus 199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL-~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~ 277 (380)
+++.+||.++++++||||++++++..++++.++ .....................+.+....+.+++..+...|.+.+..
T Consensus 1 ~~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 80 (92)
T cd00303 1 LKGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTIGIGGKTFTVDFYVLDLL 80 (92)
T ss_pred CEEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCcEEEEEEEEeCCEEEEEEEEEEcCC
Confidence 467899999999999999999999999999987 3322222222222211223334445668899999999999999998
Q ss_pred CCceeeeHHHHh
Q 016931 278 NMEFLFGLDMLR 289 (380)
Q Consensus 278 ~~d~iLG~D~L~ 289 (380)
.+++|||+|||+
T Consensus 81 ~~~~ilG~~~l~ 92 (92)
T cd00303 81 SYDVILGRPWLE 92 (92)
T ss_pred CcCEEecccccC
Confidence 999999999984
No 48
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=99.13 E-value=1.8e-10 Score=88.30 Aligned_cols=70 Identities=21% Similarity=0.451 Sum_probs=65.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+|+|++.+|+.+.+.|.+++++..|++.++.+.|+|+ +.++|+|+|+.|.++.|+++||+++||+|+|+
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence 68999999999999999999999999999999999999 99999999999999999999999999999985
No 49
>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identifi
Probab=99.07 E-value=9.7e-10 Score=88.91 Aligned_cols=86 Identities=22% Similarity=0.238 Sum_probs=72.9
Q ss_pred eeeecC-eeEEEEEcCCccccccCHHHHHHcC---CccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEec
Q 016931 200 DMEVNG-IPLKAFVDSGAQSTIISKSCAERCG---LLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD 275 (380)
Q Consensus 200 ~v~Ing-~~v~alVDTGA~~siIs~~~a~rlg---L~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~ 275 (380)
+++||| ++++++|||||+.|+|+.+.++++| ..++..+.....+++.......|.+ .+.+++++..+++.|+|++
T Consensus 2 ~~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~~-~~~v~~~~~~~~~~f~Vvd 80 (93)
T cd05481 2 DMKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGGV-KLKCRYRNPKYNLTFQVVK 80 (93)
T ss_pred ceEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEEE-EEEEEECCcEEEEEEEEEC
Confidence 678999 9999999999999999999999998 6667776776677776677888884 5689999999999999999
Q ss_pred CCCCceeeeHHH
Q 016931 276 SPNMEFLFGLDM 287 (380)
Q Consensus 276 ~~~~d~iLG~D~ 287 (380)
.. ..-|||++.
T Consensus 81 ~~-~~~lLG~~~ 91 (93)
T cd05481 81 EE-GPPLLGAKA 91 (93)
T ss_pred CC-CCceEcccc
Confidence 75 346888763
No 50
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=99.07 E-value=2.8e-10 Score=91.21 Aligned_cols=60 Identities=22% Similarity=0.352 Sum_probs=56.4
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEeec
Q 016931 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~~~ 72 (380)
..++|++++||.+||.+|..++++||++|+|+|+|+.|.|+ +||++|||..|++|+|...
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence 56889999999999999999999999999999999999875 8999999999999999864
No 51
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.04 E-value=1e-09 Score=87.05 Aligned_cols=71 Identities=14% Similarity=0.254 Sum_probs=59.3
Q ss_pred EEEEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-cCCe-----ec-CCcccchhcCCCCCcEEEEeec
Q 016931 2 RITVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGR-----EM-NNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 2 ~ItVk~~~-g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~~Gk-----~L-~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
.|.|+... ....+..+++++||.+||.+++..+|+|+..|+|. |.|+ .| +|+++|+.||+++|++|||+..
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~ 81 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDV 81 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeC
Confidence 45666543 33455669999999999999999999999999995 7887 45 4668999999999999999975
No 52
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=99.00 E-value=6.1e-10 Score=91.77 Aligned_cols=74 Identities=14% Similarity=0.091 Sum_probs=60.7
Q ss_pred EEEEEeCCCCE-EEEEeCCCCCHHHHHHHHHHHh-----CCC--CcCeEEecCCeecCCcccchhcC------CCCCcEE
Q 016931 2 RITVMTADEQI-ISLDVDPHETVENVKALLEVET-----QVP--LQQQQLLYNGREMNNAEKLSALG------VKDEDLV 67 (380)
Q Consensus 2 ~ItVk~~~g~~-~~i~V~~~~TV~~LK~~I~~~~-----gip--~~~q~Li~~Gk~L~D~~tL~~~g------I~dg~~I 67 (380)
.|.++..+|.- =...+++++||.+||++|+... ++| +++|+|||.||+|+|++||++|+ +....|+
T Consensus 6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm 85 (113)
T cd01814 6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM 85 (113)
T ss_pred EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence 35666667743 4567889999999999999544 555 99999999999999999999999 6677899
Q ss_pred EEeecCCC
Q 016931 68 MMVSNAAS 75 (380)
Q Consensus 68 ~l~~~~~~ 75 (380)
||+..++.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99976544
No 53
>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 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. Ty3 is a gypsy-type, retrovirus-like, element found in the budding yeast. The Ty3 aspartyl protease is required for processing of the viral polyprotein into its mature species [].
Probab=98.99 E-value=4.3e-09 Score=92.04 Aligned_cols=97 Identities=21% Similarity=0.336 Sum_probs=78.2
Q ss_pred eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcc--eeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY--RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV 273 (380)
Q Consensus 196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~--~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V 273 (380)
-+-+++.|+|.++++|+||||-.|||+++.+++|+|+......+ .|...+ ...........++.+++..+...++|
T Consensus 34 T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~--~~~~tsEAv~ld~~i~n~~i~i~aYV 111 (177)
T PF12384_consen 34 TAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSG--ESATTSEAVTLDFYIDNKLIDIAAYV 111 (177)
T ss_pred EEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccC--CceEEEEeEEEEEEECCeEEEEEEEE
Confidence 45678899999999999999999999999999999976544333 233222 33334444555899999999999999
Q ss_pred ecCCCCceeeeHHHHhhcCeE
Q 016931 274 LDSPNMEFLFGLDMLRKHQCI 294 (380)
Q Consensus 274 l~~~~~d~iLG~D~L~~~~~~ 294 (380)
++..+.|+|+|-.+|++|.-.
T Consensus 112 ~d~m~~dlIIGnPiL~ryp~l 132 (177)
T PF12384_consen 112 TDNMDHDLIIGNPILDRYPTL 132 (177)
T ss_pred eccCCcceEeccHHHhhhHHH
Confidence 999999999999999998755
No 54
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=98.96 E-value=1.9e-09 Score=83.01 Aligned_cols=65 Identities=31% Similarity=0.346 Sum_probs=49.5
Q ss_pred ccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCC-cceeEeecCcceeEEeEEEE
Q 016931 193 RVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQSEILGRIHV 257 (380)
Q Consensus 193 ~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~-~~~~~~~gvg~~~~~g~i~~ 257 (380)
....+|++|.|||+.+.+||||||+++|||.++|+|||++..... +......+.....+.|.++.
T Consensus 5 ~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~~~ 70 (72)
T PF13975_consen 5 DPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVAEN 70 (72)
T ss_pred cCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEEEe
Confidence 345789999999999999999999999999999999999766554 34333333334555555543
No 55
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.91 E-value=4.4e-09 Score=83.89 Aligned_cols=72 Identities=19% Similarity=0.328 Sum_probs=57.9
Q ss_pred EEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC----C---eecC-CcccchhcCCCCCcEEEEee
Q 016931 2 RITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN----G---REMN-NAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 2 ~ItVk~~~g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~----G---k~L~-D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+|..... ...+..++.+.||.+||.+|+..+|+|++.|+|.+. + ..+. |.++|+.||+++|++|||..
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD 82 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence 567776554 488899999999999999999999999999999865 2 1243 56899999999999999997
Q ss_pred cC
Q 016931 72 NA 73 (380)
Q Consensus 72 ~~ 73 (380)
..
T Consensus 83 ~~ 84 (87)
T PF14560_consen 83 TN 84 (87)
T ss_dssp -T
T ss_pred CC
Confidence 63
No 56
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=2.3e-08 Score=83.64 Aligned_cols=94 Identities=20% Similarity=0.235 Sum_probs=76.3
Q ss_pred eEEEEEcCCcc-ccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeH
Q 016931 207 PLKAFVDSGAQ-STIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGL 285 (380)
Q Consensus 207 ~v~alVDTGA~-~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~ 285 (380)
-..+|||||++ ..+++++.|+++|+...-..+......| ...-.++.+.++|+|........+.+....+ ++|+
T Consensus 26 ~~~~LiDTGFtg~lvlp~~vaek~~~~~~~~~~~~~a~~~----~v~t~V~~~~iki~g~e~~~~Vl~s~~~~~~-liG~ 100 (125)
T COG5550 26 VYDELIDTGFTGYLVLPPQVAEKLGLPLFSTIRIVLADGG----VVKTSVALATIKIDGVEKVAFVLASDNLPEP-LIGV 100 (125)
T ss_pred EeeeEEecCCceeEEeCHHHHHhcCCCccCChhhhhhcCC----EEEEEEEEEEEEECCEEEEEEEEccCCCccc-chhh
Confidence 35569999999 9999999999999976644343222222 5566789999999998888877887777777 9999
Q ss_pred HHHhhcCeEEEcCCCEEEEc
Q 016931 286 DMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 286 D~L~~~~~~ID~~~~~l~i~ 305 (380)
+||+.++.++|+++++|+-.
T Consensus 101 ~~lk~l~~~vn~~~g~LEk~ 120 (125)
T COG5550 101 NLLKLLGLVVNPKTGKLEKP 120 (125)
T ss_pred hhhhhccEEEcCCcceEecc
Confidence 99999999999999999864
No 57
>PLN02560 enoyl-CoA reductase
Probab=98.77 E-value=2.3e-08 Score=97.69 Aligned_cols=72 Identities=22% Similarity=0.352 Sum_probs=65.2
Q ss_pred CEEEEEeCCCCEE---EEEeCCCCCHHHHHHHHHHHhCC-CCcCeEEecC---C----eecCCcccchhcCCCCCcEEEE
Q 016931 1 MRITVMTADEQII---SLDVDPHETVENVKALLEVETQV-PLQQQQLLYN---G----REMNNAEKLSALGVKDEDLVMM 69 (380)
Q Consensus 1 M~ItVk~~~g~~~---~i~V~~~~TV~~LK~~I~~~~gi-p~~~q~Li~~---G----k~L~D~~tL~~~gI~dg~~I~l 69 (380)
|+|+|+..+|+.+ +++++++.||+|||+.|+++.++ ++++|+|++. | +.|+|+++|+++|+++|++|++
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 8999998888886 79999999999999999999986 8999999972 3 4789999999999999999999
Q ss_pred eec
Q 016931 70 VSN 72 (380)
Q Consensus 70 ~~~ 72 (380)
.+-
T Consensus 81 kDL 83 (308)
T PLN02560 81 KDL 83 (308)
T ss_pred EeC
Confidence 875
No 58
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=9.5e-09 Score=110.55 Aligned_cols=73 Identities=21% Similarity=0.440 Sum_probs=69.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS 75 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~ 75 (380)
.|+||+++.++.++.|...+||.+||..|..+.+|+.+.|||||.|++|.|++++.+|+| ||-+|||+.++++
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp 76 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPP 76 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCC
Confidence 478999999999999999999999999999999999999999999999999999999999 9999999977544
No 59
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=98.59 E-value=1.7e-07 Score=73.04 Aligned_cols=69 Identities=20% Similarity=0.323 Sum_probs=55.0
Q ss_pred EEEEEeCC-CCEEEEEe-CCCCCHHHHHHHHHHHhC-CCCcCeEEe--cCCeecCCcccchhcCCCCCcEEEEe
Q 016931 2 RITVMTAD-EQIISLDV-DPHETVENVKALLEVETQ-VPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~-g~~~~i~V-~~~~TV~~LK~~I~~~~g-ip~~~q~Li--~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
+|.++..+ .....+++ +++.||.+||..|+...+ +++++|+|. +.|+.|.|+++|.+||+++|++|++-
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVR 75 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEEe
Confidence 35555544 23323444 488999999999999986 578999985 89999999999999999999999974
No 60
>cd06094 RP_Saci_like RP_Saci_like, retropepsin family. Retropepsin on retrotransposons with long terminal repeats (LTR) including Saci-1, -2 and -3 of Schistosoma mansoni. Retropepsins are related to fungal and mammalian pepsins. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified
Probab=98.55 E-value=2.5e-07 Score=73.52 Aligned_cols=79 Identities=23% Similarity=0.338 Sum_probs=58.2
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcC-EEEeEEEEEecCCCCceeeeH
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN-VFYPCSFVVLDSPNMEFLFGL 285 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~-~~~~~~~~Vl~~~~~d~iLG~ 285 (380)
.++|||||||.+|+|.....++- .....+...+++.-..++.| .+...+.+|. ..+...|.|.|.. ..|||.
T Consensus 9 ~~~fLVDTGA~vSviP~~~~~~~----~~~~~~~l~AANgt~I~tyG-~~~l~ldlGlrr~~~w~FvvAdv~--~pIlGa 81 (89)
T cd06094 9 GLRFLVDTGAAVSVLPASSTKKS----LKPSPLTLQAANGTPIATYG-TRSLTLDLGLRRPFAWNFVVADVP--HPILGA 81 (89)
T ss_pred CcEEEEeCCCceEeecccccccc----ccCCceEEEeCCCCeEeeee-eEEEEEEcCCCcEEeEEEEEcCCC--cceecH
Confidence 47999999999999998877653 12222323333323458888 4555899998 5899999998874 479999
Q ss_pred HHHhhcC
Q 016931 286 DMLRKHQ 292 (380)
Q Consensus 286 D~L~~~~ 292 (380)
|||++|+
T Consensus 82 DfL~~~~ 88 (89)
T cd06094 82 DFLQHYG 88 (89)
T ss_pred HHHHHcC
Confidence 9999987
No 61
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.55 E-value=4.9e-07 Score=67.65 Aligned_cols=70 Identities=29% Similarity=0.549 Sum_probs=65.9
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
+++++..|+.+.+++.+..++..+|.+|+...|+|.++|++.+.|+.|.|+.+|.+|+|..+.++++...
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~ 71 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLS 71 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEe
Confidence 5677788999999999999999999999999999999999999999999999999999999999998754
No 62
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=98.42 E-value=7.5e-07 Score=73.38 Aligned_cols=71 Identities=20% Similarity=0.267 Sum_probs=60.2
Q ss_pred CEEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCC-------CCCcEEEEee
Q 016931 1 MRITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV-------KDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI-------~dg~~I~l~~ 71 (380)
|.+++.....+ ++.++..++.||-+||..|+.-...||++|+|+..+.+|+|++||++||+ +...+|-|.-
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~ 79 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAF 79 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEE
Confidence 56666655444 57789999999999999999999999999999977888999999999999 5577776653
No 63
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.39 E-value=5.5e-07 Score=70.77 Aligned_cols=69 Identities=25% Similarity=0.463 Sum_probs=43.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC---eec--CCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG---REM--NNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G---k~L--~D~~tL~~~gI~dg~~I~l~ 70 (380)
|-|.|++.+| .+.|++++++|+.+||++|++.+++|.+.|.|..+- ..+ .++++|+++||+.||+|+|.
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 5677888665 467899999999999999999999999999886432 334 35689999999999999984
No 64
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.36 E-value=2.9e-06 Score=70.77 Aligned_cols=73 Identities=22% Similarity=0.335 Sum_probs=54.6
Q ss_pred EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhC-------CCCcCeEEecCCeecCCcccchhcCCCCCc------EE
Q 016931 2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQ-------VPLQQQQLLYNGREMNNAEKLSALGVKDED------LV 67 (380)
Q Consensus 2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~g-------ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~------~I 67 (380)
.|++...+|. +..+.+++++||.+||+.|..+.. ..++..||||.||.|.|++||+++++..|+ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 3556666888 788999999999999999997641 244678999999999999999999998877 57
Q ss_pred EEeecCC
Q 016931 68 MMVSNAA 74 (380)
Q Consensus 68 ~l~~~~~ 74 (380)
||+..+.
T Consensus 84 Hlvvrp~ 90 (111)
T PF13881_consen 84 HLVVRPN 90 (111)
T ss_dssp EEEE-SS
T ss_pred EEEecCC
Confidence 8876543
No 65
>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain an aspartic peptidase signature that belongs to MEROPS peptidase family A3, subfamily A3A (cauliflower mosaic virus-type endopeptidase, clan AA). Cauliflower mosaic virus belongs to the Retro-transcribing viruses, which have a double-stranded DNA genome. The genome includes an open reading frame (ORF V) that shows similarities to the pol gene of retroviruses. This ORF codes for a polyprotein that includes a reverse transcriptase, which, on the basis of a DTG triplet near the N terminus, was suggested to include an aspartic protease. The presence of an aspartic protease has been confirmed by mutational studies, implicating Asp-45 in catalysis. The protease releases itself from the polyprotein and is involved in reactions required to process the ORF IV polyprotein, which includes the viral coat protein []. The viral aspartic peptidase signature has also been found associated with a polyprotein encoded by integrated pararetrovirus-like sequences in the genome of Nicotiana tabacum (Common tobacco) []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis
Probab=98.31 E-value=2.1e-06 Score=78.31 Aligned_cols=102 Identities=18% Similarity=0.353 Sum_probs=75.9
Q ss_pred eeEEeeee--cC---eeEEEEEcCCccccccCHHHH-----HHcCCccccCCcceeEeecC-cc-eeEEeEEEEEeEEEc
Q 016931 196 MLYVDMEV--NG---IPLKAFVDSGAQSTIISKSCA-----ERCGLLRLLDDRYRGVAHGV-GQ-SEILGRIHVAPIKIG 263 (380)
Q Consensus 196 ~lyv~v~I--ng---~~v~alVDTGA~~siIs~~~a-----~rlgL~~~~~~~~~~~~~gv-g~-~~~~g~i~~~~i~ig 263 (380)
..||.+++ .| ..+.++|||||+.-+++..+. +++ .......|. +. ..+.-++....|.|+
T Consensus 4 siyI~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~we~~--------~~~i~v~~an~~~~~i~~~~~~~~i~I~ 75 (201)
T PF02160_consen 4 SIYIKVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEYWEKS--------KKPIKVKGANGSIIQINKKAKNGKIQIA 75 (201)
T ss_pred cEEEEEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHHHHhC--------CCcEEEEEecCCceEEEEEecCceEEEc
Confidence 46777765 44 347889999999988776543 332 222344444 33 567778888999999
Q ss_pred CEEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 264 NVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 264 ~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
+..|..++.-.-..+.|+|||++||+.++..|.+.+ .+.|..
T Consensus 76 ~~~F~IP~iYq~~~g~d~IlG~NF~r~y~Pfiq~~~-~I~f~~ 117 (201)
T PF02160_consen 76 DKIFRIPTIYQQESGIDIILGNNFLRLYEPFIQTED-RIQFHK 117 (201)
T ss_pred cEEEeccEEEEecCCCCEEecchHHHhcCCcEEEcc-EEEEEe
Confidence 999998886666679999999999999999999974 677754
No 66
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.31 E-value=2.9e-06 Score=60.30 Aligned_cols=67 Identities=30% Similarity=0.436 Sum_probs=60.7
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+..++....+.++++.|+.+||..|..++|++++.+.|+++|..+.+...+..+++.+|++|++..
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444678888999999999999999999999999999999999999999888999999999999863
No 67
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=98.23 E-value=3.9e-06 Score=74.57 Aligned_cols=69 Identities=17% Similarity=0.134 Sum_probs=41.8
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEE-EEEeEEEcCEEEeEEEEEec
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI-HVAPIKIGNVFYPCSFVVLD 275 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i-~~~~i~ig~~~~~~~~~Vl~ 275 (380)
.+++|+|||||.|||+.++|++|+|.....+.......|....+....+ ..+.+.+++..+.+.+.+++
T Consensus 12 ~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~i~alvv~ 81 (164)
T PF05585_consen 12 EARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTFGSSSPKSKKCVRVKISSRTSNNSLEIEALVVP 81 (164)
T ss_pred EEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEeccCccCccceeEEEEEEEEecCCCceEEEEEecC
Confidence 5899999999999999999999999654332121111121111222211 12345556655777776666
No 68
>cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases. This is a subfamily of retropepsins. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This gro
Probab=98.22 E-value=4.8e-06 Score=66.46 Aligned_cols=86 Identities=19% Similarity=0.189 Sum_probs=59.9
Q ss_pred eeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCC
Q 016931 200 DMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNM 279 (380)
Q Consensus 200 ~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~ 279 (380)
.++|+|+.+.+|+||||..|+|+.....+-- ... .......|+|.....-+...+.+++.+......+.|.+..-.
T Consensus 2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~p~~w--~~~--~~~~~i~GIGG~~~~~~~~~v~i~i~~~~~~g~vlv~~~~~P 77 (87)
T cd05482 2 TLYINGKLFEGLLDTGADVSIIAENDWPKNW--PIQ--PAPSNLTGIGGAITPSQSSVLLLEIDGEGHLGTILVYVLSLP 77 (87)
T ss_pred EEEECCEEEEEEEccCCCCeEEcccccCCCC--ccC--CCCeEEEeccceEEEEEEeeEEEEEcCCeEEEEEEEccCCCc
Confidence 5789999999999999999999975443211 011 122366677755444455567899998877778888775233
Q ss_pred ceeeeHHHHh
Q 016931 280 EFLFGLDMLR 289 (380)
Q Consensus 280 d~iLG~D~L~ 289 (380)
.-|||-|.|.
T Consensus 78 ~nllGRd~L~ 87 (87)
T cd05482 78 VNLWGRDILS 87 (87)
T ss_pred ccEEccccCC
Confidence 4699988873
No 69
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=1.3e-05 Score=80.65 Aligned_cols=71 Identities=24% Similarity=0.310 Sum_probs=65.2
Q ss_pred EEEEeCCCCEEEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931 3 ITVMTADEQIISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (380)
Q Consensus 3 ItVk~~~g~~~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~ 74 (380)
|.|+. .|+.|.++ ++.+.|+..||+++...+|++|++|+++++|+.+.|+-.++..+||+|.+|+++-.+.
T Consensus 6 v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 6 VIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred Eeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 66777 77889988 9999999999999999999999999999999999999899999999999999995543
No 70
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=5.4e-06 Score=61.25 Aligned_cols=68 Identities=12% Similarity=0.129 Sum_probs=60.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l 69 (380)
++.+...-|+...+...+++||+|||++|+.++|..++..+|--.+.+++|.-+|++|.|++|.-+.+
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lel 70 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLEL 70 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEE
Confidence 45566666899999999999999999999999999999999987788899999999999999987755
No 71
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=6.5e-05 Score=72.11 Aligned_cols=71 Identities=15% Similarity=0.338 Sum_probs=61.6
Q ss_pred CEEEEEeCC-C--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTAD-E--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~-g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|.+.|.... | ..++++|+.+.+|.+||+.++.+.|+|+++.+++|.||.|.|+.|+..+.+.--+.+|++.
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~ 74 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIML 74 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhhc
Confidence 566776542 2 3478899999999999999999999999999999999999999999988888888888873
No 72
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.62 E-value=0.00015 Score=56.61 Aligned_cols=69 Identities=23% Similarity=0.337 Sum_probs=50.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc------CeEEe-cCCeecCCcccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ------QQQLL-YNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~------~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
+|+|...+|+.+.+.++.+.+|.+|...|...++.+.. ..+|. -+|..|+++.||+++||.||+++++.
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L~ 79 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVLR 79 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE-
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEeC
Confidence 56777755688999999999999999999998886432 35666 68999999999999999999999873
No 73
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=97.49 E-value=0.00069 Score=51.79 Aligned_cols=71 Identities=15% Similarity=0.290 Sum_probs=60.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC---C--eecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN---G--REMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~---G--k~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
++|+|+-.++....+.|+|..+|..+|++|....+++- .|+|.|. | ..|.+..+|++|||=.+-.|.|+..
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT 76 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET 76 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence 47999987888899999999999999999999999986 9999982 3 3477889999999987777776643
No 74
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=0.0016 Score=52.61 Aligned_cols=71 Identities=13% Similarity=0.337 Sum_probs=64.0
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
.|.|+..++....+.|..++++..|+..-+.+.|++.+..+++|+|+.++..+|=++++.++||.|-+...
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~ 92 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQE 92 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEee
Confidence 35566656777889999999999999999999999999999999999999999999999999999998753
No 75
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.14 E-value=0.0006 Score=54.53 Aligned_cols=62 Identities=21% Similarity=0.277 Sum_probs=50.3
Q ss_pred CEEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-CC-eecCCcccchhcCCC
Q 016931 1 MRITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY-NG-REMNNAEKLSALGVK 62 (380)
Q Consensus 1 M~ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-~G-k~L~D~~tL~~~gI~ 62 (380)
|.++++.. +..++.++..++.||-+||.+++.-+.-|++.|+|+. .. ..|.|.+||+++|..
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence 44555443 3445788999999999999999999999999999986 33 678899999999653
No 76
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.95 E-value=0.0033 Score=48.04 Aligned_cols=69 Identities=12% Similarity=0.246 Sum_probs=56.2
Q ss_pred CEEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-----cCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931 1 MRITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPL-----QQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (380)
Q Consensus 1 M~ItVk~~--~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-----~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l 69 (380)
|+|||-.. +|+.|.+.++.-.++..|-..+.+...+.. .+.+..-+++.|.++..|.+|||.+||.+.+
T Consensus 5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 45666433 589999999999999999998888765432 4567778999999999999999999999865
No 77
>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=96.91 E-value=0.0064 Score=47.46 Aligned_cols=69 Identities=17% Similarity=0.319 Sum_probs=59.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcC-eEEe--cCCeecCCc--ccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQ-QQLL--YNGREMNNA--EKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~-q~Li--~~Gk~L~D~--~tL~~~gI~dg~~I~l~ 70 (380)
+|.|+.++|+.+.-.+.+++||.+|...|......+... ..|+ |-.+.+.++ .||+++|+.++.+|+|.
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 578899999999999999999999999999998877765 6775 677888754 69999999999999874
No 78
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=96.75 E-value=0.0058 Score=46.05 Aligned_cols=63 Identities=10% Similarity=0.078 Sum_probs=46.6
Q ss_pred eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931 7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (380)
Q Consensus 7 ~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l 69 (380)
+.+++.+.+.+.++.++.++-+....++|+++++..|.|++|.|+-+.++.-.|+.+|..+.|
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 347888999999999999999999999999999999999999999999999999999998754
No 79
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.74 E-value=0.012 Score=45.96 Aligned_cols=69 Identities=12% Similarity=0.168 Sum_probs=58.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~ 70 (380)
+|.|+.++|+.+.-.+..+.||++|.+.|....+.......|+ |-.+.+.+ +.||.+.|+.+..+|.|.
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~ 79 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVLE 79 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEEe
Confidence 5788999999999999999999999999977666666677776 67788864 479999999999888763
No 80
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0053 Score=55.95 Aligned_cols=74 Identities=19% Similarity=0.258 Sum_probs=57.9
Q ss_pred EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-cCC-----eecCC-cccchhcCCCCCcEEEEeecC
Q 016931 2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNG-----REMNN-AEKLSALGVKDEDLVMMVSNA 73 (380)
Q Consensus 2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~~G-----k~L~D-~~tL~~~gI~dg~~I~l~~~~ 73 (380)
+|.|.+..-. .....+++++||.+||.+++..+|.+++.+.|. |+| -.|+| +..|..|+..||..||++...
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~ 82 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSN 82 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecC
Confidence 4555543322 245678899999999999999999999999987 555 23655 589999999999999999864
Q ss_pred CC
Q 016931 74 AS 75 (380)
Q Consensus 74 ~~ 75 (380)
+.
T Consensus 83 ~~ 84 (234)
T KOG3206|consen 83 AQ 84 (234)
T ss_pred cc
Confidence 43
No 81
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.41 E-value=0.026 Score=44.03 Aligned_cols=68 Identities=16% Similarity=0.315 Sum_probs=56.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~ 70 (380)
+|.|+.++|+.+.-.++.++|+.++.+.|....+.+ ....|+ |-.|.+.+ +.||.+.|+.+..+|+|-
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 578899999999999999999999999999776543 456666 77888864 479999999999998874
No 82
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.36 E-value=0.009 Score=55.99 Aligned_cols=72 Identities=17% Similarity=0.260 Sum_probs=55.8
Q ss_pred CEEEEEeCCC-CEEE-EEeCCCCCHHHHHHHHHH-HhCCCCcCeEEe----cCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADE-QIIS-LDVDPHETVENVKALLEV-ETQVPLQQQQLL----YNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g-~~~~-i~V~~~~TV~~LK~~I~~-~~gip~~~q~Li----~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|.|++...++ -... .+.+...|+.|+++.+.. ...+.+..+|+. -+|+.|.|+.+|++||...|++|.+.+-
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vKDL 79 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVKDL 79 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEecc
Confidence 8899988665 2333 678889999999965555 456777554443 4799999999999999999999998764
No 83
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=96.35 E-value=0.034 Score=42.97 Aligned_cols=66 Identities=14% Similarity=0.315 Sum_probs=53.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEE
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMM 69 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l 69 (380)
+|.|+.++|+.+.-.+..++||.+|.+.|.....- .....|+ |-.+.+.+ +.||.+.|+.+ +++.+
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~ 74 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ 74 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence 57889999999999999999999999999887543 4556666 66788865 58999999994 55444
No 84
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=96.29 E-value=0.011 Score=48.22 Aligned_cols=59 Identities=25% Similarity=0.338 Sum_probs=44.8
Q ss_pred EEEEEeCCC-CEEEEEeC--CCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcC
Q 016931 2 RITVMTADE-QIISLDVD--PHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALG 60 (380)
Q Consensus 2 ~ItVk~~~g-~~~~i~V~--~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~g 60 (380)
.|+|+..++ --..++++ ...||..||.+|....+ ..-.+++|||+||.|.|...|+..-
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l 65 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSEL 65 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhh
Confidence 366776552 22567776 78999999999999983 3446789999999999987776653
No 85
>PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 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. This entry represents a small family of fungal retroviral aspartyl peptidases.
Probab=96.29 E-value=0.014 Score=47.31 Aligned_cols=74 Identities=19% Similarity=0.253 Sum_probs=53.3
Q ss_pred EEEEEcCCccccccCHHHHHHcCCccccCCcce-eEe-ecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeee
Q 016931 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVA-HGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFG 284 (380)
Q Consensus 208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~-~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG 284 (380)
+..|+|||||.++|..+.++...|+.. .|. .+. .|+--.++-.+.....|.+.|+.+...|.|+..-....-+.
T Consensus 48 ipclidtgaq~niiteetvrahklptr---pw~~sviyggvyp~kinrkt~kl~i~lngisikteflvvkkfshpaais 123 (137)
T PF12382_consen 48 IPCLIDTGAQVNIITEETVRAHKLPTR---PWSQSVIYGGVYPNKINRKTIKLNINLNGISIKTEFLVVKKFSHPAAIS 123 (137)
T ss_pred ceeEEccCceeeeeehhhhhhccCCCC---cchhheEeccccccccccceEEEEEEecceEEEEEEEEEEeccCcceEE
Confidence 567999999999999999998877432 222 133 33434566667777788999999999999998654444333
No 86
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.11 E-value=0.045 Score=42.81 Aligned_cols=66 Identities=14% Similarity=0.220 Sum_probs=53.6
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCC-CcCeEEe--cCCeecCC-cccchhcCCCCCcEE
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVP-LQQQQLL--YNGREMNN-AEKLSALGVKDEDLV 67 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip-~~~q~Li--~~Gk~L~D-~~tL~~~gI~dg~~I 67 (380)
+|-|+.++|+.+...+..+.||.+|.+.|..+.+-+ .....|. |-.|.|.| +.||++.|+.+..++
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence 578899999999999999999999999999876432 3456675 77888876 589999999865443
No 87
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.88 E-value=0.079 Score=41.79 Aligned_cols=69 Identities=13% Similarity=0.240 Sum_probs=60.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEee
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~~ 71 (380)
+|.|+.++|+...-.+..+.++.+|...|.. .|.+++...|+ |--|.+.. +.||.+.|+.+..+|.|-.
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 6889999999999999999999999999998 57788888888 67788753 4799999999999998853
No 88
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.49 E-value=0.12 Score=40.95 Aligned_cols=68 Identities=9% Similarity=0.129 Sum_probs=55.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec--CCeecC--------CcccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMN--------NAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~--------D~~tL~~~gI~dg~~I~l~ 70 (380)
+|-|+.++|+.+.-.+..+.||++|...|... +-.++...|+. --|.+. .+.||++.|+.+..+|.|.
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~ 83 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ 83 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence 57889999999989999999999999999654 45567788874 447775 2579999999988888774
No 89
>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]
Probab=95.45 E-value=0.04 Score=48.16 Aligned_cols=100 Identities=25% Similarity=0.343 Sum_probs=65.8
Q ss_pred eeecCe--eEEEEEcCCccccccCHHHHHHc---CC-------c---cccCC---------cceeEeecCcceeEEeEEE
Q 016931 201 MEVNGI--PLKAFVDSGAQSTIISKSCAERC---GL-------L---RLLDD---------RYRGVAHGVGQSEILGRIH 256 (380)
Q Consensus 201 v~Ing~--~v~alVDTGA~~siIs~~~a~rl---gL-------~---~~~~~---------~~~~~~~gvg~~~~~g~i~ 256 (380)
+.++|- .++|=+||||..|.++..-.++. |- . ..... +...+-.+.|.....-.|-
T Consensus 31 ~~l~~l~~~~kAkiDTGA~TSsL~A~dI~~fkRdGe~WVRF~~~~~~~~~~~~~~~e~pvi~~ikvR~s~~~~~e~RpVV 110 (162)
T COG4067 31 VSLPGLKIQLKAKIDTGAVTSSLSASDIERFKRDGERWVRFRLADTDNLDQRSEECEAPVIRKIKVRSSSGSRAERRPVV 110 (162)
T ss_pred EEcCcccceeeeeecccceeeeEEeecceeeeeCCceEEEEEeecccCccccceeeccceEEEEEEecCCCCccccccEE
Confidence 345554 48999999999999987665543 11 0 00000 0111112222212223344
Q ss_pred EEeEEEcCEEEeEEEEEecC--CCCceeeeHHHHhhcCeEEEcCCC
Q 016931 257 VAPIKIGNVFYPCSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKEN 300 (380)
Q Consensus 257 ~~~i~ig~~~~~~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~ 300 (380)
...|++|+...+..|..-|. ..+.+|||--+|+++++.+|..+.
T Consensus 111 ~~~l~lG~~~~~~E~tLtDR~~m~Yp~LlGrk~l~~~~~~VDpSr~ 156 (162)
T COG4067 111 RLTLCLGGRILPIEFTLTDRSNMRYPVLLGRKALRHFGAVVDPSRK 156 (162)
T ss_pred EEEEeeCCeeeeEEEEeecccccccceEecHHHHhhCCeEECchhh
Confidence 45899999999999999994 468999999999999999998754
No 90
>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=95.40 E-value=0.14 Score=40.11 Aligned_cols=68 Identities=12% Similarity=0.263 Sum_probs=58.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC--C-cccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--D-~~tL~~~gI~dg~~I~l~ 70 (380)
+|-|+.++|+...-.+..+.++++|...|..+ |.++...+|+ |--|.+. | +.||.+.|+.+..+|.|-
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 57889999999989999999999999999875 7777888887 6778885 2 479999999999998874
No 91
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=95.31 E-value=0.03 Score=41.39 Aligned_cols=41 Identities=29% Similarity=0.491 Sum_probs=33.7
Q ss_pred HHHHHHHhcCHH----HHHHHhhcCHHHHHHhcCCCHHHHHHHHHH
Q 016931 94 AAFQQHIRNDAN----LMTQLFQSDPELAQVLLGNDLNKLQDLLRE 135 (380)
Q Consensus 94 ~~~~q~~l~nP~----~l~qL~~~nP~La~ai~~~d~~~~~~~l~~ 135 (380)
..+|+.+.+||+ ++++|.++||+|++.|. .|++.|-+++..
T Consensus 11 ~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~-~n~e~Fl~ll~~ 55 (59)
T PF09280_consen 11 QQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQ-QNPEEFLRLLNE 55 (59)
T ss_dssp HHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHH-HTHHHHHHHHHS
T ss_pred HHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHH-HCHHHHHHHHcC
Confidence 678999999975 67788889999999996 699999888764
No 92
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=95.14 E-value=0.11 Score=50.09 Aligned_cols=88 Identities=18% Similarity=0.488 Sum_probs=57.5
Q ss_pred eEEeeeec--CeeEEEEEcCCccccccC-HHHHHH--cCCccccCC----cce------eEeecCcceeEEeEEEEEeEE
Q 016931 197 LYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAER--CGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPIK 261 (380)
Q Consensus 197 lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~r--lgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~ 261 (380)
.|++++|. +++++++||||+..+.+. ..|... |......+. .+. ....| .....|.+....+.
T Consensus 2 Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~~~~~~~~~y~~~~S~t~~~~~~~~~~~y~--~g~~~G~~~~D~v~ 79 (317)
T PF00026_consen 2 YYINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSCSSCASSGFYNPSKSSTFSNQGKPFSISYG--DGSVSGNLVSDTVS 79 (317)
T ss_dssp EEEEEEETTTTEEEEEEEETTBSSEEEEBTTECSHTHHCTSC-BBGGGSTTEEEEEEEEEEEET--TEEEEEEEEEEEEE
T ss_pred eEEEEEECCCCeEEEEEEecccceeeeceeccccccccccccccccccccccccceeeeeeecc--CcccccccccceEe
Confidence 48899997 899999999999988775 333332 222111111 111 12233 33488999999999
Q ss_pred EcCEEEe-EEEEEecC--------CCCceeeeHH
Q 016931 262 IGNVFYP-CSFVVLDS--------PNMEFLFGLD 286 (380)
Q Consensus 262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D 286 (380)
||+..+. ..|..+.. ...|+||||-
T Consensus 80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg 113 (317)
T PF00026_consen 80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLG 113 (317)
T ss_dssp ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-S
T ss_pred eeeccccccceecccccccccccccccccccccc
Confidence 9997666 66666654 3579999998
No 93
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=94.96 E-value=0.092 Score=41.77 Aligned_cols=69 Identities=13% Similarity=0.298 Sum_probs=61.1
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+.|...+|..+.+.|..+++...|....+.+-|-..+..|++|+|+-++-++|=++++..++|.|-++.
T Consensus 27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~ 95 (103)
T COG5227 27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVT 95 (103)
T ss_pred eEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHH
Confidence 445555677788899999999999999999999999999999999999999999999999999886653
No 94
>cd05470 pepsin_retropepsin_like Cellular and retroviral pepsin-like aspartate proteases. This family includes both cellular and retroviral pepsin-like aspartate proteases. The cellular pepsin and pepsin-like enzymes are twice as long as their retroviral counterparts. The cellular pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, rennin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (rennin, cathepsin D and E, pepsin) or commercially (chymosin) important. The eukaryotic pepsin-like proteases contain two domains possessing similar topological features. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except in the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The eukaryotic pepsin-like proteases have two active site
Probab=94.79 E-value=0.1 Score=42.29 Aligned_cols=85 Identities=13% Similarity=0.296 Sum_probs=49.8
Q ss_pred EeeeecC--eeEEEEEcCCccccccCHHHHHHcCCcc--cc-C----------CcceeEeecCcceeEEeEEEEEeEEEc
Q 016931 199 VDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLR--LL-D----------DRYRGVAHGVGQSEILGRIHVAPIKIG 263 (380)
Q Consensus 199 v~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~~--~~-~----------~~~~~~~~gvg~~~~~g~i~~~~i~ig 263 (380)
+++.|.. +++.+++|||++.+.+..+-+..|+... .. + .....+..|-| ...|.+....|.||
T Consensus 1 ~~i~vGtP~q~~~~~~DTGSs~~Wv~~~~c~~~~~~~~~~~~~~~~sst~~~~~~~~~~~Y~~g--~~~g~~~~D~v~ig 78 (109)
T cd05470 1 IEIGIGTPPQTFNVLLDTGSSNLWVPSVDCQSLAIYSHSSYDDPSASSTYSDNGCTFSITYGTG--SLSGGLSTDTVSIG 78 (109)
T ss_pred CEEEeCCCCceEEEEEeCCCCCEEEeCCCCCCcccccccccCCcCCCCCCCCCCcEEEEEeCCC--eEEEEEEEEEEEEC
Confidence 4677765 8899999999999888655434333210 00 0 01112334434 34577777888888
Q ss_pred CEEE-eEEEEEecC--------CCCceeeeH
Q 016931 264 NVFY-PCSFVVLDS--------PNMEFLFGL 285 (380)
Q Consensus 264 ~~~~-~~~~~Vl~~--------~~~d~iLG~ 285 (380)
+..+ ...|.+... ...|+||||
T Consensus 79 ~~~~~~~~fg~~~~~~~~~~~~~~~~GilGL 109 (109)
T cd05470 79 DIEVVGQAFGCATDEPGATFLPALFDGILGL 109 (109)
T ss_pred CEEECCEEEEEEEecCCccccccccccccCC
Confidence 8543 244444432 356888886
No 95
>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants. This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which
Probab=94.62 E-value=0.084 Score=50.19 Aligned_cols=84 Identities=14% Similarity=0.103 Sum_probs=48.5
Q ss_pred EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEE-cCEEEeEEEEEecC-CCCceeeeH
Q 016931 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKI-GNVFYPCSFVVLDS-PNMEFLFGL 285 (380)
Q Consensus 208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~i-g~~~~~~~~~Vl~~-~~~d~iLG~ 285 (380)
..++||||++.+.++.+.. . .+. ...+.|.. -.+.....-+ ......| +..+.. ...-.|||.
T Consensus 177 ~~ai~DTGTs~~~lp~~~~--------P--~i~-~~f~~~~~---~~i~~~~y~~~~~~~~~C-~~~~~~~~~~~~ilG~ 241 (265)
T cd05476 177 GGTIIDSGTTLTYLPDPAY--------P--DLT-LHFDGGAD---LELPPENYFVDVGEGVVC-LAILSSSSGGVSILGN 241 (265)
T ss_pred CcEEEeCCCcceEcCcccc--------C--CEE-EEECCCCE---EEeCcccEEEECCCCCEE-EEEecCCCCCcEEECh
Confidence 3489999999999998876 1 111 11111110 0000000000 1111123 233333 344689999
Q ss_pred HHHhhcCeEEEcCCCEEEEcC
Q 016931 286 DMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 286 D~L~~~~~~ID~~~~~l~i~~ 306 (380)
.||+.+-.+.|+++++|-|..
T Consensus 242 ~fl~~~~~vFD~~~~~iGfa~ 262 (265)
T cd05476 242 IQQQNFLVEYDLENSRLGFAP 262 (265)
T ss_pred hhcccEEEEEECCCCEEeeec
Confidence 999999999999999998864
No 96
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=94.55 E-value=0.2 Score=44.50 Aligned_cols=65 Identities=23% Similarity=0.300 Sum_probs=50.9
Q ss_pred CEEEEEeCCC----CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCe-EEec-CCeec--CCcccchhcCCCCCc
Q 016931 1 MRITVMTADE----QIISLDVDPHETVENVKALLEVETQVPLQQQ-QLLY-NGREM--NNAEKLSALGVKDED 65 (380)
Q Consensus 1 M~ItVk~~~g----~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q-~Li~-~Gk~L--~D~~tL~~~gI~dg~ 65 (380)
|+|.|++.+| .++.+.++++.||.+|+..|...++++...| .|.+ .++.| .++..++.+.-.+++
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~ 73 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQD 73 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCC
Confidence 6899999999 5788999999999999999999999999884 4554 34455 355667777655543
No 97
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=94.34 E-value=0.14 Score=52.91 Aligned_cols=91 Identities=22% Similarity=0.459 Sum_probs=59.7
Q ss_pred ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeE
Q 016931 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPI 260 (380)
Q Consensus 195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i 260 (380)
.+.|.+++|. ++++++++|||++.+.+. ..|.. .|......+. ....+..|-| ...|.+....|
T Consensus 137 ~~Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C~~~~C~~~~~yd~s~SsT~~~~~~~~~i~YG~G--sv~G~~~~Dtv 214 (450)
T PTZ00013 137 IMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCDSIGCSIKNLYDSSKSKSYEKDGTKVDITYGSG--TVKGFFSKDLV 214 (450)
T ss_pred CEEEEEEEECCCCeEEEEEEeCCCCceEEecccCCccccccCCCccCccCcccccCCcEEEEEECCc--eEEEEEEEEEE
Confidence 4778899996 789999999999999885 33421 2221111111 1112345544 46899999999
Q ss_pred EEcCEEEeEEEEEec----------CCCCceeeeHHH
Q 016931 261 KIGNVFYPCSFVVLD----------SPNMEFLFGLDM 287 (380)
Q Consensus 261 ~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~ 287 (380)
.||+..++..|..+. ....|+||||-|
T Consensus 215 ~iG~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~ 251 (450)
T PTZ00013 215 TLGHLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGW 251 (450)
T ss_pred EECCEEEccEEEEEEeccccccceecccccceecccC
Confidence 999977665554432 124799999964
No 98
>PTZ00147 plasmepsin-1; Provisional
Probab=94.31 E-value=0.18 Score=52.17 Aligned_cols=91 Identities=22% Similarity=0.416 Sum_probs=59.9
Q ss_pred ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCCc----------ceeEeecCcceeEEeEEEEEeE
Q 016931 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAPI 260 (380)
Q Consensus 195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~i 260 (380)
.+.|.+++|. ++++.+++|||++.+.+. ..|.. .|.-....+.. ...+..|-| ...|.+-...|
T Consensus 138 ~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~G--svsG~~~~DtV 215 (453)
T PTZ00147 138 VMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIKCTTEGCETKNLYDSSKSKTYEKDGTKVEMNYVSG--TVSGFFSKDLV 215 (453)
T ss_pred CEEEEEEEECCCCeEEEEEEeCCCCcEEEeecCCCcccccCCCccCCccCcceEECCCEEEEEeCCC--CEEEEEEEEEE
Confidence 4678999997 788999999999999884 44431 23222222211 112334444 46799999999
Q ss_pred EEcCEEEeEEEEEec----------CCCCceeeeHHH
Q 016931 261 KIGNVFYPCSFVVLD----------SPNMEFLFGLDM 287 (380)
Q Consensus 261 ~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~ 287 (380)
.||+..++..|..+. ....|+||||-|
T Consensus 216 tiG~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~ 252 (453)
T PTZ00147 216 TIGNLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGW 252 (453)
T ss_pred EECCEEEEEEEEEEEeccCcccccccccccceecccC
Confidence 999976665554332 125799999975
No 99
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.26 E-value=0.095 Score=48.08 Aligned_cols=63 Identities=14% Similarity=0.245 Sum_probs=55.1
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCc--EEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED--LVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~--~I~l~~ 71 (380)
.++.+.+.+..-.|+.++|..++.+.|+.+-.|+++|+|++|-|...|..++|..|. .|.+..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviV 219 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIV 219 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEe
Confidence 356677888888999999999999999999999999999999999999999999994 444443
No 100
>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin. The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-
Probab=93.94 E-value=0.21 Score=47.69 Aligned_cols=89 Identities=18% Similarity=0.238 Sum_probs=54.6
Q ss_pred EEeeeecC--eeEEEEEcCCccccccCHHHHHHcCCc--cccC-----------CcceeEeecCcceeEEeEEEEEeEEE
Q 016931 198 YVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLL--RLLD-----------DRYRGVAHGVGQSEILGRIHVAPIKI 262 (380)
Q Consensus 198 yv~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~--~~~~-----------~~~~~~~~gvg~~~~~g~i~~~~i~i 262 (380)
|++++|+. +++.++||||+..+.+...-+..|... ...+ .....+..|-|+ ...|.+....|.|
T Consensus 2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~c~~~~~~~~~~y~~~~Sst~~~~~~~~~~i~Y~~G~-~~~G~~~~D~v~i 80 (278)
T cd06097 2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSSETPAAQQGGHKLYDPSKSSTAKLLPGATWSISYGDGS-SASGIVYTDTVSI 80 (278)
T ss_pred eeeEEECCCCcEEEEEEeCCCCceeEeeCCCCchhhccCCcCCCccCccceecCCcEEEEEeCCCC-eEEEEEEEEEEEE
Confidence 78999988 889999999999998854322223221 0011 011112333332 4678888889999
Q ss_pred cCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 263 GNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 263 g~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
|+..++ ..|.+.. ....|+||||-+
T Consensus 81 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 114 (278)
T cd06097 81 GGVEVPNQAIELATAVSASFFSDTASDGLLGLAF 114 (278)
T ss_pred CCEEECCeEEEEEeecCccccccccccceeeecc
Confidence 985543 3343332 236899999954
No 101
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=93.14 E-value=0.38 Score=47.14 Aligned_cols=90 Identities=14% Similarity=0.304 Sum_probs=56.8
Q ss_pred eeEEeeeec--CeeEEEEEcCCccccccC-HHHHH---HcCCccccCC----------cceeEeecCcceeEEeEEEEEe
Q 016931 196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE---RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAP 259 (380)
Q Consensus 196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~---rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~ 259 (380)
-.|++++|. +++++++||||++.+.+. ..|.. .|......+. ....+..|-| ...|.+....
T Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~SsT~~~~~~~~~~~Yg~g--~~~G~~~~D~ 85 (326)
T cd05487 8 QYYGEIGIGTPPQTFKVVFDTGSSNLWVPSSKCSPLYTACVTHNLYDASDSSTYKENGTEFTIHYASG--TVKGFLSQDI 85 (326)
T ss_pred eEEEEEEECCCCcEEEEEEeCCccceEEccCCCcCcchhhcccCcCCCCCCeeeeECCEEEEEEeCCc--eEEEEEeeeE
Confidence 457899997 788999999999999885 33432 2332222211 1111334434 4689898899
Q ss_pred EEEcCEEEeEEEEEecC--------CCCceeeeHHH
Q 016931 260 IKIGNVFYPCSFVVLDS--------PNMEFLFGLDM 287 (380)
Q Consensus 260 i~ig~~~~~~~~~Vl~~--------~~~d~iLG~D~ 287 (380)
|.+|+......|.++.. ...|+||||-+
T Consensus 86 v~~g~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 121 (326)
T cd05487 86 VTVGGIPVTQMFGEVTALPAIPFMLAKFDGVLGMGY 121 (326)
T ss_pred EEECCEEeeEEEEEEEeccCCccceeecceEEecCC
Confidence 99998654433333321 25799999975
No 102
>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals. Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which
Probab=92.85 E-value=0.97 Score=44.05 Aligned_cols=101 Identities=16% Similarity=0.175 Sum_probs=60.4
Q ss_pred eeecCeeE------EEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEeEE--
Q 016931 201 MEVNGIPL------KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYPCS-- 270 (380)
Q Consensus 201 v~Ing~~v------~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~~~-- 270 (380)
+.|||+.+ .++||||++.+.++.+..+++--. +.... ...|.-...+ ........+.+++..+.++
T Consensus 194 v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~~--~~~~~--~~~~~~~~~C~~~~~~P~~~f~f~g~~~~i~~~ 269 (317)
T cd05478 194 VTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQSD--IGASQ--NQNGEMVVNCSSISSMPDVVFTINGVQYPLPPS 269 (317)
T ss_pred EEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHHH--hCCcc--ccCCcEEeCCcCcccCCcEEEEECCEEEEECHH
Confidence 56788754 689999999999999988765210 00000 0001000011 1122233556666554432
Q ss_pred -----------EEEecCC-CCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 271 -----------FVVLDSP-NMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 271 -----------~~Vl~~~-~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
..+.... ....|||-.||+.+-.+.|+++++|-|.
T Consensus 270 ~y~~~~~~~C~~~~~~~~~~~~~IlG~~fl~~~y~vfD~~~~~iG~A 316 (317)
T cd05478 270 AYILQDQGSCTSGFQSMGLGELWILGDVFIRQYYSVFDRANNKVGLA 316 (317)
T ss_pred HheecCCCEEeEEEEeCCCCCeEEechHHhcceEEEEeCCCCEEeec
Confidence 2222221 2458999999999999999999998874
No 103
>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite. The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l
Probab=92.74 E-value=0.48 Score=46.46 Aligned_cols=90 Identities=16% Similarity=0.152 Sum_probs=51.3
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEe--EEEcCEEEeEEEEEecCCCCceeee
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAP--IKIGNVFYPCSFVVLDSPNMEFLFG 284 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~--i~ig~~~~~~~~~Vl~~~~~d~iLG 284 (380)
...++||||.+.++++.+..+++--. +. .+. ...+.|. ++. +.... +...+. .|-+..... ..-.|||
T Consensus 231 ~~~aivDSGTs~~~lp~~~~~~l~~~-~P--~i~-~~f~~g~-~~~--i~p~~y~~~~~~~--~c~~~~~~~-~~~~ILG 300 (326)
T cd06096 231 GLGMLVDSGSTLSHFPEDLYNKINNF-FP--TIT-IIFENNL-KID--WKPSSYLYKKESF--WCKGGEKSV-SNKPILG 300 (326)
T ss_pred CCCEEEeCCCCcccCCHHHHHHHHhh-cC--cEE-EEEcCCc-EEE--ECHHHhccccCCc--eEEEEEecC-CCceEEC
Confidence 35689999999999999999876321 10 111 1111111 000 00000 011111 122222222 2347999
Q ss_pred HHHHhhcCeEEEcCCCEEEEcC
Q 016931 285 LDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 285 ~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
-.||+.+-.+.|+.+++|-|..
T Consensus 301 ~~flr~~y~vFD~~~~riGfa~ 322 (326)
T cd06096 301 ASFFKNKQIIFDLDNNRIGFVE 322 (326)
T ss_pred hHHhcCcEEEEECcCCEEeeEc
Confidence 9999999999999999998853
No 104
>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa. Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten
Probab=92.64 E-value=0.53 Score=45.87 Aligned_cols=101 Identities=17% Similarity=0.233 Sum_probs=58.7
Q ss_pred eeecCee-------EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE--eEEEEEeEEEcCEEEe---
Q 016931 201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP--- 268 (380)
Q Consensus 201 v~Ing~~-------v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~--g~i~~~~i~ig~~~~~--- 268 (380)
+.|+|.. ..++||||.+.+.++.+.++++-- .+.... ...|.-...+. .......+.+++..+.
T Consensus 188 i~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~p~l~~~f~g~~~~v~~ 263 (318)
T cd05477 188 FQINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTLMQ--SIGAQQ--DQYGQYVVNCNNIQNLPTLTFTINGVSFPLPP 263 (318)
T ss_pred EEECCEEecccCCCceeeECCCCccEECCHHHHHHHHH--HhCCcc--ccCCCEEEeCCccccCCcEEEEECCEEEEECH
Confidence 4577664 368999999999999988887521 011000 00010000000 1112334555654443
Q ss_pred ----------EEEEEec------CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 269 ----------CSFVVLD------SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 269 ----------~~~~Vl~------~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
|-+.+.+ ......|||..||+.+-.+.|++++++-|.
T Consensus 264 ~~y~~~~~~~C~~~i~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~ig~a 316 (318)
T cd05477 264 SAYILQNNGYCTVGIEPTYLPSQNGQPLWILGDVFLRQYYSVYDLGNNQVGFA 316 (318)
T ss_pred HHeEecCCCeEEEEEEecccCCCCCCceEEEcHHHhhheEEEEeCCCCEEeee
Confidence 2223322 112358999999999999999999999885
No 105
>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins. SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases
Probab=92.53 E-value=0.69 Score=44.27 Aligned_cols=74 Identities=15% Similarity=0.319 Sum_probs=53.4
Q ss_pred eeEEeeeecC--eeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEE
Q 016931 196 MLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFV 272 (380)
Q Consensus 196 ~lyv~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~ 272 (380)
..|+++.|.. +++.+++|||+..+.+. .+ .+..|-| ....|.+....|.+|+..++ ..|.
T Consensus 2 ~Y~~~i~iGtp~q~~~v~~DTgS~~~wv~---------------~~-~~~Y~~g-~~~~G~~~~D~v~~g~~~~~~~~fg 64 (295)
T cd05474 2 YYSAELSVGTPPQKVTVLLDTGSSDLWVP---------------DF-SISYGDG-TSASGTWGTDTVSIGGATVKNLQFA 64 (295)
T ss_pred eEEEEEEECCCCcEEEEEEeCCCCcceee---------------ee-EEEeccC-CcEEEEEEEEEEEECCeEecceEEE
Confidence 3578999977 78999999999999998 11 2333332 35778888889999986554 4555
Q ss_pred Eec-CCCCceeeeHH
Q 016931 273 VLD-SPNMEFLFGLD 286 (380)
Q Consensus 273 Vl~-~~~~d~iLG~D 286 (380)
+.. ....|+||||-
T Consensus 65 ~~~~~~~~~GilGLg 79 (295)
T cd05474 65 VANSTSSDVGVLGIG 79 (295)
T ss_pred EEecCCCCcceeeEC
Confidence 554 34678999976
No 106
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=92.21 E-value=0.62 Score=34.13 Aligned_cols=56 Identities=18% Similarity=0.345 Sum_probs=42.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
|+|+|. |+ .+++..+.|+.+||..+..... .++++|-+.+++. -+++||.|.+.++
T Consensus 1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~~D------I~I~NGF~~~~d~-----~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 1 MKIKVN---EK--EIETEENTTLFELRKESKPDAD------IVILNGFPTKEDI-----ELKEGDEVFLIKK 56 (57)
T ss_pred CEEEEC---CE--EEEcCCCcCHHHHHHhhCCCCC------EEEEcCcccCCcc-----ccCCCCEEEEEeC
Confidence 666664 34 4778888999999988665432 6789999887755 4678999998765
No 107
>PRK06437 hypothetical protein; Provisional
Probab=92.14 E-value=0.99 Score=34.01 Aligned_cols=54 Identities=19% Similarity=0.243 Sum_probs=44.0
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+++...++++...||.+|-+. .|+++....+..||+.+. .++-+++||.|-++.
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 455577888888999988765 588888888889999997 556788999998875
No 108
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=91.68 E-value=0.34 Score=49.80 Aligned_cols=40 Identities=28% Similarity=0.477 Sum_probs=20.2
Q ss_pred hHHHHHHHhcCHHHHHHHhhcCHHHHHHhcCCCHHHHHHHHHH
Q 016931 93 PAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRE 135 (380)
Q Consensus 93 p~~~~q~~l~nP~~l~qL~~~nP~La~ai~~~d~~~~~~~l~~ 135 (380)
|+.|+++++.||++++ ++++||++...+ +||+.+|+.++.
T Consensus 175 pd~mrq~I~anPqmq~-lm~~npei~h~l--n~p~i~rQtle~ 214 (493)
T KOG0010|consen 175 PDLMRQLIMANPQMQD-LMQRNPEIGHLL--NNPLILRQTLES 214 (493)
T ss_pred hHHHHHHHhcCHHHHH-HHhhCCcchhhh--cChHHHHHHHHh
Confidence 4444444444443322 334455553333 567777777765
No 109
>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants. This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which
Probab=91.67 E-value=0.5 Score=44.84 Aligned_cols=76 Identities=20% Similarity=0.309 Sum_probs=52.9
Q ss_pred eEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCE--EE-eEEE
Q 016931 197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV--FY-PCSF 271 (380)
Q Consensus 197 lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~--~~-~~~~ 271 (380)
.|++++|. .+++.+++|||++.+-+.. | .+ ....+- ...+.|.+....|.||+. .+ ...|
T Consensus 2 Y~~~i~iGtP~q~~~v~~DTGSs~~wv~~-----~--------~~-~~~Y~d-g~~~~G~~~~D~v~~g~~~~~~~~~~F 66 (265)
T cd05476 2 YLVTLSIGTPPQPFSLIVDTGSDLTWTQC-----C--------SY-EYSYGD-GSSTSGVLATETFTFGDSSVSVPNVAF 66 (265)
T ss_pred eEEEEecCCCCcceEEEecCCCCCEEEcC-----C--------ce-EeEeCC-CceeeeeEEEEEEEecCCCCccCCEEE
Confidence 47899997 6789999999999988853 2 11 233332 236778888888999886 33 2455
Q ss_pred EEecC------CCCceeeeHHH
Q 016931 272 VVLDS------PNMEFLFGLDM 287 (380)
Q Consensus 272 ~Vl~~------~~~d~iLG~D~ 287 (380)
.+... ...|+||||.+
T Consensus 67 g~~~~~~~~~~~~~~GIlGLg~ 88 (265)
T cd05476 67 GCGTDNEGGSFGGADGILGLGR 88 (265)
T ss_pred EecccccCCccCCCCEEEECCC
Confidence 55543 25899999875
No 110
>PF05618 Zn_protease: Putative ATP-dependant zinc protease; InterPro: IPR008503 This family consists of several hypothetical proteins from different archaeal and bacterial species.; PDB: 2PMA_B.
Probab=91.53 E-value=0.54 Score=40.76 Aligned_cols=45 Identities=13% Similarity=0.314 Sum_probs=32.2
Q ss_pred EEeEEEcCEEEeEEEEEecC--CCCceeeeHHHHhhcCeEEEcCCCE
Q 016931 257 VAPIKIGNVFYPCSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKENV 301 (380)
Q Consensus 257 ~~~i~ig~~~~~~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~~ 301 (380)
...+.||+..+...|...+. ..+.+|||.--+.+.++.+|..+.-
T Consensus 87 ~~~~~lg~~~~~~e~tL~dR~~m~yp~LlGrR~~l~~~~lVD~s~~~ 133 (138)
T PF05618_consen 87 ETTLCLGGKTWKIEFTLTDRSNMKYPMLLGRRNFLRGRFLVDVSRSF 133 (138)
T ss_dssp EEEEEETTEEEEEEEEEE-S--SS-SEEE-HHHHHHTTEEEETT---
T ss_pred EEEEEECCEEEEEEEEEcCCCcCcCCEEEEehHHhcCCEEECCChhh
Confidence 45789999999999999994 4689999966666778999987653
No 111
>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals. Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which
Probab=91.49 E-value=0.79 Score=44.69 Aligned_cols=91 Identities=13% Similarity=0.322 Sum_probs=55.2
Q ss_pred ceeEEeeeec--CeeEEEEEcCCccccccCH-HHHH-HcCCccccCC----c------ceeEeecCcceeEEeEEEEEeE
Q 016931 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD----R------YRGVAHGVGQSEILGRIHVAPI 260 (380)
Q Consensus 195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~-~~a~-rlgL~~~~~~----~------~~~~~~gvg~~~~~g~i~~~~i 260 (380)
...|+++.|. .+++.++||||+..+.+.. .|.. .|.-....+. . ......|-|. ..|.+....|
T Consensus 9 ~~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~~C~~~~c~~~~~f~~~~Sst~~~~~~~~~~~yg~gs--~~G~~~~D~v 86 (317)
T cd05478 9 MEYYGTISIGTPPQDFTVIFDTGSSNLWVPSVYCSSQACSNHNRFNPRQSSTYQSTGQPLSIQYGTGS--MTGILGYDTV 86 (317)
T ss_pred CEEEEEEEeCCCCcEEEEEEeCCCccEEEecCCCCcccccccCcCCCCCCcceeeCCcEEEEEECCce--EEEEEeeeEE
Confidence 3567889996 6789999999999998853 3321 2221111111 0 0113344443 5788888899
Q ss_pred EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931 261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (380)
Q Consensus 261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (380)
.||+..++ ..|.+... ...|+||||-+
T Consensus 87 ~ig~~~i~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 122 (317)
T cd05478 87 QVGGISDTNQIFGLSETEPGSFFYYAPFDGILGLAY 122 (317)
T ss_pred EECCEEECCEEEEEEEecCccccccccccceeeecc
Confidence 99985543 33433331 23689999864
No 112
>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins. Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro
Probab=91.34 E-value=1.2 Score=43.50 Aligned_cols=96 Identities=11% Similarity=0.121 Sum_probs=54.8
Q ss_pred eeecCee-------EEEEEcCCccccccCHHHHHHcCCccccCC--cceeEeecCcceeEEeEEEEEeEEEcC--EE---
Q 016931 201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDD--RYRGVAHGVGQSEILGRIHVAPIKIGN--VF--- 266 (380)
Q Consensus 201 v~Ing~~-------v~alVDTGA~~siIs~~~a~rlgL~~~~~~--~~~~~~~gvg~~~~~g~i~~~~i~ig~--~~--- 266 (380)
+.|+|.. ..++||||.+.+.++.++++++.....-.. ....+....|. ..+.|.. ..
T Consensus 197 i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~~~~~i~~~~~C~~~~~~P~i~f~f~g---------~~~~l~~~~yi~~~ 267 (317)
T cd06098 197 VLIGGKSTGFCAGGCAAIADSGTSLLAGPTTIVTQINSAVDCNSLSSMPNVSFTIGG---------KTFELTPEQYILKV 267 (317)
T ss_pred EEECCEEeeecCCCcEEEEecCCcceeCCHHHHHhhhccCCccccccCCcEEEEECC---------EEEEEChHHeEEee
Confidence 5677764 468999999999999999887642110000 00011111111 1111111 11
Q ss_pred -----EeEEEEEe--cC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 267 -----YPCSFVVL--DS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 267 -----~~~~~~Vl--~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
-.|-+.+. +. .+...|||-.||+.+-.+.|+++++|-|.
T Consensus 268 ~~~~~~~C~~~~~~~~~~~~~~~~~IlGd~Flr~~y~VfD~~~~~iGfA 316 (317)
T cd06098 268 GEGAAAQCISGFTALDVPPPRGPLWILGDVFMGAYHTVFDYGNLRVGFA 316 (317)
T ss_pred cCCCCCEEeceEEECCCCCCCCCeEEechHHhcccEEEEeCCCCEEeec
Confidence 12322222 21 12347999999999999999999998774
No 113
>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins. SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases
Probab=91.16 E-value=1.9 Score=41.18 Aligned_cols=96 Identities=19% Similarity=0.255 Sum_probs=55.9
Q ss_pred EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEE-EEEeEEEcCEEEe------------------
Q 016931 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI-HVAPIKIGNVFYP------------------ 268 (380)
Q Consensus 208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i-~~~~i~ig~~~~~------------------ 268 (380)
..++||||++.+.++.+.++++-- .+....... .+.....+.-.. ....+.+++..+.
T Consensus 179 ~~~iiDSGt~~~~lP~~~~~~l~~--~~~~~~~~~-~~~~~~~C~~~~~p~i~f~f~g~~~~i~~~~~~~~~~~~~~~~~ 255 (295)
T cd05474 179 LPALLDSGTTLTYLPSDIVDAIAK--QLGATYDSD-EGLYVVDCDAKDDGSLTFNFGGATISVPLSDLVLPASTDDGGDG 255 (295)
T ss_pred ccEEECCCCccEeCCHHHHHHHHH--HhCCEEcCC-CcEEEEeCCCCCCCEEEEEECCeEEEEEHHHhEeccccCCCCCC
Confidence 588999999999999998886521 011000000 010000000000 2344555553333
Q ss_pred -EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 269 -CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 269 -~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
|-+.+........|||..||+.+-.+.|++++++-|..
T Consensus 256 ~C~~~i~~~~~~~~iLG~~fl~~~y~vfD~~~~~ig~a~ 294 (295)
T cd05474 256 ACYLGIQPSTSDYNILGDTFLRSAYVVYDLDNNEISLAQ 294 (295)
T ss_pred CeEEEEEeCCCCcEEeChHHhhcEEEEEECCCCEEEeec
Confidence 22333333224689999999999999999999998853
No 114
>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins. Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro
Probab=90.96 E-value=0.69 Score=45.19 Aligned_cols=91 Identities=13% Similarity=0.318 Sum_probs=56.6
Q ss_pred ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH--HHcCCccccCCc----------ceeEeecCcceeEEeEEEEEe
Q 016931 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA--ERCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAP 259 (380)
Q Consensus 195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a--~rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~ 259 (380)
...|+++.|. ++++++++|||++.+.+. ..|. ..|......+.. ...+..|-| .+.|.+....
T Consensus 9 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--~~~G~~~~D~ 86 (317)
T cd06098 9 AQYFGEIGIGTPPQKFTVIFDTGSSNLWVPSSKCYFSIACYFHSKYKSSKSSTYKKNGTSASIQYGTG--SISGFFSQDS 86 (317)
T ss_pred CEEEEEEEECCCCeEEEEEECCCccceEEecCCCCCCccccccCcCCcccCCCcccCCCEEEEEcCCc--eEEEEEEeeE
Confidence 3568899997 688999999999988774 4442 234322122111 112334444 3578888889
Q ss_pred EEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 260 i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
|.||+..++ ..|.+.. ....|+||||-+
T Consensus 87 v~ig~~~v~~~~f~~~~~~~~~~~~~~~~dGilGLg~ 123 (317)
T cd06098 87 VTVGDLVVKNQVFIEATKEPGLTFLLAKFDGILGLGF 123 (317)
T ss_pred EEECCEEECCEEEEEEEecCCccccccccceeccccc
Confidence 999985544 3343332 234699999975
No 115
>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an
Probab=90.96 E-value=1.9 Score=42.43 Aligned_cols=101 Identities=13% Similarity=0.129 Sum_probs=56.3
Q ss_pred eeecCee-----EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEe-----
Q 016931 201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYP----- 268 (380)
Q Consensus 201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~----- 268 (380)
+.|+|.. ..++||||.+.+.++.+.++.+.- .+.... ...+.-...+ ........+.+|+..+.
T Consensus 199 i~v~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~p~i~f~fgg~~~~i~~~~ 274 (329)
T cd05485 199 VSVGEGEFCSGGCQAIADTGTSLIAGPVDEIEKLNN--AIGAKP--IIGGEYMVNCSAIPSLPDITFVLGGKSFSLTGKD 274 (329)
T ss_pred EEECCeeecCCCcEEEEccCCcceeCCHHHHHHHHH--HhCCcc--ccCCcEEEeccccccCCcEEEEECCEEeEEChHH
Confidence 3466654 369999999999999987776421 111000 0001000000 01112234445553333
Q ss_pred ------------EEEEEec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 269 ------------CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 269 ------------~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
|-..+.. ......|||..||+.+-.+.|+++++|-|.
T Consensus 275 yi~~~~~~~~~~C~~~~~~~~~~~~~~~~~IlG~~fl~~~y~vFD~~~~~ig~a 328 (329)
T cd05485 275 YVLKVTQMGQTICLSGFMGIDIPPPAGPLWILGDVFIGKYYTEFDLGNNRVGFA 328 (329)
T ss_pred eEEEecCCCCCEEeeeEEECcCCCCCCCeEEEchHHhccceEEEeCCCCEEeec
Confidence 2222221 112347999999999999999999998874
No 116
>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa. Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten
Probab=90.74 E-value=1.3 Score=43.13 Aligned_cols=90 Identities=12% Similarity=0.306 Sum_probs=56.8
Q ss_pred eeEEeeeecC--eeEEEEEcCCccccccCH-HHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeEE
Q 016931 196 MLYVDMEVNG--IPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIK 261 (380)
Q Consensus 196 ~lyv~v~Ing--~~v~alVDTGA~~siIs~-~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~ 261 (380)
..|+++.|.. +++.++||||++.+.+.. .|.. .|.-....+. ....+..|-| ...|.+....|.
T Consensus 3 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~C~~~~C~~~~~f~~~~SsT~~~~~~~~~~~Yg~G--s~~G~~~~D~i~ 80 (318)
T cd05477 3 SYYGEISIGTPPQNFLVLFDTGSSNLWVPSVLCQSQACTNHTKFNPSQSSTYSTNGETFSLQYGSG--SLTGIFGYDTVT 80 (318)
T ss_pred EEEEEEEECCCCcEEEEEEeCCCccEEEccCCCCCccccccCCCCcccCCCceECCcEEEEEECCc--EEEEEEEeeEEE
Confidence 4578889974 789999999999998853 3321 2332112211 1112334444 357888888999
Q ss_pred EcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931 262 IGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (380)
Q Consensus 262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (380)
+|+..++ ..|.+... ...|+||||-+
T Consensus 81 ~g~~~i~~~~Fg~~~~~~~~~~~~~~~~GilGLg~ 115 (318)
T cd05477 81 VQGIIITNQEFGLSETEPGTNFVYAQFDGILGLAY 115 (318)
T ss_pred ECCEEEcCEEEEEEEecccccccccceeeEeecCc
Confidence 9986654 45555542 23589999964
No 117
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=90.71 E-value=0.45 Score=36.90 Aligned_cols=56 Identities=29% Similarity=0.487 Sum_probs=46.1
Q ss_pred eCCCCCHHHHHHHHHHHhC-CCCcCeEEecCCeecCCcccchhc-CCCCCcEEEEeec
Q 016931 17 VDPHETVENVKALLEVETQ-VPLQQQQLLYNGREMNNAEKLSAL-GVKDEDLVMMVSN 72 (380)
Q Consensus 17 V~~~~TV~~LK~~I~~~~g-ip~~~q~Li~~Gk~L~D~~tL~~~-gI~dg~~I~l~~~ 72 (380)
|+++++|.|++..+..... ..-....|.++|+.|++...|+++ |+++|..+.|+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence 5788999999999988765 344667889999999888888776 4889999999865
No 118
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=90.04 E-value=0.52 Score=45.32 Aligned_cols=98 Identities=14% Similarity=0.259 Sum_probs=59.2
Q ss_pred eeecCe------eEEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe--
Q 016931 201 MEVNGI------PLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-- 268 (380)
Q Consensus 201 v~Ing~------~v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-- 268 (380)
+.+++. ...++||||++...++.+..+++ +..... .. ....+... .......+.+++..+.
T Consensus 187 i~i~~~~~~~~~~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~-~~---~~~~c~~~---~~~p~l~f~~~~~~~~i~ 259 (317)
T PF00026_consen 187 ISIGGESVFSSSGQQAILDTGTSYIYLPRSIFDAIIKALGGSYSD-GV---YSVPCNST---DSLPDLTFTFGGVTFTIP 259 (317)
T ss_dssp EEETTEEEEEEEEEEEEEETTBSSEEEEHHHHHHHHHHHTTEEEC-SE---EEEETTGG---GGSEEEEEEETTEEEEEE
T ss_pred ccccccccccccceeeecccccccccccchhhHHHHhhhcccccc-ee---EEEecccc---cccceEEEeeCCEEEEec
Confidence 555555 36899999999999999887765 221110 00 00000000 0112233444443332
Q ss_pred ---------------EEEEEec----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 269 ---------------CSFVVLD----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 269 ---------------~~~~Vl~----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
|-+.+.. ......+||..||+++=.+.|++++++-|.
T Consensus 260 ~~~~~~~~~~~~~~~C~~~i~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~ig~A 315 (317)
T PF00026_consen 260 PSDYIFKIEDGNGGYCYLGIQPMDSSDDSDDWILGSPFLRNYYVVFDYENNRIGFA 315 (317)
T ss_dssp HHHHEEEESSTTSSEEEESEEEESSTTSSSEEEEEHHHHTTEEEEEETTTTEEEEE
T ss_pred chHhcccccccccceeEeeeecccccccCCceEecHHHhhceEEEEeCCCCEEEEe
Confidence 3233332 456789999999999999999999999875
No 119
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=90.00 E-value=1.9 Score=32.63 Aligned_cols=51 Identities=16% Similarity=0.115 Sum_probs=40.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
...++++...|+.+|-+.+ ++++....+..||..+.. +.-+++||.|-++.
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~ 65 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIP 65 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEc
Confidence 4678888889999998764 777777777789998853 55688999998874
No 120
>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank
Probab=89.83 E-value=1 Score=44.03 Aligned_cols=90 Identities=14% Similarity=0.290 Sum_probs=55.8
Q ss_pred eeEEeeeec--CeeEEEEEcCCccccccC-HHHH---HHcCCccccCCc----------ceeEeecCcceeEEeEEEEEe
Q 016931 196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAP 259 (380)
Q Consensus 196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a---~rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~ 259 (380)
..|++++|. ++++.+++|||++.+-+. ..|. ..|+.....+.. ...+..|-| ...|.+....
T Consensus 6 ~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--~~~G~~~~D~ 83 (325)
T cd05490 6 QYYGEIGIGTPPQTFTVVFDTGSSNLWVPSVHCSLLDIACWLHHKYNSSKSSTYVKNGTEFAIQYGSG--SLSGYLSQDT 83 (325)
T ss_pred EEEEEEEECCCCcEEEEEEeCCCccEEEEcCCCCCCCccccCcCcCCcccCcceeeCCcEEEEEECCc--EEEEEEeeeE
Confidence 468899996 488999999999988874 4443 234322222111 112334444 4579999999
Q ss_pred EEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 260 i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
|.+|+..++ ..|.+.. ....|+||||-+
T Consensus 84 v~~g~~~~~~~~Fg~~~~~~~~~~~~~~~dGilGLg~ 120 (325)
T cd05490 84 VSIGGLQVEGQLFGEAVKQPGITFIAAKFDGILGMAY 120 (325)
T ss_pred EEECCEEEcCEEEEEEeeccCCcccceeeeEEEecCC
Confidence 999986544 3343332 124699999953
No 121
>PTZ00165 aspartyl protease; Provisional
Probab=89.79 E-value=1 Score=47.03 Aligned_cols=100 Identities=20% Similarity=0.291 Sum_probs=59.7
Q ss_pred cCCccccc--cceeEEeeeecC--eeEEEEEcCCccccccC-HHHHH-HcCCccccCC----cc-----------eeEee
Q 016931 186 HNPEAFAR--VVMLYVDMEVNG--IPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----RY-----------RGVAH 244 (380)
Q Consensus 186 ~~Pe~f~~--~~~lyv~v~Ing--~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----~~-----------~~~~~ 244 (380)
..||.+.. -...|.++.|.. +++++++|||++.+-+. ..|.. .|......+. .+ ..+..
T Consensus 108 ~~~~~l~n~~d~~Y~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~~C~~~~C~~~~~yd~s~SSTy~~~~~~~~~~~~~i~Y 187 (482)
T PTZ00165 108 YLQQDLLNFHNSQYFGEIQVGTPPKSFVVVFDTGSSNLWIPSKECKSGGCAPHRKFDPKKSSTYTKLKLGDESAETYIQY 187 (482)
T ss_pred ccceecccccCCeEEEEEEeCCCCceEEEEEeCCCCCEEEEchhcCcccccccCCCCccccCCcEecCCCCccceEEEEe
Confidence 35565432 336688999976 88999999999988774 45532 1222111111 00 11234
Q ss_pred cCcceeEEeEEEEEeEEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 245 GVGQSEILGRIHVAPIKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 245 gvg~~~~~g~i~~~~i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
|-| ...|.+-...|.||+..++ ..|.+.. ....|+||||-|
T Consensus 188 GsG--s~~G~l~~DtV~ig~l~i~~q~FG~a~~~s~~~f~~~~~DGILGLg~ 237 (482)
T PTZ00165 188 GTG--ECVLALGKDTVKIGGLKVKHQSIGLAIEESLHPFADLPFDGLVGLGF 237 (482)
T ss_pred CCC--cEEEEEEEEEEEECCEEEccEEEEEEEeccccccccccccceeecCC
Confidence 444 4568888888999986554 2333322 224799999986
No 122
>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=89.42 E-value=2.1 Score=44.31 Aligned_cols=70 Identities=19% Similarity=0.280 Sum_probs=56.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC------CCcCeEEe-cCCeecCCcccchhcCCCCCcEEEEeec
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQV------PLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gi------p~~~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
+|||...+ +..++-++.+..|.+|-..|-...+- .+...+|. .+|.+|+.+.||.+.||.||+++++...
T Consensus 4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 57777744 45788889999999999988888764 22334554 5889999999999999999999999864
No 123
>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease. Beta-secretase also called BACE (beta-site of APP cleaving enzyme) or memapsin-2. Beta-secretase is an aspartic-acid protease important in the pathogenesis of Alzheimer's disease, and in the formation of myelin sheaths in peripheral nerve cells. It cleaves amyloid precursor protein (APP) to reveal the N-terminus of the beta-amyloid peptides. The beta-amyloid peptides are the major components of the amyloid plaques formed in the brain of patients with Alzheimer's disease (AD). Since BACE mediates one of the cleavages responsible for generation of AD, it is regarded as a potential target for pharmacological intervention in AD. Beta-secretase is a member of pepsin family of aspartic proteases. Same as other aspartic proteases, beta-secretase is a bilobal enzyme, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two
Probab=89.35 E-value=1.1 Score=44.53 Aligned_cols=87 Identities=17% Similarity=0.272 Sum_probs=53.0
Q ss_pred eeEEeeeec--CeeEEEEEcCCccccccCHH-HHHHcCCccccCC----------cceeEeecCcceeEEeEEEEEeEEE
Q 016931 196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKS-CAERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKI 262 (380)
Q Consensus 196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~-~a~rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~i 262 (380)
-.|+++.|. ++++.+++|||++.+-+... |. ......+. ....+..|-| ...|.+....|.|
T Consensus 3 ~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~~~---~~~~~f~~~~SsT~~~~~~~~~i~Yg~G--s~~G~~~~D~v~i 77 (364)
T cd05473 3 GYYIEMLIGTPPQKLNILVDTGSSNFAVAAAPHP---FIHTYFHRELSSTYRDLGKGVTVPYTQG--SWEGELGTDLVSI 77 (364)
T ss_pred ceEEEEEecCCCceEEEEEecCCcceEEEcCCCc---cccccCCchhCcCcccCCceEEEEECcc--eEEEEEEEEEEEE
Confidence 468899996 68899999999998877533 32 11111111 1112344544 3579999999999
Q ss_pred cC---EEEeEEEEEec--------CCCCceeeeHHH
Q 016931 263 GN---VFYPCSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 263 g~---~~~~~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
|+ ..+...+.... ....|+||||-|
T Consensus 78 g~~~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~ 113 (364)
T cd05473 78 PKGPNVTFRANIAAITESENFFLNGSNWEGILGLAY 113 (364)
T ss_pred CCCCccceEEeeEEEeccccceecccccceeeeecc
Confidence 85 23332222221 124699999974
No 124
>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an
Probab=89.34 E-value=1.5 Score=43.07 Aligned_cols=91 Identities=19% Similarity=0.371 Sum_probs=56.6
Q ss_pred ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH---HHcCCccccCC----cc------eeEeecCcceeEEeEEEEE
Q 016931 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVA 258 (380)
Q Consensus 195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a---~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~ 258 (380)
...|+++.|. ++++++++|||+..+.+. ..|. ..|+.....+. .+ ..+..|.|. ..|.+...
T Consensus 10 ~~Y~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~Sst~~~~~~~~~i~Y~~g~--~~G~~~~D 87 (329)
T cd05485 10 AQYYGVITIGTPPQSFKVVFDTGSSNLWVPSKKCSWTNIACLLHNKYDSTKSSTYKKNGTEFAIQYGSGS--LSGFLSTD 87 (329)
T ss_pred CeEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCCCCccccCCCeECCcCCCCeEECCeEEEEEECCce--EEEEEecC
Confidence 4678999997 588999999999988775 3332 13443221111 11 112344443 57888888
Q ss_pred eEEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 259 PIKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 259 ~i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
.+.||+..++ ..|.+.. ....|+||||-+
T Consensus 88 ~v~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~ 125 (329)
T cd05485 88 TVSVGGVSVKGQTFAEAINEPGLTFVAAKFDGILGMGY 125 (329)
T ss_pred cEEECCEEECCEEEEEEEecCCccccccccceEEEcCC
Confidence 9999986543 3444332 124689999875
No 125
>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily. Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro
Probab=89.28 E-value=1.5 Score=42.78 Aligned_cols=90 Identities=18% Similarity=0.337 Sum_probs=56.0
Q ss_pred eeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccC----------CcceeEeecCcceeEEeEEEEEeEE
Q 016931 196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLD----------DRYRGVAHGVGQSEILGRIHVAPIK 261 (380)
Q Consensus 196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~----------~~~~~~~~gvg~~~~~g~i~~~~i~ 261 (380)
..|+++.|+ ++++.+++|||++.+.+. ..|.. .|......+ .....+..|-| ...|.+....|.
T Consensus 10 ~Y~~~i~iGtp~q~~~v~~DTGSs~~wv~~~~C~~~~C~~~~~y~~~~Sst~~~~~~~~~~~y~~g--~~~G~~~~D~v~ 87 (320)
T cd05488 10 QYFTDITLGTPPQKFKVILDTGSSNLWVPSVKCGSIACFLHSKYDSSASSTYKANGTEFKIQYGSG--SLEGFVSQDTLS 87 (320)
T ss_pred EEEEEEEECCCCcEEEEEEecCCcceEEEcCCCCCcccCCcceECCCCCcceeeCCCEEEEEECCc--eEEEEEEEeEEE
Confidence 468999997 488999999999999884 34421 333211111 01112334434 467888888999
Q ss_pred EcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931 262 IGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (380)
Q Consensus 262 ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (380)
||+..++ ..|.... ....|+||||-+
T Consensus 88 ig~~~~~~~~f~~a~~~~g~~~~~~~~dGilGLg~ 122 (320)
T cd05488 88 IGDLTIKKQDFAEATSEPGLAFAFGKFDGILGLAY 122 (320)
T ss_pred ECCEEECCEEEEEEecCCCcceeeeeeceEEecCC
Confidence 9986543 2343332 124699999985
No 126
>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease. Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt
Probab=88.99 E-value=1.1 Score=43.72 Aligned_cols=88 Identities=13% Similarity=0.309 Sum_probs=53.9
Q ss_pred EEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeEEEc
Q 016931 198 YVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKIG 263 (380)
Q Consensus 198 yv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~ig 263 (380)
|++++|. +++++++||||++...+. ..|.. .|.-....+. ....+..|-| ...|.+-...|.||
T Consensus 2 ~~~i~iGtP~Q~~~v~~DTGSs~~Wv~s~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g--~~~G~~~~D~v~ig 79 (316)
T cd05486 2 FGQISIGTPPQNFTVIFDTGSSNLWVPSIYCTSQACTKHNRFQPSESSTYVSNGEAFSIQYGTG--SLTGIIGIDQVTVE 79 (316)
T ss_pred eEEEEECCCCcEEEEEEcCCCccEEEecCCCCCcccCccceECCCCCcccccCCcEEEEEeCCc--EEEEEeeecEEEEC
Confidence 7888996 678999999999988774 44431 2322111111 1112334444 46788888899999
Q ss_pred CEEEe-EEEEEe--------cCCCCceeeeHHH
Q 016931 264 NVFYP-CSFVVL--------DSPNMEFLFGLDM 287 (380)
Q Consensus 264 ~~~~~-~~~~Vl--------~~~~~d~iLG~D~ 287 (380)
+..++ ..|.+. .....|+||||-+
T Consensus 80 ~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 112 (316)
T cd05486 80 GITVQNQQFAESVSEPGSTFQDSEFDGILGLAY 112 (316)
T ss_pred CEEEcCEEEEEeeccCcccccccccceEeccCc
Confidence 85433 334332 1235799999964
No 127
>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=88.96 E-value=1.5 Score=34.34 Aligned_cols=37 Identities=11% Similarity=0.251 Sum_probs=34.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCe
Q 016931 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGR 48 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk 48 (380)
++.|+|+++.+..+|.++|..++++|++..+|.|+..
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence 8899999999999999999999999999999999653
No 128
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=88.95 E-value=1.4 Score=42.50 Aligned_cols=79 Identities=20% Similarity=0.301 Sum_probs=52.8
Q ss_pred eEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCE-EEe-EEEE
Q 016931 197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV-FYP-CSFV 272 (380)
Q Consensus 197 lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~-~~~-~~~~ 272 (380)
.|+++.|. .+++.+++|||++.+-+.- ..| ....+..|-|+ ...|.+....+.||+. .++ ..|.
T Consensus 2 Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~c---~~c--------~~~~i~Yg~Gs-~~~G~~~~D~v~ig~~~~~~~~~Fg 69 (299)
T cd05472 2 YVVTVGLGTPARDQTVIVDTGSDLTWVQC---QPC--------CLYQVSYGDGS-YTTGDLATDTLTLGSSDVVPGFAFG 69 (299)
T ss_pred eEEEEecCCCCcceEEEecCCCCcccccC---CCC--------CeeeeEeCCCc-eEEEEEEEEEEEeCCCCccCCEEEE
Confidence 47888997 6789999999999888831 122 11224455443 3468888889999975 433 4555
Q ss_pred EecCC-----CCceeeeHHH
Q 016931 273 VLDSP-----NMEFLFGLDM 287 (380)
Q Consensus 273 Vl~~~-----~~d~iLG~D~ 287 (380)
+.... ..|+||||-+
T Consensus 70 ~~~~~~~~~~~~~GilGLg~ 89 (299)
T cd05472 70 CGHDNEGLFGGAAGLLGLGR 89 (299)
T ss_pred CCccCCCccCCCCEEEECCC
Confidence 54422 4789999953
No 129
>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=88.44 E-value=0.63 Score=47.07 Aligned_cols=42 Identities=21% Similarity=0.404 Sum_probs=32.6
Q ss_pred HHHHHHHhcCHHH----HHHHhhcCHHHHHHhcCCCHHHHHHHHHHh
Q 016931 94 AAFQQHIRNDANL----MTQLFQSDPELAQVLLGNDLNKLQDLLRER 136 (380)
Q Consensus 94 ~~~~q~~l~nP~~----l~qL~~~nP~La~ai~~~d~~~~~~~l~~~ 136 (380)
.+||+.+.+||++ |++|.+.||+|.+.|. .|++.|.++|..-
T Consensus 258 ~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~-~n~e~Fl~ll~~~ 303 (378)
T TIGR00601 258 QQLRQVVQQNPQLLPPLLQQIGQENPQLLQQIS-QHPEQFLQMLNEP 303 (378)
T ss_pred HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHH-HCHHHHHHHhcCc
Confidence 5578888889875 5566668999999886 6888888888654
No 130
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=87.99 E-value=2 Score=34.35 Aligned_cols=62 Identities=15% Similarity=0.256 Sum_probs=43.7
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec----CCe-ecCC-cccchhcCCCCCcEEEEeec
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY----NGR-EMNN-AEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~----~Gk-~L~D-~~tL~~~gI~dg~~I~l~~~ 72 (380)
...++..++..+||..++..+.+.+.| ..+-||.- ++. .|.+ +.||.+.|+.+|.+|.+-.+
T Consensus 13 ~~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~r 80 (88)
T PF14836_consen 13 QSVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEER 80 (88)
T ss_dssp CEEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE-
T ss_pred ccHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEee
Confidence 346778899999999999999999999 66788873 222 3555 47999999999998888643
No 131
>PF03539 Spuma_A9PTase: Spumavirus aspartic protease (A9); InterPro: IPR001641 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A9 (spumapepsin family, clan AA). Foamy viruses are single-stranded enveloped retroviruses that have been noted to infect monkeys, cats and humans. In the human virus, the aspartic protease is encoded by the retroviral gag gene [], and in monkeys by the pol gene []. At present, the virus has not been proven to cause any particular disease. However, studies have shown Human foamy virus causes neurological disorders in infected mice []. It is not clear whether the Foamy virus/spumavirus proteases share a common evolutionary origin with other aspartic proteases. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 2JYS_A.
Probab=87.83 E-value=1.3 Score=38.68 Aligned_cols=80 Identities=23% Similarity=0.291 Sum_probs=44.7
Q ss_pred ecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCcee
Q 016931 203 VNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFL 282 (380)
Q Consensus 203 Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~i 282 (380)
|.|..+++.-||||+.|+|...+.+. +..+.+.......| ...+.+.-+.++|.|..+.+.++--+ +|-+
T Consensus 1 ikg~~l~~~wDsga~ITCiP~~fl~~---E~Pi~~~~i~Tihg----~~~~~vYYl~fKi~grkv~aEVi~s~---~dy~ 70 (163)
T PF03539_consen 1 IKGTKLKGHWDSGAQITCIPESFLEE---EQPIGKTLIKTIHG----EKEQDVYYLTFKINGRKVEAEVIASP---YDYI 70 (163)
T ss_dssp ETTEEEEEEE-TT-SSEEEEGGGTTT------SEEEEEE-SS-----EEEEEEEEEEEEESS-EEEEEEEEES---SSSE
T ss_pred CCCceeeEEecCCCeEEEccHHHhCc---cccccceEEEEecC----ceeccEEEEEEEEcCeEEEEEEecCc---cceE
Confidence 56889999999999999999988542 11111111122223 44566777789999988776544333 2222
Q ss_pred e----eHHHHhhcC
Q 016931 283 F----GLDMLRKHQ 292 (380)
Q Consensus 283 L----G~D~L~~~~ 292 (380)
| -+.|++..-
T Consensus 71 li~p~diPw~~~~p 84 (163)
T PF03539_consen 71 LISPSDIPWYKKKP 84 (163)
T ss_dssp EE-TTT-HHHHS--
T ss_pred EEcccccccccCCC
Confidence 2 367888654
No 132
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=87.52 E-value=2.5 Score=31.61 Aligned_cols=66 Identities=14% Similarity=0.240 Sum_probs=54.1
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHh---CCCCcCeEEe-cCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931 9 DEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~---gip~~~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~ 74 (380)
+|+...++......+.-+.++--..+ |-|++...|- -+|..|+-++.+++||+.+|-++++.-+++
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKAG 73 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKAG 73 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeecc
Confidence 57888888888888887777666665 4788888876 578999989999999999999999986644
No 133
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=87.42 E-value=2.9 Score=31.88 Aligned_cols=66 Identities=18% Similarity=0.146 Sum_probs=50.3
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEec----CC--eecCCcccchhcCCC--CCcEEEEe
Q 016931 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLY----NG--REMNNAEKLSALGVK--DEDLVMMV 70 (380)
Q Consensus 5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~----~G--k~L~D~~tL~~~gI~--dg~~I~l~ 70 (380)
|..++|...++++++++|+.+|-..|..+.|+.. +-.-|.| +| .-|+.+++|.++..+ ...++++.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~fr 75 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFR 75 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEE
Confidence 5678899999999999999999999999999865 4456767 22 336778899998777 44455554
No 134
>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin. The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-
Probab=87.24 E-value=0.93 Score=43.26 Aligned_cols=80 Identities=15% Similarity=0.190 Sum_probs=47.0
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHH
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLD 286 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D 286 (380)
...++||||++.+.++.+.++++-- .+..... .... | ...+.+.. .+-... |.+ ..|||-.
T Consensus 198 ~~~~iiDSGTs~~~lP~~~~~~l~~-~l~g~~~-~~~~--~----~~~~~C~~-~~P~i~----f~~------~~ilGd~ 258 (278)
T cd06097 198 GFSAIADTGTTLILLPDAIVEAYYS-QVPGAYY-DSEY--G----GWVFPCDT-TLPDLS----FAV------FSILGDV 258 (278)
T ss_pred CceEEeecCCchhcCCHHHHHHHHH-hCcCCcc-cCCC--C----EEEEECCC-CCCCEE----EEE------EEEEcch
Confidence 4679999999999999888776521 0000000 0000 0 01111110 011111 111 4799999
Q ss_pred HHhhcCeEEEcCCCEEEEc
Q 016931 287 MLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 287 ~L~~~~~~ID~~~~~l~i~ 305 (380)
||+++=.+.|+.+++|-|.
T Consensus 259 fl~~~y~vfD~~~~~ig~A 277 (278)
T cd06097 259 FLKAQYVVFDVGGPKLGFA 277 (278)
T ss_pred hhCceeEEEcCCCceeeec
Confidence 9999999999999988764
No 135
>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH. Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu
Probab=87.23 E-value=1 Score=42.33 Aligned_cols=81 Identities=17% Similarity=0.148 Sum_probs=48.4
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHH
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLD 286 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D 286 (380)
...++||||.+.+.++.+.++.+-- .+...... . ........ ..... .-.+.|.. ..|||..
T Consensus 202 ~~~~iiDsGt~~~~lp~~~~~~l~~--~~~~~~~~-----~--~~~~~~~~--~~~~~-~p~i~f~f------~~ilG~~ 263 (283)
T cd05471 202 GGGAIVDSGTSLIYLPSSVYDAILK--ALGAAVSS-----S--DGGYGVDC--SPCDT-LPDITFTF------LWILGDV 263 (283)
T ss_pred CcEEEEecCCCCEeCCHHHHHHHHH--HhCCcccc-----c--CCcEEEeC--cccCc-CCCEEEEE------EEEccHh
Confidence 5789999999999999998887522 11100000 0 00000000 00000 00011111 7899999
Q ss_pred HHhhcCeEEEcCCCEEEEc
Q 016931 287 MLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 287 ~L~~~~~~ID~~~~~l~i~ 305 (380)
||+.+-.+.|+++++|-|.
T Consensus 264 fl~~~y~vfD~~~~~igfa 282 (283)
T cd05471 264 FLRNYYTVFDLDNNRIGFA 282 (283)
T ss_pred hhhheEEEEeCCCCEEeec
Confidence 9999999999999998774
No 136
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=87.10 E-value=3 Score=32.29 Aligned_cols=66 Identities=17% Similarity=0.163 Sum_probs=44.8
Q ss_pred CEEEEEeC------CC-CEEEEEeCCCCCHHHHHHHHHHHhC-CCC--cCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTA------DE-QIISLDVDPHETVENVKALLEVETQ-VPL--QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~------~g-~~~~i~V~~~~TV~~LK~~I~~~~g-ip~--~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+|+|+.- .| ....++++...|+.+|++.+..+.. +.. ....+..||+... .+.-+++||.|.+.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~ 76 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAII 76 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEe
Confidence 67888753 24 4567888889999999999977651 111 1123556887764 33457899999987
Q ss_pred e
Q 016931 71 S 71 (380)
Q Consensus 71 ~ 71 (380)
.
T Consensus 77 P 77 (82)
T PLN02799 77 P 77 (82)
T ss_pred C
Confidence 4
No 137
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=86.95 E-value=2.6 Score=31.25 Aligned_cols=60 Identities=17% Similarity=0.194 Sum_probs=42.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+| +|+.+.+ + ..|+.+|.+.+ ++++....+-.|++.+. .....+.-+++||.|-++.
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence 55555 4566555 3 46899888764 66666666778998876 3345667789999998874
No 138
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=86.64 E-value=3.2 Score=30.90 Aligned_cols=60 Identities=17% Similarity=0.212 Sum_probs=43.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+.+ +++...|+.+|-.. .++++....+.+++..+..+.- +.+ +++||.|-++.
T Consensus 1 m~i~vN---G~~~--~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVVN---EEQV--EVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEEC---CEEE--EcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence 556554 5544 45567888877664 6889999999999998875432 345 89999998874
No 139
>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily. Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro
Probab=86.62 E-value=7.5 Score=37.90 Aligned_cols=94 Identities=15% Similarity=0.171 Sum_probs=54.1
Q ss_pred EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEe-------------EEEE
Q 016931 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYP-------------CSFV 272 (380)
Q Consensus 208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~-------------~~~~ 272 (380)
..++||||++.+.++.++++.+.- .+.... ...+.-...+ ........+.+++..+. |-..
T Consensus 206 ~~~ivDSGtt~~~lp~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~P~i~f~f~g~~~~i~~~~y~~~~~g~C~~~ 281 (320)
T cd05488 206 TGAAIDTGTSLIALPSDLAEMLNA--EIGAKK--SWNGQYTVDCSKVDSLPDLTFNFDGYNFTLGPFDYTLEVSGSCISA 281 (320)
T ss_pred CeEEEcCCcccccCCHHHHHHHHH--HhCCcc--ccCCcEEeeccccccCCCEEEEECCEEEEECHHHheecCCCeEEEE
Confidence 468999999999999998886421 010000 0000000000 01122344555554433 2222
Q ss_pred Eec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 273 VLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 273 Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
+.. ..+...|||-.||+.+-.+.|+.+++|-|.
T Consensus 282 ~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~iG~a 319 (320)
T cd05488 282 FTGMDFPEPVGPLAIVGDAFLRKYYSVYDLGNNAVGLA 319 (320)
T ss_pred EEECcCCCCCCCeEEEchHHhhheEEEEeCCCCEEeec
Confidence 222 112358999999999999999999998874
No 140
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=86.61 E-value=3 Score=31.77 Aligned_cols=55 Identities=22% Similarity=0.216 Sum_probs=41.8
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC----CCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 12 IISLDVDPHETVENVKALLEVETQV----PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gi----p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
...++++...||.+|.+.+..+++- ......+..||+... .+.-+++||.|.+..
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~p 75 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIP 75 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeC
Confidence 3667888889999999999988642 234455667998887 345689999999874
No 141
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=86.23 E-value=0.44 Score=46.73 Aligned_cols=69 Identities=20% Similarity=0.285 Sum_probs=50.1
Q ss_pred EEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhCCC--CcCeEEecCCeecCCcccchhcCCCC--CcEEEEe
Q 016931 2 RITVMTADEQI--ISLDVDPHETVENVKALLEVETQVP--LQQQQLLYNGREMNNAEKLSALGVKD--EDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~--~~i~V~~~~TV~~LK~~I~~~~gip--~~~q~Li~~Gk~L~D~~tL~~~gI~d--g~~I~l~ 70 (380)
.+.||..+.+- .+|+.+...||++||..++.-+--. ..+|||+|.||.|.|...|.+.=+|. -.++|++
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlv 85 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLV 85 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHh
Confidence 35667766443 5566677889999999998876422 25799999999999988887765543 3466666
No 142
>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite. The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l
Probab=85.93 E-value=2 Score=42.06 Aligned_cols=91 Identities=15% Similarity=0.227 Sum_probs=55.6
Q ss_pred eeEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCc--cccC--------------------------CcceeEeec
Q 016931 196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLL--RLLD--------------------------DRYRGVAHG 245 (380)
Q Consensus 196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~--~~~~--------------------------~~~~~~~~g 245 (380)
..|+++.|. .+++.++||||+..+.+...-...|+.. ...+ .....+..|
T Consensus 3 ~Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~C~~c~~~~~~~y~~~~Sst~~~~~C~~~~c~~~~~~~~~~~~~~i~Y~ 82 (326)
T cd06096 3 YYFIDIFIGNPPQKQSLILDTGSSSLSFPCSQCKNCGIHMEPPYNLNNSITSSILYCDCNKCCYCLSCLNNKCEYSISYS 82 (326)
T ss_pred eEEEEEEecCCCeEEEEEEeCCCCceEEecCCCCCcCCCCCCCcCcccccccccccCCCccccccCcCCCCcCcEEEEEC
Confidence 458899997 6889999999999998864433345431 0110 001123344
Q ss_pred CcceeEEeEEEEEeEEEcCEEEe--------EEEEEec-------CCCCceeeeHHH
Q 016931 246 VGQSEILGRIHVAPIKIGNVFYP--------CSFVVLD-------SPNMEFLFGLDM 287 (380)
Q Consensus 246 vg~~~~~g~i~~~~i~ig~~~~~--------~~~~Vl~-------~~~~d~iLG~D~ 287 (380)
-| ..+.|......+.||+...+ ..|.+.. ....|+||||-+
T Consensus 83 ~g-s~~~G~~~~D~v~lg~~~~~~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~ 138 (326)
T cd06096 83 EG-SSISGFYFSDFVSFESYLNSNSEKESFKKIFGCHTHETNLFLTQQATGILGLSL 138 (326)
T ss_pred CC-CceeeEEEEEEEEeccCCCCccccccccEEeccCccccCcccccccceEEEccC
Confidence 33 25678888889999875432 1232222 124689999986
No 143
>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats). This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.
Probab=85.90 E-value=1.3 Score=35.00 Aligned_cols=59 Identities=22% Similarity=0.315 Sum_probs=42.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
.+...++-..++..||.+++.+.++..+...++.-+..|.++++|-+.||+-..+|.+.
T Consensus 4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQln 62 (88)
T PF11620_consen 4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLN 62 (88)
T ss_dssp EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEE
T ss_pred eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEE
Confidence 34556667788999999999999999999999988877999999999999988888775
No 144
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=85.77 E-value=3.9 Score=30.24 Aligned_cols=61 Identities=16% Similarity=0.228 Sum_probs=43.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+. +++....||.++-.. .++++....+.+||..+.-.. ..+.-+++||.|-++.
T Consensus 1 m~i~vN---G~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQLN---GEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH 61 (66)
T ss_pred CEEEEC---CeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence 555553 554 466677898887764 688888888889998876433 3344589999998874
No 145
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=85.46 E-value=6.5 Score=37.79 Aligned_cols=27 Identities=7% Similarity=0.079 Sum_probs=24.3
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
-.|||-.||+.+-.+.|+++++|-|..
T Consensus 270 ~~ilG~~fl~~~~vvfD~~~~~igfa~ 296 (299)
T cd05472 270 LSIIGNVQQQTFRVVYDVAGGRIGFAP 296 (299)
T ss_pred CEEEchHHccceEEEEECCCCEEeEec
Confidence 469999999999999999999998853
No 146
>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH. Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu
Probab=85.19 E-value=3.8 Score=38.43 Aligned_cols=89 Identities=15% Similarity=0.260 Sum_probs=52.9
Q ss_pred EEeeeecCe--eEEEEEcCCccccccCHHHHHHcCCccc--------------cCCcceeEeecCcceeEEeEEEEEeEE
Q 016931 198 YVDMEVNGI--PLKAFVDSGAQSTIISKSCAERCGLLRL--------------LDDRYRGVAHGVGQSEILGRIHVAPIK 261 (380)
Q Consensus 198 yv~v~Ing~--~v~alVDTGA~~siIs~~~a~rlgL~~~--------------~~~~~~~~~~gvg~~~~~g~i~~~~i~ 261 (380)
|+++.|..- ++.++||||+..+.+...-...|..... ..........+. ....|.+....+.
T Consensus 2 ~~~i~iGtp~q~~~l~~DTGS~~~wv~~~~c~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~Y~~--g~~~g~~~~D~v~ 79 (283)
T cd05471 2 YGEITIGTPPQKFSVIFDTGSSLLWVPSSNCTSCSCQKHPRFKYDSSKSSTYKDTGCTFSITYGD--GSVTGGLGTDTVT 79 (283)
T ss_pred EEEEEECCCCcEEEEEEeCCCCCEEEecCCCCccccccCCCCccCccCCceeecCCCEEEEEECC--CeEEEEEEEeEEE
Confidence 678888654 7999999999998885544333332100 011111233333 3456777778899
Q ss_pred EcCEEE-eEEEEEec-------CCCCceeeeHHHH
Q 016931 262 IGNVFY-PCSFVVLD-------SPNMEFLFGLDML 288 (380)
Q Consensus 262 ig~~~~-~~~~~Vl~-------~~~~d~iLG~D~L 288 (380)
+++... ...|.... ....++||||.+=
T Consensus 80 ~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~ 114 (283)
T cd05471 80 IGGLTIPNQTFGCATSESGDFSSSGFDGILGLGFP 114 (283)
T ss_pred ECCEEEeceEEEEEeccCCcccccccceEeecCCc
Confidence 998542 23343333 2468899998654
No 147
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=84.40 E-value=1.3 Score=29.65 Aligned_cols=22 Identities=27% Similarity=0.699 Sum_probs=10.9
Q ss_pred HHHhcCHHHHHHHhhcCHHHHH
Q 016931 98 QHIRNDANLMTQLFQSDPELAQ 119 (380)
Q Consensus 98 q~~l~nP~~l~qL~~~nP~La~ 119 (380)
+.+.+||+.++.+.+.||.++.
T Consensus 18 ~~~~~nP~~~~~~~~~nP~~~~ 39 (41)
T smart00727 18 QDMQQNPDMLAQMLQENPQLLQ 39 (41)
T ss_pred HHHHHCHHHHHHHHHhCHHhHh
Confidence 3344455555555544555543
No 148
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=84.20 E-value=6.3 Score=38.54 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=23.8
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
..|||-.||+.+-.+.|+.+++|-|.
T Consensus 299 ~~ilG~~flr~~y~vfD~~~~~IGfA 324 (326)
T cd05487 299 LWVLGATFIRKFYTEFDRQNNRIGFA 324 (326)
T ss_pred eEEEehHHhhccEEEEeCCCCEEeee
Confidence 47999999999999999999998875
No 149
>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=84.16 E-value=4.3 Score=31.94 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=36.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEecC
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYN 46 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~~ 46 (380)
|+|++.. +|..+.+.++++.+..+|+..|..++++.. ....|-|.
T Consensus 1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~ 46 (82)
T cd06407 1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYL 46 (82)
T ss_pred CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEE
Confidence 4566666 677899999999999999999999999865 45666663
No 150
>cd05475 nucellin_like Nucellins, plant aspartic proteases specifically expressed in nucellar cells during degradation. Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. This degradation is a characteristic of programmed cell death. Nucellins are plant aspartic proteases specifically expressed in nucellar cells during degradation. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region, and two other regions nearly identical to two regions of plant aspartic proteases. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. Although the three-dimensional structures of the two lobes are very similar, the amino acid sequences are more d
Probab=83.74 E-value=1.9 Score=41.17 Aligned_cols=27 Identities=11% Similarity=0.000 Sum_probs=23.9
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
-.|||-.||+.+-.+.|+++++|-|..
T Consensus 244 ~~ilG~~~l~~~~~vfD~~~~riGfa~ 270 (273)
T cd05475 244 TNIIGDISMQGLMVIYDNEKQQIGWVR 270 (273)
T ss_pred eEEECceEEEeeEEEEECcCCEeCccc
Confidence 479999999999999999999887753
No 151
>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease. Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt
Probab=82.26 E-value=6.7 Score=38.13 Aligned_cols=26 Identities=15% Similarity=0.280 Sum_probs=23.1
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
..|||-.||+++-.+.|+++++|-|.
T Consensus 290 ~~ILGd~flr~~y~vfD~~~~~IGfA 315 (316)
T cd05486 290 LWILGDVFIRQYYSVFDRGNNRVGFA 315 (316)
T ss_pred eEEEchHHhcceEEEEeCCCCEeecc
Confidence 47999999999999999999988764
No 152
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=82.01 E-value=4.6 Score=32.13 Aligned_cols=43 Identities=14% Similarity=0.224 Sum_probs=36.9
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc---CeEEec
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ---QQQLLY 45 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~---~q~Li~ 45 (380)
.+++.+.|+++.+.+.++..+.+|+..|.+++|+... ...|.|
T Consensus 3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 5678889999999999999999999999999999874 455555
No 153
>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=81.72 E-value=5.9 Score=30.34 Aligned_cols=45 Identities=13% Similarity=0.150 Sum_probs=36.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (380)
+|.++. ++..+.+.++.+.|..+|+.+|..+++++.....|-|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 345555 567889999999999999999999999887777777753
No 154
>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank
Probab=81.66 E-value=8.1 Score=37.65 Aligned_cols=94 Identities=14% Similarity=0.189 Sum_probs=52.6
Q ss_pred EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE--eEEEEEeEEEcCEEEe-----------------
Q 016931 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP----------------- 268 (380)
Q Consensus 208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~--g~i~~~~i~ig~~~~~----------------- 268 (380)
..++||||.+.+.++.+.++.+.- .+.. . ....|.....+. .......+.+|+..+.
T Consensus 207 ~~aiiDSGTt~~~~p~~~~~~l~~--~~~~-~-~~~~~~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~y~~~~~~~~~~~ 282 (325)
T cd05490 207 CEAIVDTGTSLITGPVEEVRALQK--AIGA-V-PLIQGEYMIDCEKIPTLPVISFSLGGKVYPLTGEDYILKVSQRGTTI 282 (325)
T ss_pred CEEEECCCCccccCCHHHHHHHHH--HhCC-c-cccCCCEEecccccccCCCEEEEECCEEEEEChHHeEEeccCCCCCE
Confidence 579999999999999988876521 0000 0 000010000110 1112233445553333
Q ss_pred EEEEEe--cC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 269 CSFVVL--DS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 269 ~~~~Vl--~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
|-+.+. +. .....|||-.||+.+-.+.|+++++|-|.
T Consensus 283 C~~~~~~~~~~~~~~~~~ilGd~flr~~y~vfD~~~~~IGfA 324 (325)
T cd05490 283 CLSGFMGLDIPPPAGPLWILGDVFIGRYYTVFDRDNDRVGFA 324 (325)
T ss_pred EeeEEEECCCCCCCCceEEEChHhheeeEEEEEcCCcEeecc
Confidence 322222 11 12347999999999999999999998764
No 155
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=81.49 E-value=9.1 Score=28.46 Aligned_cols=61 Identities=18% Similarity=0.200 Sum_probs=42.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+. +++....||.+|... .+.+.....+-.|+..+.. ...+++-+++||.|-++.
T Consensus 1 m~i~vN---g~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILFN---DQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEEC---CeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEE
Confidence 566664 554 455677899988865 4555566777789988752 234455689999998874
No 156
>PLN03146 aspartyl protease family protein; Provisional
Probab=81.45 E-value=3 Score=42.81 Aligned_cols=27 Identities=15% Similarity=0.054 Sum_probs=24.3
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
..|||-.+++.+..+.|+++++|-|..
T Consensus 399 ~~IlG~~~q~~~~vvyDl~~~~igFa~ 425 (431)
T PLN03146 399 IAIFGNLAQMNFLVGYDLESKTVSFKP 425 (431)
T ss_pred ceEECeeeEeeEEEEEECCCCEEeeec
Confidence 379999999999999999999998864
No 157
>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=81.24 E-value=6.9 Score=31.15 Aligned_cols=43 Identities=7% Similarity=0.182 Sum_probs=33.2
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN 46 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~ 46 (380)
+|.|.. .|.++.+.|+++.+..+|..+|..++++. ....|-|.
T Consensus 4 kVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk 46 (86)
T cd06408 4 RVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK 46 (86)
T ss_pred EEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence 344443 67899999999999999999999999985 34444443
No 158
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=80.22 E-value=2.5 Score=31.14 Aligned_cols=23 Identities=35% Similarity=0.652 Sum_probs=14.7
Q ss_pred HHhcCHHH--HHHHhhcCHHHHHHh
Q 016931 99 HIRNDANL--MTQLFQSDPELAQVL 121 (380)
Q Consensus 99 ~~l~nP~~--l~qL~~~nP~La~ai 121 (380)
.++++|.+ |+++.++||++...+
T Consensus 3 ~Lr~~Pqf~~lR~~vq~NP~lL~~l 27 (59)
T PF09280_consen 3 FLRNNPQFQQLRQLVQQNPQLLPPL 27 (59)
T ss_dssp GGTTSHHHHHHHHHHHC-GGGHHHH
T ss_pred HHHcChHHHHHHHHHHHCHHHHHHH
Confidence 35567764 788888898855443
No 159
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=79.39 E-value=12 Score=27.42 Aligned_cols=60 Identities=20% Similarity=0.195 Sum_probs=39.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+. ++++...|+.+|.+.+ +++ ....+..||..+.... ..+.-+++||.|.++.
T Consensus 1 m~i~vN---g~~--~~~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQLN---QQT--LSLPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEEC---CEE--EECCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 555553 454 5667788999988765 443 3356668998775322 2333488999999874
No 160
>cd05475 nucellin_like Nucellins, plant aspartic proteases specifically expressed in nucellar cells during degradation. Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. This degradation is a characteristic of programmed cell death. Nucellins are plant aspartic proteases specifically expressed in nucellar cells during degradation. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region, and two other regions nearly identical to two regions of plant aspartic proteases. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. Although the three-dimensional structures of the two lobes are very similar, the amino acid sequences are more d
Probab=78.83 E-value=6.2 Score=37.58 Aligned_cols=81 Identities=19% Similarity=0.322 Sum_probs=49.2
Q ss_pred eEEeeeec--CeeEEEEEcCCccccccCH--HHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCE----EE-
Q 016931 197 LYVDMEVN--GIPLKAFVDSGAQSTIISK--SCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV----FY- 267 (380)
Q Consensus 197 lyv~v~In--g~~v~alVDTGA~~siIs~--~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~----~~- 267 (380)
.|+++.|. .+++.+++|||++.+-+.- .| ..|+. .+ .+..|-| ....|.+-...|.++.. ..
T Consensus 3 Y~~~i~iGtP~q~~~v~~DTGS~~~Wv~c~~~c-~~c~c------~~-~i~Ygd~-~~~~G~~~~D~v~~~~~~~~~~~~ 73 (273)
T cd05475 3 YYVTINIGNPPKPYFLDIDTGSDLTWLQCDAPC-TGCQC------DY-EIEYADG-GSSMGVLVTDIFSLKLTNGSRAKP 73 (273)
T ss_pred eEEEEEcCCCCeeEEEEEccCCCceEEeCCCCC-CCCcC------cc-EeEeCCC-CceEEEEEEEEEEEeecCCCcccC
Confidence 58899997 7789999999999998842 12 22322 12 2334422 24568887777877531 11
Q ss_pred eEEEEEe---------cCCCCceeeeHH
Q 016931 268 PCSFVVL---------DSPNMEFLFGLD 286 (380)
Q Consensus 268 ~~~~~Vl---------~~~~~d~iLG~D 286 (380)
...|... .....|+||||-
T Consensus 74 ~~~Fgc~~~~~~~~~~~~~~~dGIlGLg 101 (273)
T cd05475 74 RIAFGCGYDQQGPLLNPPPPTDGILGLG 101 (273)
T ss_pred CEEEEeeeccCCcccCCCccCCEEEECC
Confidence 1223222 123578999995
No 161
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=77.92 E-value=0.7 Score=45.04 Aligned_cols=43 Identities=26% Similarity=0.512 Sum_probs=0.0
Q ss_pred CCCHHHHHHHHHH----------HhCCCCcCeE-----EecCCeecCCcccchhcCCC
Q 016931 20 HETVENVKALLEV----------ETQVPLQQQQ-----LLYNGREMNNAEKLSALGVK 62 (380)
Q Consensus 20 ~~TV~~LK~~I~~----------~~gip~~~q~-----Li~~Gk~L~D~~tL~~~gI~ 62 (380)
+.||.++|..++. ++++|.+..+ |+|+.|++.|.+||.+..-.
T Consensus 103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~~ 160 (309)
T PF12754_consen 103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLAD 160 (309)
T ss_dssp ----------------------------------------------------------
T ss_pred cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHhc
Confidence 6899999999999 8999999999 99999999888888877544
No 162
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=77.58 E-value=3.1 Score=40.89 Aligned_cols=40 Identities=25% Similarity=0.465 Sum_probs=23.3
Q ss_pred HHHHHHHhcCHHH----HHHHhhcCHHHHHHhcCCCHHHHHHHHH
Q 016931 94 AAFQQHIRNDANL----MTQLFQSDPELAQVLLGNDLNKLQDLLR 134 (380)
Q Consensus 94 ~~~~q~~l~nP~~----l~qL~~~nP~La~ai~~~d~~~~~~~l~ 134 (380)
..||+.+-+||++ |++|-+.||.|.+.|. .|.+.|.+++.
T Consensus 226 ~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq-~nqe~Fl~mln 269 (340)
T KOG0011|consen 226 QQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQ-ENQEAFLQLLN 269 (340)
T ss_pred HHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHH-HHHHHHHHHhh
Confidence 4455666666654 4444556666666664 45666666554
No 163
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=77.35 E-value=12 Score=28.11 Aligned_cols=61 Identities=16% Similarity=0.177 Sum_probs=42.4
Q ss_pred CEEEEEeCCCCEEEEEeCCC-CCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPH-ETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~-~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+.+ ++... .||.+|-+. .++++....+-+||..+.-+ ...++-+++||.|-++.
T Consensus 1 m~I~vN---G~~~--~~~~~~~tv~~lL~~----l~~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 1 MNLKIN---GNQI--EVPESVKTVAELLTH----LELDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CEEEEC---CEEE--EcCCCcccHHHHHHH----cCCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 555554 5654 45554 578877654 67888888888999988643 34556689999998875
No 164
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=76.87 E-value=9 Score=30.28 Aligned_cols=56 Identities=13% Similarity=0.187 Sum_probs=41.3
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+. .+++...||.+|-+. .++++....+-+||..+. ....+++-+++||.|-++.
T Consensus 24 NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 24 NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEE
Confidence 3453 455667888887765 578887778889999884 3446677799999998875
No 165
>smart00455 RBD Raf-like Ras-binding domain.
Probab=76.72 E-value=8.2 Score=29.34 Aligned_cols=49 Identities=18% Similarity=0.179 Sum_probs=42.4
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC--eecC
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG--REMN 51 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G--k~L~ 51 (380)
..|..++|+...+.+.|..|+.|+-..+.++.|+.++.-.+++.| +.|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccee
Confidence 356678899999999999999999999999999999999988754 4454
No 166
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=76.56 E-value=7.5 Score=29.83 Aligned_cols=45 Identities=18% Similarity=0.124 Sum_probs=40.2
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (380)
+.|..++|+.-.+.|.+.+|+.|+-..+.++-|+.++.-.|++.|
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 467788999999999999999999999999999999988887654
No 167
>PRK07440 hypothetical protein; Provisional
Probab=76.38 E-value=12 Score=28.41 Aligned_cols=56 Identities=11% Similarity=0.159 Sum_probs=41.5
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+. .++....||.+|-. +.++++....+-+||..+.- ....+.-+++||.|-++.
T Consensus 10 NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 10 NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVT 65 (70)
T ss_pred CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEE
Confidence 4564 56677889988775 46788888888899998763 234555689999998875
No 168
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=76.15 E-value=10 Score=28.04 Aligned_cols=56 Identities=14% Similarity=0.220 Sum_probs=41.0
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+. ++++...|+.+|.+.+ +++++...+..||+.+..+ ...++-+++||.|.++.
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT 60 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 3454 5566788999998774 5777888888999987643 23445689999998874
No 169
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=75.36 E-value=9.8 Score=29.86 Aligned_cols=53 Identities=26% Similarity=0.301 Sum_probs=42.5
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-CCeecCCcccchhcCCCCCcEEEEee
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY-NGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+..+..+++...||+++-+. +|+|..+..+++ ||+...- +|-+++||.|.+..
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCC-----cccCCCCCEEEEEe
Confidence 45577889999999988765 899999987774 8887653 36788999999874
No 170
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=75.20 E-value=17 Score=27.87 Aligned_cols=55 Identities=18% Similarity=0.178 Sum_probs=40.0
Q ss_pred EEEEEeCCC-CCHHHHHHHHHHHhC-C-C-CcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 12 IISLDVDPH-ETVENVKALLEVETQ-V-P-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 12 ~~~i~V~~~-~TV~~LK~~I~~~~g-i-p-~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
...++++.+ .||.+|++.+..+.+ + . .....+..||+...+ +.-+++||.|.+..
T Consensus 17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~P 75 (80)
T TIGR01682 17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIP 75 (80)
T ss_pred eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeC
Confidence 356788876 899999999998874 1 1 122355578887764 46789999999873
No 171
>PTZ00147 plasmepsin-1; Provisional
Probab=75.08 E-value=9.5 Score=39.56 Aligned_cols=95 Identities=15% Similarity=0.194 Sum_probs=53.5
Q ss_pred eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc--eeEE-eEEEEEeEEEcCEEEe---------------
Q 016931 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEIL-GRIHVAPIKIGNVFYP--------------- 268 (380)
Q Consensus 207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~--~~~~-g~i~~~~i~ig~~~~~--------------- 268 (380)
...++||||.+.+.++.+.++++-- .++.. .....+. ..+- .......+.+++..++
T Consensus 332 ~~~aIiDSGTsli~lP~~~~~ai~~--~l~~~---~~~~~~~y~~~C~~~~lP~~~f~f~g~~~~L~p~~yi~~~~~~~~ 406 (453)
T PTZ00147 332 KANVIVDSGTSVITVPTEFLNKFVE--SLDVF---KVPFLPLYVTTCNNTKLPTLEFRSPNKVYTLEPEYYLQPIEDIGS 406 (453)
T ss_pred ceeEEECCCCchhcCCHHHHHHHHH--HhCCe---ecCCCCeEEEeCCCCCCCeEEEEECCEEEEECHHHheeccccCCC
Confidence 3679999999999999988775310 00000 0000000 0000 0111223333333221
Q ss_pred --EEEEEec--CCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 269 --CSFVVLD--SPNMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 269 --~~~~Vl~--~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
|-+.+.+ ......|||-.||+++-.+.|+.++++-|..
T Consensus 407 ~~C~~~i~~~~~~~~~~ILGd~FLr~~YtVFD~~n~rIGfA~ 448 (453)
T PTZ00147 407 ALCMLNIIPIDLEKNTFILGDPFMRKYFTVFDYDNHTVGFAL 448 (453)
T ss_pred cEEEEEEEECCCCCCCEEECHHHhccEEEEEECCCCEEEEEE
Confidence 4333332 2223579999999999999999999999864
No 172
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=74.75 E-value=20 Score=27.13 Aligned_cols=63 Identities=16% Similarity=0.227 Sum_probs=45.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|.+++.. +|+ .++++...|+.+|-+. .+++++.....+||.++..+. ..+.-+++||.|-++.
T Consensus 1 ~~m~i~~-ng~--~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~ 63 (68)
T COG2104 1 MPMTIQL-NGK--EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVR 63 (68)
T ss_pred CcEEEEE-CCE--EEEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEE
Confidence 4455555 355 4666677899998875 788888888889999876432 4555688899988874
No 173
>PTZ00165 aspartyl protease; Provisional
Probab=73.65 E-value=13 Score=38.87 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=25.2
Q ss_pred CceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 279 MEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
...|||-.||+++-.+.|+.++++-|..
T Consensus 418 ~~~ILGd~Flr~yy~VFD~~n~rIGfA~ 445 (482)
T PTZ00165 418 PLFVLGNNFIRKYYSIFDRDHMMVGLVP 445 (482)
T ss_pred ceEEEchhhheeEEEEEeCCCCEEEEEe
Confidence 3479999999999999999999999965
No 174
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=73.24 E-value=24 Score=27.40 Aligned_cols=57 Identities=19% Similarity=0.275 Sum_probs=39.9
Q ss_pred CEEEEEeCCCCCHHHHHHHHHHHhCC------C-----CcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 11 QIISLDVDPHETVENVKALLEVETQV------P-----LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 11 ~~~~i~V~~~~TV~~LK~~I~~~~gi------p-----~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
....++++ ..||.+|.+.+..++.- . -....+..||+....+.. .-+++||.|.+..
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~P 83 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFP 83 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeC
Confidence 34677776 89999999999988641 0 012445578887765432 5689999999873
No 175
>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=72.78 E-value=7.5 Score=30.35 Aligned_cols=42 Identities=26% Similarity=0.290 Sum_probs=35.3
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (380)
Q Consensus 4 tVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (380)
+|.. --++.+.+.+..+..+|..+|++++..+++.-+|.|..
T Consensus 2 ~Vh~--~fTVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 2 TVQC--AFTVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEE--EEEEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 4544 13567789999999999999999999999999999854
No 176
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=72.71 E-value=29 Score=30.97 Aligned_cols=71 Identities=15% Similarity=0.147 Sum_probs=51.5
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc-CeEEec--C-C---eecCCcccchhcCCC-CCcEEEEeec
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLY--N-G---REMNNAEKLSALGVK-DEDLVMMVSN 72 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~-~q~Li~--~-G---k~L~D~~tL~~~gI~-dg~~I~l~~~ 72 (380)
.+.|..++|....+.+++.+|++++...|..+.|++.. ..-|.+ . + ..|+...+|.+...+ ....+++.++
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr~r 83 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFRVK 83 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEEEE
Confidence 46788889999999999999999999999999999542 233443 1 1 346666777777765 3445555543
No 177
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=72.38 E-value=14 Score=27.22 Aligned_cols=56 Identities=13% Similarity=0.169 Sum_probs=40.3
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
+|+. ++++...|+.+|.+. .++++....+..||+.+..+ ...++-+++||.|-++.
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT 59 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE
Confidence 4554 455677899998876 46777777777899887532 23445689999998874
No 178
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=70.35 E-value=16 Score=27.66 Aligned_cols=45 Identities=16% Similarity=0.168 Sum_probs=34.7
Q ss_pred EEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931 2 RITVMTADEQIISLDVD-PHETVENVKALLEVETQVPLQQQQLLYNG 47 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~-~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (380)
+|.++. +|....+.+. .+.|..+|+.+|..+++.+.....|.|..
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence 355555 3567788888 99999999999999999887556666644
No 179
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.66 E-value=8.2 Score=38.06 Aligned_cols=56 Identities=18% Similarity=0.256 Sum_probs=45.7
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCCcCeEEec---CCeecC-----CcccchhcCCCCCcEEEEee
Q 016931 16 DVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMN-----NAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 16 ~V~~~~TV~~LK~~I~~~~gip~~~q~Li~---~Gk~L~-----D~~tL~~~gI~dg~~I~l~~ 71 (380)
-|+-.-||-|||..+..+.|+-+.+++|+| +||.-. -+..|-.|+|++||.+.+-.
T Consensus 353 ~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvqe 416 (418)
T KOG2982|consen 353 LICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQE 416 (418)
T ss_pred EEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeeec
Confidence 345567999999999999999999999986 566533 24689999999999987753
No 180
>PF14541 TAXi_C: Xylanase inhibitor C-terminal; PDB: 3AUP_D 3HD8_A 1T6G_A 1T6E_X 2B42_A 3VLB_A 3VLA_A.
Probab=69.41 E-value=13 Score=32.40 Aligned_cols=29 Identities=10% Similarity=0.112 Sum_probs=24.9
Q ss_pred CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 277 PNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 277 ~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
...-.|||.-.++.+.+..|++++++.|.
T Consensus 132 ~~~~~viG~~~~~~~~v~fDl~~~~igF~ 160 (161)
T PF14541_consen 132 DDGVSVIGNFQQQNYHVVFDLENGRIGFA 160 (161)
T ss_dssp TSSSEEE-HHHCCTEEEEEETTTTEEEEE
T ss_pred CCCcEEECHHHhcCcEEEEECCCCEEEEe
Confidence 45678999999999999999999999884
No 181
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=69.30 E-value=10 Score=25.20 Aligned_cols=22 Identities=23% Similarity=0.523 Sum_probs=11.6
Q ss_pred CHHHHHHhc--CCCHHHHHHHHHH
Q 016931 114 DPELAQVLL--GNDLNKLQDLLRE 135 (380)
Q Consensus 114 nP~La~ai~--~~d~~~~~~~l~~ 135 (380)
||.++.++. ..||+.++.++..
T Consensus 10 ~P~~~~~l~~~~~nP~~~~~~~~~ 33 (41)
T smart00727 10 NPQVQSLLQDMQQNPDMLAQMLQE 33 (41)
T ss_pred CHHHHHHHHHHHHCHHHHHHHHHh
Confidence 555555541 1366666665543
No 182
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=68.82 E-value=22 Score=36.85 Aligned_cols=26 Identities=19% Similarity=0.417 Sum_probs=24.0
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
..|||-.||+.+=.+.|+.++++-|.
T Consensus 421 ~~ILGd~FLr~~Y~VFD~~n~rIGfA 446 (450)
T PTZ00013 421 TFILGDPFMRKYFTVFDYDKESVGFA 446 (450)
T ss_pred CEEECHHHhccEEEEEECCCCEEEEE
Confidence 57999999999999999999999885
No 183
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=68.28 E-value=21 Score=31.85 Aligned_cols=31 Identities=26% Similarity=0.334 Sum_probs=19.8
Q ss_pred HHHhhCCCccHHHHHHHHHHHHhhcHHHHHH
Q 016931 151 MALLYADPFDVEAQKKIEAAIRQKGIDENWA 181 (380)
Q Consensus 151 l~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~ 181 (380)
...+.+||||+++-+-+.+.+.+..++.-.+
T Consensus 88 ~~Li~Ad~FDeaAvra~~~kma~~~~e~~v~ 118 (162)
T PRK12751 88 HKLITADKFDEAAVRAQAEKMSQNQIERHVE 118 (162)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4566688888777776666666555543333
No 184
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=68.14 E-value=14 Score=28.29 Aligned_cols=44 Identities=11% Similarity=0.199 Sum_probs=35.0
Q ss_pred EEEEeCCCCEEE-EEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931 3 ITVMTADEQIIS-LDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (380)
Q Consensus 3 ItVk~~~g~~~~-i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (380)
|.+.. ++..+. +.+..+.|..+|+..|+..++.+.....|.|..
T Consensus 4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 44444 345555 899999999999999999999998888888853
No 185
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=68.04 E-value=15 Score=27.60 Aligned_cols=58 Identities=17% Similarity=0.131 Sum_probs=45.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC--CCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 12 IISLDVDPHETVENVKALLEVETQV--PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gi--p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
...+.+....||.+|.+.+..++.- ......+..||+...+ ...+.-+++||.|.++.
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~p 72 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILP 72 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEEC
Confidence 5567888999999999999888731 2256677789998887 35566779999999874
No 186
>cd05489 xylanase_inhibitor_I_like TAXI-I inhibits degradation of xylan in the cell wall. Xylanase inhibitor-I (TAXI-I) is a member of potent TAXI-type inhibitors of fungal and bacterial family 11 xylanases. Plants developed a diverse battery of defense mechanisms in response to continual challenges by a broad spectrum of pathogenic microorganisms. Their defense arsenal includes inhibitors of cell wall-degrading enzymes, which hinder a possible invasion and colonization by antagonists. Xylanases of fungal and bacterial pathogens are the key enzymes in the degradation of xylan in the cell wall. Plants secrete proteins that inhibit these degradation glycosidases, including xylanase. Surprisingly, TAXI-I displays structural homology with the pepsin-like family of aspartic proteases but is proteolytically nonfunctional, because one or more residues of the essential catalytic triad are absent. The structure of the TAXI-inhibitor, Aspergillus niger xylanase I complex, illustrates the ability
Probab=67.38 E-value=26 Score=35.10 Aligned_cols=25 Identities=16% Similarity=0.320 Sum_probs=23.1
Q ss_pred eeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931 281 FLFGLDMLRKHQCIIDLKENVLRVG 305 (380)
Q Consensus 281 ~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (380)
.|||--+|+.+..+.|+++++|-|.
T Consensus 335 ~IlG~~~~~~~~vvyD~~~~riGfa 359 (362)
T cd05489 335 VVIGGHQMEDNLLVFDLEKSRLGFS 359 (362)
T ss_pred EEEeeheecceEEEEECCCCEeecc
Confidence 5899999999999999999999885
No 187
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=66.97 E-value=11 Score=40.95 Aligned_cols=41 Identities=20% Similarity=0.302 Sum_probs=37.3
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCee
Q 016931 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE 49 (380)
Q Consensus 9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~ 49 (380)
+...+.+-++++.|+..|++.|+..+|+|...|.|+|.|..
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~ 363 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL 363 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence 46678889999999999999999999999999999998754
No 188
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=66.22 E-value=7.1 Score=33.07 Aligned_cols=58 Identities=14% Similarity=0.225 Sum_probs=41.9
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcC--CC-CCcEEEEeec
Q 016931 15 LDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG--VK-DEDLVMMVSN 72 (380)
Q Consensus 15 i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~g--I~-dg~~I~l~~~ 72 (380)
+-|+.+.||++|...|..+.++++++.-|..++..+..+.++++.- -+ ++..|++.-.
T Consensus 45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 3699999999999999999999999855555776666666765532 12 3446676643
No 189
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=65.45 E-value=15 Score=38.80 Aligned_cols=63 Identities=22% Similarity=0.325 Sum_probs=42.1
Q ss_pred CEEEEEeCCCCCHHHHHHHHHHHh--CCC------CcCeEEec--C--Ce-ecCCc-------------ccchhcCCCCC
Q 016931 11 QIISLDVDPHETVENVKALLEVET--QVP------LQQQQLLY--N--GR-EMNNA-------------EKLSALGVKDE 64 (380)
Q Consensus 11 ~~~~i~V~~~~TV~~LK~~I~~~~--gip------~~~q~Li~--~--Gk-~L~D~-------------~tL~~~gI~dg 64 (380)
..+.+.|=..+||.++|++|-... +.| +++.-|-+ + |+ +|+|. .||..|||.||
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg 281 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDG 281 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TT
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCC
Confidence 447888888999999999987764 333 34444432 2 23 45542 37999999999
Q ss_pred cEEEEeecC
Q 016931 65 DLVMMVSNA 73 (380)
Q Consensus 65 ~~I~l~~~~ 73 (380)
++|-++.+.
T Consensus 282 a~vaLv~k~ 290 (539)
T PF08337_consen 282 ATVALVPKQ 290 (539)
T ss_dssp EEEEEEES-
T ss_pred ceEEEeecc
Confidence 999999764
No 190
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=64.79 E-value=13 Score=37.44 Aligned_cols=66 Identities=15% Similarity=0.290 Sum_probs=51.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEe--cCCeecCCc-ccchhcCCCCCcEE
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLL--YNGREMNNA-EKLSALGVKDEDLV 67 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li--~~Gk~L~D~-~tL~~~gI~dg~~I 67 (380)
.|-|+..+|+.....++.+-||.|++..|...-.-.+ ..+.|+ |--|.|.|+ .||++.|+.+-.+|
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlv 376 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLV 376 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhhh
Confidence 3678888898888889999999999999998765443 355565 667889875 79999999865443
No 191
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=64.20 E-value=15 Score=31.13 Aligned_cols=55 Identities=20% Similarity=0.385 Sum_probs=38.0
Q ss_pred EeCC-CCCHHHHHHHHHHHh----CCCC------cCeEEecCC-----------------eec---CCcccchhcCCCCC
Q 016931 16 DVDP-HETVENVKALLEVET----QVPL------QQQQLLYNG-----------------REM---NNAEKLSALGVKDE 64 (380)
Q Consensus 16 ~V~~-~~TV~~LK~~I~~~~----gip~------~~q~Li~~G-----------------k~L---~D~~tL~~~gI~dg 64 (380)
.|+. +.||.+|++.+.++. |++| +..+|++.. .+| +++++|.++||.+.
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE 100 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE 100 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence 4776 899999998887764 4554 334454321 356 56788999999888
Q ss_pred cEEEEe
Q 016931 65 DLVMMV 70 (380)
Q Consensus 65 ~~I~l~ 70 (380)
..|-+.
T Consensus 101 TEiSfF 106 (122)
T PF10209_consen 101 TEISFF 106 (122)
T ss_pred ceeeee
Confidence 877654
No 192
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=63.96 E-value=21 Score=34.39 Aligned_cols=69 Identities=13% Similarity=0.265 Sum_probs=54.6
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEe
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~ 70 (380)
.|-|+..+|+++...+....|+.+++..|....+...+-..|. |--+.+.+ .++|..+++-+-.+|.+.
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil~ 285 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheecc
Confidence 3678888999999999999999999999999998776444443 44455543 379999999888887764
No 193
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=63.33 E-value=44 Score=29.00 Aligned_cols=87 Identities=21% Similarity=0.404 Sum_probs=54.8
Q ss_pred HHHHHhhcCHH-------HHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCccHHHHHHHHHHHHhhcHHH
Q 016931 106 LMTQLFQSDPE-------LAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDE 178 (380)
Q Consensus 106 ~l~qL~~~nP~-------La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~e 178 (380)
++..|...||. |.+++..|.-..|...+.+. +--.++..+..++.+++.+.+|.++|+
T Consensus 42 l~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask---------~Fl~eL~kl~~~~~~~~Vk~kil~li~------ 106 (144)
T cd03568 42 IMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASR---------DFTQELKKLINDRVHPTVKEKLREVVK------ 106 (144)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhH---------HHHHHHHHHhcccCCHHHHHHHHHHHH------
Confidence 34445555555 33444444444554444332 344568888899889999999999999
Q ss_pred HHHHHHhcCCccccccceeEEeeeecCeeE
Q 016931 179 NWAAALEHNPEAFARVVMLYVDMEVNGIPL 208 (380)
Q Consensus 179 n~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v 208 (380)
+|..+....|+ +..+.-+|-.++-.|..+
T Consensus 107 ~W~~~f~~~~~-l~~i~~~y~~L~~~G~~f 135 (144)
T cd03568 107 QWADEFKNDPS-LSLMSDLYKKLKNEGPDL 135 (144)
T ss_pred HHHHHhCCCcc-cHHHHHHHHHHHHcCCCC
Confidence 78887776665 444555555555555443
No 194
>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease. Beta-secretase also called BACE (beta-site of APP cleaving enzyme) or memapsin-2. Beta-secretase is an aspartic-acid protease important in the pathogenesis of Alzheimer's disease, and in the formation of myelin sheaths in peripheral nerve cells. It cleaves amyloid precursor protein (APP) to reveal the N-terminus of the beta-amyloid peptides. The beta-amyloid peptides are the major components of the amyloid plaques formed in the brain of patients with Alzheimer's disease (AD). Since BACE mediates one of the cleavages responsible for generation of AD, it is regarded as a potential target for pharmacological intervention in AD. Beta-secretase is a member of pepsin family of aspartic proteases. Same as other aspartic proteases, beta-secretase is a bilobal enzyme, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two
Probab=62.51 E-value=23 Score=35.19 Aligned_cols=27 Identities=7% Similarity=0.114 Sum_probs=24.5
Q ss_pred ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (380)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (380)
-.|||--||+.+-.+.|+++++|-|..
T Consensus 318 ~~ILG~~flr~~yvvfD~~~~rIGfa~ 344 (364)
T cd05473 318 GTVIGAVIMEGFYVVFDRANKRVGFAV 344 (364)
T ss_pred ceEEeeeeEcceEEEEECCCCEEeeEe
Confidence 379999999999999999999999964
No 195
>PF11925 DUF3443: Protein of unknown function (DUF3443); InterPro: IPR021847 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 400 to 434 amino acids in length. This protein has two conserved sequence motifs: NPV and DNNG.
Probab=62.44 E-value=19 Score=36.23 Aligned_cols=96 Identities=16% Similarity=0.157 Sum_probs=56.6
Q ss_pred cceeEEeeeec--C----ee-EEEEEcCCccccccCHHHH-HHc--CCccccC-CcceeEeecCcceeEEeEEEEEeEEE
Q 016931 194 VVMLYVDMEVN--G----IP-LKAFVDSGAQSTIISKSCA-ERC--GLLRLLD-DRYRGVAHGVGQSEILGRIHVAPIKI 262 (380)
Q Consensus 194 ~~~lyv~v~In--g----~~-v~alVDTGA~~siIs~~~a-~rl--gL~~~~~-~~~~~~~~gvg~~~~~g~i~~~~i~i 262 (380)
..|+||.|+|= | +. =.+|||||+.---|-.+-+ .-+ .|..... -.........+....-|.|+.++|+|
T Consensus 21 ~N~p~VsVtVC~PGts~CqTIdnvlVDTGS~GLRi~~sAl~~~l~~~Lp~~t~~g~~laEC~~F~sgytWGsVr~AdV~i 100 (370)
T PF11925_consen 21 INIPTVSVTVCAPGTSNCQTIDNVLVDTGSYGLRIFASALPSSLAGSLPQQTGGGAPLAECAQFASGYTWGSVRTADVTI 100 (370)
T ss_pred ccceeeEEEEeCCCCCCceeeCcEEEeccchhhhHHHhhhchhhhccCCcccCCCcchhhhhhccCcccccceEEEEEEE
Confidence 48999999981 1 12 2689999998765543322 222 2321111 00001112223457789999999999
Q ss_pred cCE-EEeEEEEEecC----------------------CCCceeeeHHHHh
Q 016931 263 GNV-FYPCSFVVLDS----------------------PNMEFLFGLDMLR 289 (380)
Q Consensus 263 g~~-~~~~~~~Vl~~----------------------~~~d~iLG~D~L~ 289 (380)
|++ --.+++.|+++ .+.++|||+.-+.
T Consensus 101 gge~A~~iPiQvI~D~~~~~~P~sC~~~g~~~~t~~~lgaNGILGIg~~~ 150 (370)
T PF11925_consen 101 GGETASSIPIQVIGDSAAPSVPSSCSNSGASMNTVADLGANGILGIGPFP 150 (370)
T ss_pred cCeeccccCEEEEcCCCCCCCCchhhcCCCCCCCcccccCceEEeecCCc
Confidence 985 34455666642 2468999997663
No 196
>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=62.16 E-value=56 Score=24.74 Aligned_cols=56 Identities=11% Similarity=0.054 Sum_probs=40.8
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC--CeecCCcccchh
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--GREMNNAEKLSA 58 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~--Gk~L~D~~tL~~ 58 (380)
+.|..++|+...+.+.+..|+.|+-..+-++.|+.++...++.. .+.|.-+.....
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~ 60 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSS 60 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceee
Confidence 46778899999999999999999999999999999988777643 355554444333
No 197
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=60.65 E-value=28 Score=34.50 Aligned_cols=61 Identities=15% Similarity=0.128 Sum_probs=45.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|+|+|. |+. +++....||.+|-.. .+++++...+.+||+.+.- ....++-+++||.|-++.
T Consensus 1 M~I~VN---Gk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr-~~w~~t~LkeGD~IEII~ 61 (326)
T PRK11840 1 MRIRLN---GEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPR-SEYGQVALEEGDELEIVH 61 (326)
T ss_pred CEEEEC---CEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCH-HHcCccccCCCCEEEEEE
Confidence 565554 554 556677888887765 6889998889999998853 335666799999999885
No 198
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=59.71 E-value=7.3 Score=39.99 Aligned_cols=58 Identities=17% Similarity=0.232 Sum_probs=50.4
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 14 SLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 14 ~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
.++.+.+.|-.++...|++++||+-+..+.+-+||+|.-.+||.+-|++...-+++..
T Consensus 53 l~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~ 110 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKINQELMVAV 110 (568)
T ss_pred hhhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhhhhHHHHHh
Confidence 4556677889999999999999999989999999999999999999999877655543
No 199
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=58.85 E-value=27 Score=31.28 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=21.2
Q ss_pred HHhhCCCccHHHHHHHHHHHHhhcHHHHHHHH
Q 016931 152 ALLYADPFDVEAQKKIEAAIRQKGIDENWAAA 183 (380)
Q Consensus 152 ~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A 183 (380)
.++.+|+||..+-|-..|.|-++.++.-.+++
T Consensus 83 ~LI~ad~FDEaavra~a~kma~~~~e~~Vem~ 114 (166)
T PRK10363 83 RLVTAENFDENAVRAQAEKMAQEQVARQVEMA 114 (166)
T ss_pred HHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667888877766666666666666555554
No 200
>PRK01777 hypothetical protein; Validated
Probab=57.97 E-value=66 Score=26.00 Aligned_cols=62 Identities=18% Similarity=0.130 Sum_probs=41.3
Q ss_pred CEEEEEeCC---CCEEEEEeCCCCCHHHHHHHHHHHhCCCCc--Ce-----EEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 1 MRITVMTAD---EQIISLDVDPHETVENVKALLEVETQVPLQ--QQ-----QLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 1 M~ItVk~~~---g~~~~i~V~~~~TV~~LK~~I~~~~gip~~--~q-----~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
|+|.|.... .....++++..+||.++-.. .|++.. +. .+.-+|+...- +.-+++||.|-+.
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~----sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeIy 74 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRA----SGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEIY 74 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHH----cCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEEe
Confidence 567775432 33467889999999998776 566655 22 34446665543 3467899999987
Q ss_pred e
Q 016931 71 S 71 (380)
Q Consensus 71 ~ 71 (380)
+
T Consensus 75 r 75 (95)
T PRK01777 75 R 75 (95)
T ss_pred c
Confidence 5
No 201
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=57.12 E-value=46 Score=26.16 Aligned_cols=34 Identities=21% Similarity=0.223 Sum_probs=28.6
Q ss_pred EEEEeCCCCEEEEEeCC--CCCHHHHHHHHHHHhCCC
Q 016931 3 ITVMTADEQIISLDVDP--HETVENVKALLEVETQVP 37 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~--~~TV~~LK~~I~~~~gip 37 (380)
|+++. +|.+..+.+++ +.+..+|++.|...++++
T Consensus 3 vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 3 LKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred EEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 44444 67888888988 779999999999999999
No 202
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=55.42 E-value=24 Score=27.91 Aligned_cols=53 Identities=19% Similarity=0.278 Sum_probs=29.4
Q ss_pred CCCCHHHHHHHH-HHHhCCCCc----CeEEecCCee----cCCcccchhcCCCCCcEEEEee
Q 016931 19 PHETVENVKALL-EVETQVPLQ----QQQLLYNGRE----MNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 19 ~~~TV~~LK~~I-~~~~gip~~----~q~Li~~Gk~----L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
..+|+.+|-..| ..+.|...- .-.++|.... -..+++|+++||++|++|.+..
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~D 68 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVDD 68 (87)
T ss_dssp TT-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEEE
T ss_pred hhCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEEE
Confidence 357999998875 446664432 2234443322 1125899999999999998874
No 203
>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=52.01 E-value=1.1e+02 Score=23.54 Aligned_cols=48 Identities=17% Similarity=0.110 Sum_probs=36.0
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCC--CcCeEEe--cCC----eecCCc-ccch
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVP--LQQQQLL--YNG----REMNNA-EKLS 57 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip--~~~q~Li--~~G----k~L~D~-~tL~ 57 (380)
+...+|.|+.++|..++-..+..++++. +....|+ +.+ +.|.|+ ..|.
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl~ 68 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPLQ 68 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChHH
Confidence 6668899999999999999999999987 5555665 232 456554 5543
No 204
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=51.50 E-value=20 Score=28.36 Aligned_cols=58 Identities=17% Similarity=0.337 Sum_probs=40.7
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCc-------CeEEecCCe-ecC----C--cccchhcCCCCCcEEEEeecC
Q 016931 15 LDVDPHETVENVKALLEVETQVPLQ-------QQQLLYNGR-EMN----N--AEKLSALGVKDEDLVMMVSNA 73 (380)
Q Consensus 15 i~V~~~~TV~~LK~~I~~~~gip~~-------~q~Li~~Gk-~L~----D--~~tL~~~gI~dg~~I~l~~~~ 73 (380)
|+|+++.|+.+|-+.+..+..+... .-.|++.+- .|. . +++|.++ +.+|+.|+|.+..
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~VtD~~ 72 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVTDPT 72 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEEETT
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEECCC
Confidence 5789999999999999998433333 334444332 132 1 5899999 9999999997653
No 205
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=50.58 E-value=49 Score=30.59 Aligned_cols=56 Identities=20% Similarity=0.178 Sum_probs=33.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCCc---CeEEe--cCCee---cCCcccchhcCCCCCcEEEE
Q 016931 12 IISLDVDPHETVENVKALLEVETQVPLQ---QQQLL--YNGRE---MNNAEKLSALGVKDEDLVMM 69 (380)
Q Consensus 12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~---~q~Li--~~Gk~---L~D~~tL~~~gI~dg~~I~l 69 (380)
.+.+-|+.+.||.||...+..+.+++.+ ..+|+ +++|. +..+.+|+.. .+...+.+
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l--~~~~~~r~ 98 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL--NDYITLRI 98 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS----TTEEEE
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc--cCcceeee
Confidence 4778899999999999999999998775 45554 67765 5567778777 44444444
No 206
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=48.51 E-value=73 Score=26.97 Aligned_cols=75 Identities=13% Similarity=0.253 Sum_probs=44.8
Q ss_pred HHHHHhhcCHH-------HHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCC--CccHHHHHHHHHHHHhhcH
Q 016931 106 LMTQLFQSDPE-------LAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYAD--PFDVEAQKKIEAAIRQKGI 176 (380)
Q Consensus 106 ~l~qL~~~nP~-------La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~d--P~~~E~Q~~I~E~Irq~~i 176 (380)
++..|...||. |-+++..|....|...+.+. +.-.++..+..+ .-+++.+++|.++++
T Consensus 42 L~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~---------~fl~~l~~l~~~~~~~~~~Vk~kil~ll~---- 108 (133)
T cd03561 42 IRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADK---------EFLLELVKIAKNSPKYDPKVREKALELIL---- 108 (133)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhH---------HHHHHHHHHhCCCCCCCHHHHHHHHHHHH----
Confidence 34444445554 33444444455565555542 222346666666 367899999999999
Q ss_pred HHHHHHHHhcCCccccccc
Q 016931 177 DENWAAALEHNPEAFARVV 195 (380)
Q Consensus 177 ~en~~~A~E~~Pe~f~~~~ 195 (380)
+|..++...+..+..+.
T Consensus 109 --~W~~~f~~~~~~~~~~~ 125 (133)
T cd03561 109 --AWSESFGGHSEDLPGIE 125 (133)
T ss_pred --HHHHHhcCCCccchHHH
Confidence 89888877643343333
No 207
>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=48.35 E-value=59 Score=26.38 Aligned_cols=39 Identities=13% Similarity=0.049 Sum_probs=32.2
Q ss_pred EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec
Q 016931 6 MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY 45 (380)
Q Consensus 6 k~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~ 45 (380)
+..+|++..+.|+.+.|..+|+.++.+.++++.. ..|-|
T Consensus 18 ~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 18 RYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 4456888889999999999999999999999876 44433
No 208
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=47.98 E-value=68 Score=25.68 Aligned_cols=44 Identities=9% Similarity=0.124 Sum_probs=32.6
Q ss_pred EEEEeCCCCEEEEEeC-----CCCCHHHHHHHHHHHhCCCC-cCeEEecCC
Q 016931 3 ITVMTADEQIISLDVD-----PHETVENVKALLEVETQVPL-QQQQLLYNG 47 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~-----~~~TV~~LK~~I~~~~gip~-~~q~Li~~G 47 (380)
|+++. +|....+.++ ++.+..+|+.+|...+++++ ....|.|..
T Consensus 3 vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~D 52 (91)
T cd06398 3 VKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTD 52 (91)
T ss_pred EEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEEC
Confidence 44444 4556666666 47999999999999999998 556666643
No 209
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=46.63 E-value=20 Score=28.22 Aligned_cols=26 Identities=31% Similarity=0.489 Sum_probs=16.2
Q ss_pred HHHHHhcCHHHHHHHhhcCHHHHHHh
Q 016931 96 FQQHIRNDANLMTQLFQSDPELAQVL 121 (380)
Q Consensus 96 ~~q~~l~nP~~l~qL~~~nP~La~ai 121 (380)
|......||+..++|..+||.|+-|+
T Consensus 38 mK~l~~~~p~~ar~lL~~nPqLa~Al 63 (84)
T PF14327_consen 38 MKQLAQQNPEQARQLLQQNPQLAYAL 63 (84)
T ss_dssp HHHHHC----HHHHHHHS-THHHHHH
T ss_pred HHHHHHhCHHHHHHHHHHCcHHHHHH
Confidence 44455678999999999999988876
No 210
>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=46.61 E-value=33 Score=28.21 Aligned_cols=56 Identities=16% Similarity=0.143 Sum_probs=38.1
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCCcC-eEEecCCeecCCcccchhcCC---CCCcEEEEee
Q 016931 16 DVDPHETVENVKALLEVETQVPLQQ-QQLLYNGREMNNAEKLSALGV---KDEDLVMMVS 71 (380)
Q Consensus 16 ~V~~~~TV~~LK~~I~~~~gip~~~-q~Li~~Gk~L~D~~tL~~~gI---~dg~~I~l~~ 71 (380)
=|+.+.||.+|...|..+..+++++ .-|+.++.....+.++++.-= .++..|++.-
T Consensus 38 Lvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Y 97 (104)
T PF02991_consen 38 LVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTY 97 (104)
T ss_dssp EEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEE
T ss_pred EEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEe
Confidence 3788999999999999999998865 556667766667777765321 2344666653
No 211
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=43.28 E-value=1.5e+02 Score=26.57 Aligned_cols=27 Identities=30% Similarity=0.486 Sum_probs=16.8
Q ss_pred HHHhhCCCccHHHHHHHHHHHHhhcHH
Q 016931 151 MALLYADPFDVEAQKKIEAAIRQKGID 177 (380)
Q Consensus 151 l~~l~~dP~~~E~Q~~I~E~Irq~~i~ 177 (380)
...+.+||||+++-+.+.+.+.+..++
T Consensus 95 ~~Ll~a~~FDeaavral~~~~~~~~~e 121 (170)
T PRK12750 95 QALVLADDFDEAAANDLAKQMVEKQVE 121 (170)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 355668899988766665544444333
No 212
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=43.08 E-value=77 Score=25.17 Aligned_cols=67 Identities=22% Similarity=0.240 Sum_probs=46.8
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc-CeEEe-c-----CCeecCCcc----cchhcCCCCCcEEEE
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLL-Y-----NGREMNNAE----KLSALGVKDEDLVMM 69 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~-~q~Li-~-----~Gk~L~D~~----tL~~~gI~dg~~I~l 69 (380)
|.|-..+|....+.|+..+|+.++-.++..+.++..+ ...|+ + =.+.++|.. -|+..+......+++
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l~f 82 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLFF 82 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEEE
Confidence 4555678999999999999999999999999987654 44554 1 135566653 456666644444443
No 213
>PF12685 SpoIIIAH: SpoIIIAH-like protein; InterPro: IPR024232 Stage III sporulation protein AH (SpoIIIAH) is a protein that is involved in forespore engulfment. It forms a channel with SpoIIIAH that is open on the forespore end and closed (or gated) on the mother cell end. This allows sigma-E-directed gene expression in the mother-cell compartment of the sporangium to trigger the activation of sigma-G forespore-specific gene expression by a pathway of intercellular signaling. This family of proteins is found in bacteria, archaea and eukaryotes and so must have a wider function than in sporulation. Proteins in this family are typically between 174 and 223 amino acids in length.; PDB: 3UZ0_A 3TUF_A.
Probab=42.40 E-value=2.6e+02 Score=25.31 Aligned_cols=68 Identities=15% Similarity=0.149 Sum_probs=37.8
Q ss_pred HHHHhhHHHHHHhhCCCcc-----HHHHHHHHHHHHhhcHHHHHHHHHhcCCccccccceeEEeeeecCeeEEEEEcCCc
Q 016931 142 ELRRRQEEEMALLYADPFD-----VEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGA 216 (380)
Q Consensus 142 ~~~~~~~~el~~l~~dP~~-----~E~Q~~I~E~Irq~~i~en~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA 216 (380)
+.+.+..+.|..+.+||.. -|++.+|.++.....-+.+++..+.-- ||.- +=|.|.+..++++|-+.-
T Consensus 97 ~~r~~~~e~L~~ii~~~~~s~~~k~~A~~~~~~l~~~~~kE~~iE~llkak--Gf~d-----avv~~~~~~v~VvV~~~~ 169 (196)
T PF12685_consen 97 QSRSKQIETLKEIINNENASEEEKKEAQDKLLELTEKMEKEMEIENLLKAK--GFED-----AVVFIEDDSVDVVVKADK 169 (196)
T ss_dssp HHHHHHHHHHHHHHT-TTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--S-SE-----EEEE-SSSEEEEEEE-S-
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCc-----eEEEeeCCEEEEEEeCCC
Confidence 3334456678888899865 446666666666555555555544322 5542 124566778888887754
No 214
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=42.14 E-value=65 Score=24.91 Aligned_cols=39 Identities=15% Similarity=0.254 Sum_probs=30.6
Q ss_pred CCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCCcccchhc
Q 016931 21 ETVENVKALLEVETQVPLQQQQLL--YNGREMNNAEKLSAL 59 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D~~tL~~~ 59 (380)
.|+++|+.+...+++++...-+|. -+|..++|+.-+..+
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tL 59 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTL 59 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcC
Confidence 379999999999999996555554 489999887665554
No 215
>TIGR02105 III_needle type III secretion apparatus needle protein. Type III secretion systems translocate proteins, usually virulence factors, out across both inner and outer membranes of certain Gram-negative bacteria and further across the plasma membrane and into the cytoplasm of the host cell. This protein, termed YscF in Yersinia, and EscF, PscF, EprI, etc. in other systems, forms the needle of the injection apparatus.
Probab=41.99 E-value=1.6e+02 Score=22.62 Aligned_cols=35 Identities=23% Similarity=0.223 Sum_probs=28.3
Q ss_pred HHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHH
Q 016931 148 EEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAA 183 (380)
Q Consensus 148 ~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A 183 (380)
+..+..+ .+|.||+...+++..|.|=++-.|++.+
T Consensus 22 ~~a~~~l-~~~~nP~~La~~Q~~~~qYs~~~n~qSs 56 (72)
T TIGR02105 22 NDSLAAL-DLPNDPELMAELQFALNQYSAYYNIEST 56 (72)
T ss_pred HHHHHcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555 8889999999999999988888888776
No 216
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=41.76 E-value=89 Score=24.60 Aligned_cols=43 Identities=14% Similarity=0.032 Sum_probs=34.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY 45 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~ 45 (380)
+.+|+. +|.+..+.++.+.|...|+++|...+.+|+...-|.|
T Consensus 2 ~fKv~~-~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY 44 (82)
T cd06397 2 QFKSSF-LGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTY 44 (82)
T ss_pred eEEEEe-CCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence 345655 5666777788888999999999999999998777766
No 217
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=41.74 E-value=1.6e+02 Score=24.87 Aligned_cols=36 Identities=25% Similarity=0.550 Sum_probs=27.8
Q ss_pred HHHHHHhhCCCccHH-HHHHHHHHHHhhcHHHHHHHHHhcCCc
Q 016931 148 EEEMALLYADPFDVE-AQKKIEAAIRQKGIDENWAAALEHNPE 189 (380)
Q Consensus 148 ~~el~~l~~dP~~~E-~Q~~I~E~Irq~~i~en~~~A~E~~Pe 189 (380)
-.++..+..++.+.. .+.+|.++|. +|..++..-|+
T Consensus 82 l~~L~~l~~~~~~~~~Vk~kil~li~------~W~~~f~~~~~ 118 (133)
T smart00288 82 LNELVKLIKPKYPLPLVKKRILELIQ------EWADAFKNDPD 118 (133)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHHHH------HHHHHHcCCCC
Confidence 346777777777744 9999999999 88888766665
No 218
>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=41.08 E-value=43 Score=27.93 Aligned_cols=56 Identities=14% Similarity=0.109 Sum_probs=38.9
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCcCe-EEecCCeecCCcccchh----cCCCCCcEEEEee
Q 016931 15 LDVDPHETVENVKALLEVETQVPLQQQ-QLLYNGREMNNAEKLSA----LGVKDEDLVMMVS 71 (380)
Q Consensus 15 i~V~~~~TV~~LK~~I~~~~gip~~~q-~Li~~Gk~L~D~~tL~~----~gI~dg~~I~l~~ 71 (380)
+-|+.+.||.+|...|..+.++.+++- -|+.++.....+.++++ |+-. +..|++.-
T Consensus 45 flVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~-DGfLyl~Y 105 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKDE-DGFLYMTY 105 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCCC-CCEEEEEE
Confidence 458999999999999999999988764 44446654455666644 4433 44666653
No 219
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=40.85 E-value=1.5e+02 Score=22.74 Aligned_cols=52 Identities=17% Similarity=0.119 Sum_probs=31.9
Q ss_pred EEeCC-CCCHHHHHHHHHHHhCC-----CCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 15 LDVDP-HETVENVKALLEVETQV-----PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 15 i~V~~-~~TV~~LK~~I~~~~gi-----p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
++++. ..||.+|++.+..++.- .....++..|+....+ +.-+++||.|-+..
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~P 76 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFP 76 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEeC
Confidence 44443 47999999999888621 1122233345543322 33589999998873
No 220
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=40.67 E-value=89 Score=23.93 Aligned_cols=51 Identities=16% Similarity=0.226 Sum_probs=37.4
Q ss_pred EEEEeCCCC----EEEEEeCCCCCHHHHHHHHHHHhCC--CCcCeEEe----cCC--eecCCc
Q 016931 3 ITVMTADEQ----IISLDVDPHETVENVKALLEVETQV--PLQQQQLL----YNG--REMNNA 53 (380)
Q Consensus 3 ItVk~~~g~----~~~i~V~~~~TV~~LK~~I~~~~gi--p~~~q~Li----~~G--k~L~D~ 53 (380)
|.|-..++. ..++.|+.++|+.++-..+..++++ .+....|+ ..| +.|.++
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~ 67 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDD 67 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTT
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCC
Confidence 445555555 7889999999999999999999998 44556673 233 457654
No 221
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=40.59 E-value=99 Score=31.20 Aligned_cols=91 Identities=14% Similarity=0.254 Sum_probs=53.3
Q ss_pred eeEEeeeecCe--eEEEEEcCCccccccCHHHHH-HcCC--ccccCCcc----------------------------eeE
Q 016931 196 MLYVDMEVNGI--PLKAFVDSGAQSTIISKSCAE-RCGL--LRLLDDRY----------------------------RGV 242 (380)
Q Consensus 196 ~lyv~v~Ing~--~v~alVDTGA~~siIs~~~a~-rlgL--~~~~~~~~----------------------------~~~ 242 (380)
-.|+++.|.-= ++.+++|||++..-+.-.... .|.- .+..+... ..+
T Consensus 46 ~Y~~~i~IGTPpq~f~v~~DTGS~~lWV~c~~c~~~C~~~~~~~f~p~~SSt~~~~~c~~~~c~~~~~~~~~~~~C~y~i 125 (398)
T KOG1339|consen 46 EYYGNISIGTPPQSFTVVLDTGSDLLWVPCAPCSSACYSQHNPIFDPSASSTYKSVGCSSPRCKSLPQSCSPNSSCPYSI 125 (398)
T ss_pred ccEEEEecCCCCeeeEEEEeCCCCceeeccccccccccccCCCccCccccccccccCCCCccccccccCcccCCcCceEE
Confidence 57889999543 499999999999988653333 3432 11011100 122
Q ss_pred eecCcceeEEeEEEEEeEEEcC--------EEEeEEEEEe---cC-CCCceeeeHHH
Q 016931 243 AHGVGQSEILGRIHVAPIKIGN--------VFYPCSFVVL---DS-PNMEFLFGLDM 287 (380)
Q Consensus 243 ~~gvg~~~~~g~i~~~~i~ig~--------~~~~~~~~Vl---~~-~~~d~iLG~D~ 287 (380)
.+|-| ....|..-...|.+++ ..|-|-..-. .. ...|+||||-|
T Consensus 126 ~Ygd~-~~~~G~l~~Dtv~~~~~~~~~~~~~~FGc~~~~~g~~~~~~~~dGIlGLg~ 181 (398)
T KOG1339|consen 126 QYGDG-SSTSGYLATDTVTFGGTTSLPVPNQTFGCGTNNPGSFGLFAAFDGILGLGR 181 (398)
T ss_pred EeCCC-CceeEEEEEEEEEEccccccccccEEEEeeecCccccccccccceEeecCC
Confidence 23432 3577888888888887 2233322221 11 45899999874
No 222
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=40.48 E-value=62 Score=25.27 Aligned_cols=63 Identities=19% Similarity=0.315 Sum_probs=40.7
Q ss_pred EEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCCcccchhcCCCCCcEEEEee
Q 016931 4 TVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 4 tVk~~~-g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
.|+..+ ...+-|-. .++.+|+.+....++++.+..+|. -+|..++|+.-+..+ .++..+++..
T Consensus 6 kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~nT~lm~L~ 71 (78)
T PF02017_consen 6 KVRNHDRSVKKGVAA---SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL--PDNTVLMLLE 71 (78)
T ss_dssp EEEETTSSCEEEEEE---SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS--SSSEEEEEEE
T ss_pred EEecCCCCceEeEEc---CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC--CCCCEEEEEC
Confidence 455443 34455555 379999999999999997666555 489988887655543 3444444443
No 223
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=40.26 E-value=25 Score=33.43 Aligned_cols=58 Identities=16% Similarity=0.350 Sum_probs=40.4
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC----C--eecCCcccchhcCCCCCcEEEEeec
Q 016931 15 LDVDPHETVENVKALLEVETQVPLQQQQLLYN----G--REMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 15 i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~----G--k~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
+-|+.+.+|+++-..|.+..|+|++..-++|. + ..++...|+....+.+||+|.+-+.
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ~~ 152 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQRA 152 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEEE-
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEEec
Confidence 46788999999999999999999987766663 2 2366779999999999999988754
No 224
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=39.76 E-value=1.8e+02 Score=25.10 Aligned_cols=37 Identities=27% Similarity=0.422 Sum_probs=28.8
Q ss_pred hHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHHHhcCCc
Q 016931 147 QEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPE 189 (380)
Q Consensus 147 ~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A~E~~Pe 189 (380)
--.++..+..+--+++.+++|.++|+ +|..+...-|+
T Consensus 85 fl~~l~~l~~~~~~~~Vk~kil~li~------~W~~~f~~~~~ 121 (142)
T cd03569 85 FMDELKDLIKTTKNEEVRQKILELIQ------AWALAFRNKPQ 121 (142)
T ss_pred HHHHHHHHHcccCCHHHHHHHHHHHH------HHHHHhCCCcc
Confidence 33567777776667899999999999 88888876654
No 225
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA. Members of this protein family are the stage II sporulation protein SpoIIGA. This protein acts as an activating protease for Sigma-E, one of several specialized sigma factors of the sporulation process in Bacillus subtilis and related endospore-forming bacteria.
Probab=39.09 E-value=26 Score=34.04 Aligned_cols=34 Identities=18% Similarity=0.434 Sum_probs=26.2
Q ss_pred eeEEeeeecCee--EEEEEcCCcc---------ccccCHHHHHHc
Q 016931 196 MLYVDMEVNGIP--LKAFVDSGAQ---------STIISKSCAERC 229 (380)
Q Consensus 196 ~lyv~v~Ing~~--v~alVDTGA~---------~siIs~~~a~rl 229 (380)
..-|.+.++|+. +++|+|||.+ ..+++.+.++++
T Consensus 158 ~~~v~i~~~g~~~~~~alvDTGN~L~DPlT~~PV~Ive~~~~~~~ 202 (288)
T TIGR02854 158 IYELEICLDGKKVTIKGFLDTGNQLRDPLTKLPVIVVEYDSLKSI 202 (288)
T ss_pred EEEEEEEECCEEEEEEEEEecCCcccCCCCCCCEEEEEHHHhhhh
Confidence 445677889985 8999999977 457788877776
No 226
>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=38.78 E-value=1.7e+02 Score=24.40 Aligned_cols=53 Identities=21% Similarity=0.253 Sum_probs=37.7
Q ss_pred CEEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhCCC-----CcCeEEe--c-CC--eecCCc
Q 016931 1 MRITVMTADEQI--ISLDVDPHETVENVKALLEVETQVP-----LQQQQLL--Y-NG--REMNNA 53 (380)
Q Consensus 1 M~ItVk~~~g~~--~~i~V~~~~TV~~LK~~I~~~~gip-----~~~q~Li--~-~G--k~L~D~ 53 (380)
|+.+....+++. ..|.|++++|..++.+.+-.++.+. +...-|+ + +| +.|+|+
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk~d~~~~s~p~FALYevh~nGe~RKL~d~ 88 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFRPDMRMLSNPTYSLYEVHENGEERRLLDD 88 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhcccccccCCcceEEEEEecCCceEEcCCc
Confidence 566777666654 4589999999999999999999854 3455554 2 44 456653
No 227
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=38.45 E-value=59 Score=25.90 Aligned_cols=42 Identities=21% Similarity=0.388 Sum_probs=35.0
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeE-EecCCeecC
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQ-LLYNGREMN 51 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~-Li~~Gk~L~ 51 (380)
...+.+.|++++|=.++|+.|+..+|+++...+ +.+.|+.-.
T Consensus 20 ~n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 20 PNQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SSEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEE
T ss_pred CCEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceE
Confidence 367899999999999999999999999997765 447776543
No 228
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=38.03 E-value=77 Score=24.77 Aligned_cols=48 Identities=19% Similarity=0.380 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCCcccchhcCCCCCcEEEEe
Q 016931 21 ETVENVKALLEVETQVPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
.|+++|+.+...+++++....+|+ -+|..++|+.-+..+ .++..+++.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tL--p~nT~l~~l 70 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTL--PDNTVLMLL 70 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcC--CCCcEEEEE
Confidence 379999999999999976555554 589999887655554 234444443
No 229
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=37.49 E-value=91 Score=24.26 Aligned_cols=41 Identities=20% Similarity=0.120 Sum_probs=36.0
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec
Q 016931 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY 45 (380)
Q Consensus 5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~ 45 (380)
|..++|+...+-|.+++|+.|+-+....+-++.|..-.|-.
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrl 44 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRL 44 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEE
Confidence 55678999999999999999999999999999998776653
No 230
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=36.92 E-value=30 Score=33.54 Aligned_cols=34 Identities=29% Similarity=0.506 Sum_probs=26.4
Q ss_pred eeEEeeeecCee--EEEEEcCCcccc---------ccCHHHHHHc
Q 016931 196 MLYVDMEVNGIP--LKAFVDSGAQST---------IISKSCAERC 229 (380)
Q Consensus 196 ~lyv~v~Ing~~--v~alVDTGA~~s---------iIs~~~a~rl 229 (380)
..-|.++++|+. +++++|||.+.. +++.+.++++
T Consensus 157 ~~~v~i~~~~~~~~~~allDTGN~L~DPitg~PV~Vve~~~~~~~ 201 (293)
T PF03419_consen 157 LYPVTIEIGGKKIELKALLDTGNQLRDPITGRPVIVVEYEALEKL 201 (293)
T ss_pred EEEEEEEECCEEEEEEEEEECCCcccCCCCCCcEEEEEHHHHHhh
Confidence 445677889985 799999998754 7788887776
No 231
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=36.30 E-value=49 Score=25.17 Aligned_cols=44 Identities=16% Similarity=0.334 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 21 ETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
.|+++|....++++|++ ..-.+.-+|-.++|=. =|.|||.++++
T Consensus 26 ~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdDI~-----~IRDgD~L~~~ 69 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS-ATKVLNEDGAEIDDID-----VIRDGDHLYLV 69 (69)
T ss_pred ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeEEE-----EEEcCCEEEEC
Confidence 58999999999999997 4444555665555422 24678877763
No 232
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=36.23 E-value=94 Score=31.74 Aligned_cols=70 Identities=11% Similarity=0.161 Sum_probs=52.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHh--CCCCcCeEEec--C--Cee--cCCcccchhcCCCCCcEEEEee
Q 016931 1 MRITVMTADEQIISLDVDPHETVENVKALLEVET--QVPLQQQQLLY--N--GRE--MNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~--gip~~~q~Li~--~--Gk~--L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
|-+.++...|. ..+++.++++++.|-.+|-.-+ +..|++..+.- + |.. +..++|+.++|++.|++++|.-
T Consensus 1 Mi~rfRsk~G~-~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCCc-eeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 66778886666 5799999999999988877765 45566666653 2 332 3357899999999999999974
No 233
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=34.91 E-value=85 Score=25.89 Aligned_cols=36 Identities=14% Similarity=0.166 Sum_probs=28.5
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 016931 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPL 38 (380)
Q Consensus 3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~ 38 (380)
++|-..+|.+..+.|....+-.++|.++-.++|++.
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 567777899999999999999999999999999987
No 234
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=34.42 E-value=1e+02 Score=26.96 Aligned_cols=50 Identities=26% Similarity=0.256 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHhcCCccccc----cceeEEeeeecCeeEEEEEcCCccccc
Q 016931 163 AQKKIEAAIRQKGIDENWAAALEHNPEAFAR----VVMLYVDMEVNGIPLKAFVDSGAQSTI 220 (380)
Q Consensus 163 ~Q~~I~E~Irq~~i~en~~~A~E~~Pe~f~~----~~~lyv~v~Ing~~v~alVDTGA~~si 220 (380)
+|-+..|.|. ++. ...-.|||--. ...|||+.+++. +-++|||.|.-.-+
T Consensus 42 aq~k~~~~~~------aln-~~~~~~eGk~~LVPLTsSlYVPGkl~d-~~k~lVDIGTGYyV 95 (153)
T KOG3048|consen 42 AQTKYEESIA------ALN-DVQAANEGKKLLVPLTSSLYVPGKLSD-NSKFLVDIGTGYYV 95 (153)
T ss_pred HHHHHHHHHH------HHh-hcccCCCCCeEEEecccceeccceecc-ccceeEeccCceEE
Confidence 5566677776 555 56666776433 357999999988 88999999976654
No 235
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=33.69 E-value=1.2e+02 Score=30.01 Aligned_cols=20 Identities=30% Similarity=0.335 Sum_probs=16.2
Q ss_pred CCCccHHHHHHHHHHHHhhc
Q 016931 156 ADPFDVEAQKKIEAAIRQKG 175 (380)
Q Consensus 156 ~dP~~~E~Q~~I~E~Irq~~ 175 (380)
..-++||.||+++|-.++++
T Consensus 299 ~~~lspeeQrK~eeKe~kk~ 318 (321)
T PF07946_consen 299 LSKLSPEEQRKYEEKERKKE 318 (321)
T ss_pred HhcCCHHHHHHHHHHHHHHh
Confidence 45578899999999888654
No 236
>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=33.63 E-value=1.7e+02 Score=22.58 Aligned_cols=43 Identities=19% Similarity=0.236 Sum_probs=33.9
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCC--cCeEEe--c-CC--eecCC
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPL--QQQQLL--Y-NG--REMNN 52 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~--~~q~Li--~-~G--k~L~D 52 (380)
+...+|.|+.++|..++-..+..++++.. ....|+ + +| +.|.+
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~ 64 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPD 64 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCC
Confidence 66788999999999999999999999875 455555 3 44 45655
No 237
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=33.42 E-value=1.2e+02 Score=25.76 Aligned_cols=37 Identities=24% Similarity=0.414 Sum_probs=26.9
Q ss_pred HHHHHHhhCCCccHH---HHHHHHHHHHhhcHHHHHHHHHhcCCcc
Q 016931 148 EEEMALLYADPFDVE---AQKKIEAAIRQKGIDENWAAALEHNPEA 190 (380)
Q Consensus 148 ~~el~~l~~dP~~~E---~Q~~I~E~Irq~~i~en~~~A~E~~Pe~ 190 (380)
-.++..+..++-..+ .+++|.++|. .|..+..+.|+.
T Consensus 87 l~~l~~l~~~~~~~~~~~Vk~k~l~ll~------~W~~~f~~~~~~ 126 (140)
T PF00790_consen 87 LDELVKLIKSKKTDPETPVKEKILELLQ------EWAEAFKSDPEL 126 (140)
T ss_dssp HHHHHHHHHHTTTHHHSHHHHHHHHHHH------HHHHHTTTSTTG
T ss_pred HHHHHHHHccCCCCchhHHHHHHHHHHH------HHHHHHCCCCCc
Confidence 345666666555544 8999999999 888888777773
No 238
>PRK10353 3-methyl-adenine DNA glycosylase I; Provisional
Probab=32.98 E-value=64 Score=29.47 Aligned_cols=73 Identities=32% Similarity=0.274 Sum_probs=46.5
Q ss_pred hHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHHHhc--CCccccccceeEEeeeecCeeEEEEEcCC---cccccc
Q 016931 147 QEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEH--NPEAFARVVMLYVDMEVNGIPLKAFVDSG---AQSTII 221 (380)
Q Consensus 147 ~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A~E~--~Pe~f~~~~~lyv~v~Ing~~v~alVDTG---A~~siI 221 (380)
.++++..|++||--.-+.+||+..|. |-...++- --++|....=-| ++|+|+.--..+. ...|-+
T Consensus 72 ~e~die~Ll~d~~IIRnr~KI~Avi~------NA~~~l~i~~e~gSf~~ylW~f----v~~~p~~~~~~~~~~~P~~t~~ 141 (187)
T PRK10353 72 QEEDVERLVQDAGIIRHRGKIQAIIG------NARAYLQMEQNGEPFADFVWSF----VNHQPQVTQATTLSEIPTSTPA 141 (187)
T ss_pred CHHHHHHHhcCchhHHhHHHHHHHHH------HHHHHHHHHHhcCCHHHHHhhc----cCCCcccCCccchhcCCCCCHH
Confidence 34678889999999999999999999 65555432 245677654444 5566643323333 234556
Q ss_pred CHHHHHHc
Q 016931 222 SKSCAERC 229 (380)
Q Consensus 222 s~~~a~rl 229 (380)
|..+++.|
T Consensus 142 S~~lskdL 149 (187)
T PRK10353 142 SDALSKAL 149 (187)
T ss_pred HHHHHHHH
Confidence 66666543
No 239
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=32.67 E-value=42 Score=29.42 Aligned_cols=25 Identities=28% Similarity=0.567 Sum_probs=19.4
Q ss_pred eEEeeeecC--eeEEEEEcCCcccccc
Q 016931 197 LYVDMEVNG--IPLKAFVDSGAQSTII 221 (380)
Q Consensus 197 lyv~v~Ing--~~v~alVDTGA~~siI 221 (380)
.|+++.|.- +++.++||||++.+-+
T Consensus 1 Y~~~~~iGtP~~~~~lvvDtgs~l~W~ 27 (164)
T PF14543_consen 1 YYVSVSIGTPPQPFSLVVDTGSDLTWV 27 (164)
T ss_dssp EEEEEECTCTTEEEEEEEETT-SSEEE
T ss_pred CEEEEEeCCCCceEEEEEECCCCceEE
Confidence 378888866 5799999999988775
No 240
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=32.66 E-value=77 Score=30.98 Aligned_cols=52 Identities=25% Similarity=0.492 Sum_probs=35.5
Q ss_pred HHhcCHHHHHHHhhcCHHHHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCccHHHHHHHHHHHH
Q 016931 99 HIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIR 172 (380)
Q Consensus 99 ~~l~nP~~l~qL~~~nP~La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~~E~Q~~I~E~Ir 172 (380)
.+.++|+++. | -.|.+|-+.||..+|.+++.+++ ..+++|||--|. |++++|
T Consensus 297 PyKNdPEIlA-M----Tnlv~aYQ~NdI~eFE~Il~~~~--------------~~IM~DpFIReh---~EdLl~ 348 (440)
T KOG1464|consen 297 PYKNDPEILA-M----TNLVAAYQNNDIIEFERILKSNR--------------SNIMDDPFIREH---IEDLLR 348 (440)
T ss_pred CCCCCHHHHH-H----HHHHHHHhcccHHHHHHHHHhhh--------------ccccccHHHHHH---HHHHHH
Confidence 3456676543 1 22456677789999999998873 246789987665 677776
No 241
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=32.47 E-value=39 Score=26.34 Aligned_cols=41 Identities=17% Similarity=0.349 Sum_probs=25.1
Q ss_pred HHHHHhCCCCcCeEEec---CCeecCCcccchhcCCCCCcEEEEeec
Q 016931 29 LLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLVMMVSN 72 (380)
Q Consensus 29 ~I~~~~gip~~~q~Li~---~Gk~L~D~~tL~~~gI~dg~~I~l~~~ 72 (380)
.|.+++.+.|+.-.|+- .+.+|+-+++|.+|||++ |+....
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~D~ 45 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAWDT 45 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE---EEEEE-
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH---HHhhcc
Confidence 57889999999988874 457788899999999985 555543
No 242
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=32.43 E-value=85 Score=32.27 Aligned_cols=74 Identities=14% Similarity=0.236 Sum_probs=61.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEeecCCC
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMVSNAAS 75 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~~~~~~ 75 (380)
+|.|+.++|..|+-.++.+.-+..++..+...-++.....-|- |--|+..+ +++|.++.+-+...|.|+.+..+
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~r~ 394 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKKRA 394 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecCCc
Confidence 5778899999999899999999999999998888887777664 77788764 38999999999998888865433
No 243
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=32.01 E-value=1.5e+02 Score=22.81 Aligned_cols=47 Identities=15% Similarity=0.246 Sum_probs=39.4
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC--eecC
Q 016931 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG--REMN 51 (380)
Q Consensus 5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G--k~L~ 51 (380)
|-.++|+.-.+.+.+..||.|.-..+.++-|+.++.-.++.-| ++|.
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccc
Confidence 5567888888999999999999999999999999888777655 4454
No 244
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=31.91 E-value=1.2e+02 Score=23.67 Aligned_cols=49 Identities=12% Similarity=0.123 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHhCCCCcCe--EEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 21 ETVENVKALLEVETQVPLQQQ--QLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q--~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
.++++|+.+....++++...- .|.-+|..++|+.-+..+ .++..+++..
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~L--pdnT~lm~L~ 71 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTL--GDNTHFMVLE 71 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhC--CCCCEEEEEC
Confidence 379999999999999986544 445689999887665554 3455555543
No 245
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=31.59 E-value=1.4e+02 Score=24.41 Aligned_cols=25 Identities=36% Similarity=0.504 Sum_probs=19.6
Q ss_pred EEecCCeecCCcccchhcCCCCCcE
Q 016931 42 QLLYNGREMNNAEKLSALGVKDEDL 66 (380)
Q Consensus 42 ~Li~~Gk~L~D~~tL~~~gI~dg~~ 66 (380)
.|.|.||.|..+++|++|-=++.-|
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKt 27 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKT 27 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcce
Confidence 5889999999999999993344433
No 246
>PRK10963 hypothetical protein; Provisional
Probab=30.69 E-value=2.1e+02 Score=26.52 Aligned_cols=28 Identities=7% Similarity=0.228 Sum_probs=21.7
Q ss_pred CChHHHHHHHhcCHHHHHHHhhcCHHHHHHhc
Q 016931 91 VNPAAFQQHIRNDANLMTQLFQSDPELAQVLL 122 (380)
Q Consensus 91 ~~p~~~~q~~l~nP~~l~qL~~~nP~La~ai~ 122 (380)
.+++.+..+++.||++.. ++|+|-..+.
T Consensus 3 l~~~~V~~yL~~~PdFf~----~h~~Ll~~L~ 30 (223)
T PRK10963 3 LDDRAVVDYLLQNPDFFI----RNARLVEQMR 30 (223)
T ss_pred CCHHHHHHHHHHCchHHh----hCHHHHHhcc
Confidence 467889999999998754 5888887774
No 247
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=30.36 E-value=1.7e+02 Score=27.08 Aligned_cols=27 Identities=19% Similarity=0.399 Sum_probs=0.0
Q ss_pred CChHHHHHHHhcCHHHHHHHhhcCHHHHHHh
Q 016931 91 VNPAAFQQHIRNDANLMTQLFQSDPELAQVL 121 (380)
Q Consensus 91 ~~p~~~~q~~l~nP~~l~qL~~~nP~La~ai 121 (380)
.+++.+..++..||++.. ++|+|-..+
T Consensus 6 l~~~~V~~yL~~~PdFf~----~~~~ll~~l 32 (225)
T PF04340_consen 6 LDAEDVAAYLRQHPDFFE----RHPELLAEL 32 (225)
T ss_dssp -------------------------------
T ss_pred CCHHHHHHHHHhCcHHHH----hCHHHHHHc
Confidence 456778888888888754 477766665
No 248
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=29.73 E-value=1.1e+02 Score=24.41 Aligned_cols=41 Identities=15% Similarity=0.234 Sum_probs=36.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeE
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQ 42 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~ 42 (380)
+|.|-.++|..+.+++..+++.+++-+.+..+.|+|.+-..
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~ 43 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQN 43 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHh
Confidence 46677788999999999999999999999999999987654
No 249
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=29.65 E-value=1.3e+02 Score=23.57 Aligned_cols=47 Identities=19% Similarity=0.239 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHHhCCCC-cCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 21 ETVENVKALLEVETQVPL-QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
.++++|+.+...+++++. ....|.-+|..++|+.-+..+ +.+++.|+
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tL---p~nt~l~v 68 (79)
T cd06538 21 DSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQAL---ADNTVFMV 68 (79)
T ss_pred CCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhC---CCCcEEEE
Confidence 379999999999999963 234555689999887665554 34444444
No 250
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=29.63 E-value=1.2e+02 Score=23.74 Aligned_cols=48 Identities=8% Similarity=0.108 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHhCCCCc----CeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931 21 ETVENVKALLEVETQVPLQ----QQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~----~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
.++++|+.+...+++++.. ...|.-+|..++|+.-+..+ .++..+++.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~nT~l~~L 72 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCL--PPNTKFVLL 72 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhC--CCCcEEEEE
Confidence 3799999999999999843 33444589999887666554 344444444
No 251
>PF02505 MCR_D: Methyl-coenzyme M reductase operon protein D; InterPro: IPR003901 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein D.; GO: 0015948 methanogenesis
Probab=28.22 E-value=1.1e+02 Score=27.08 Aligned_cols=55 Identities=15% Similarity=0.297 Sum_probs=38.8
Q ss_pred EEEEEeCCCCEEEEEeCC-CCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCC
Q 016931 2 RITVMTADEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDE 64 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~-~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg 64 (380)
.++|+. |. +.+++.. ...++.+++.+++.+.++-+ +.-|+-++...|++|| +|-|
T Consensus 69 eL~V~v--Gr-i~lele~~~~~ie~I~~iCee~lpf~y~----i~~G~f~r~~~TvtDY-~KyG 124 (153)
T PF02505_consen 69 ELTVKV--GR-IILELEDEEDVIEKIREICEEVLPFGYD----IKEGKFIRTKPTVTDY-AKYG 124 (153)
T ss_pred EEEEEE--eE-EEEEecCcHHHHHHHHHHHHHhCCCceE----eeeeEEeccCCchhhh-hhcC
Confidence 455555 44 5678887 78888888888887744422 2469999999999988 4444
No 252
>PRK10455 periplasmic protein; Reviewed
Probab=28.16 E-value=2.4e+02 Score=24.97 Aligned_cols=10 Identities=30% Similarity=0.537 Sum_probs=4.8
Q ss_pred hhCCCccHHH
Q 016931 154 LYADPFDVEA 163 (380)
Q Consensus 154 l~~dP~~~E~ 163 (380)
+.+|+||...
T Consensus 91 i~ad~FDeaa 100 (161)
T PRK10455 91 IASDTFDKAK 100 (161)
T ss_pred HccCccCHHH
Confidence 4455555433
No 253
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=28.15 E-value=1.8e+02 Score=22.95 Aligned_cols=49 Identities=12% Similarity=0.159 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHhCCCC-cCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931 21 ETVENVKALLEVETQVPL-QQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 21 ~TV~~LK~~I~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
.++++|+.+....++++. ....|.-+|..++++.-+..+ .++..+++..
T Consensus 21 ~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tL--pdnT~lm~L~ 70 (81)
T cd06537 21 ASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELL--EDDTCLMVLE 70 (81)
T ss_pred cCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhC--CCCCEEEEEC
Confidence 379999999999999973 344555689999887665554 3455555554
No 254
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=27.99 E-value=2e+02 Score=22.23 Aligned_cols=58 Identities=14% Similarity=0.199 Sum_probs=44.0
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-CCeecCCcccchhcCCCCCcEEEEe
Q 016931 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLY-NGREMNNAEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-~Gk~L~D~~tL~~~gI~dg~~I~l~ 70 (380)
..+.|+.+....-+-+..++++.+|+..-.++- +|--+....|-++.-+|.|+.+.++
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 456888888899998899999999998877775 5666777888888888888888763
No 255
>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=27.83 E-value=1.1e+02 Score=29.02 Aligned_cols=35 Identities=9% Similarity=0.120 Sum_probs=28.0
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL 44 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li 44 (380)
+..|.+.++..+|-.+|-+.|+++.+++|+..+|+
T Consensus 189 ~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 189 DPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp ---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 45799999999999999999999999999999987
No 256
>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=26.80 E-value=2.6e+02 Score=22.83 Aligned_cols=64 Identities=19% Similarity=0.224 Sum_probs=44.2
Q ss_pred eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEe-cCC---eecCC-cc-------cchhcCCCCCcEEEEe
Q 016931 7 TADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLL-YNG---REMNN-AE-------KLSALGVKDEDLVMMV 70 (380)
Q Consensus 7 ~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li-~~G---k~L~D-~~-------tL~~~gI~dg~~I~l~ 70 (380)
-.++...++....++||.++-..+..++.++. ...+|. ..| |+|.. ++ -|...|-++.|-++.+
T Consensus 9 r~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~l~~l 85 (97)
T cd01775 9 RSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDRIEDI 85 (97)
T ss_pred ecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCcHHHh
Confidence 34677788999999999999999999999877 344443 333 45553 22 3566666666665544
No 257
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=26.77 E-value=3.2e+02 Score=30.91 Aligned_cols=33 Identities=12% Similarity=0.099 Sum_probs=21.2
Q ss_pred HHHHHhhcCHHHHHHhcCC-CHHHHHHHHHHhHH
Q 016931 106 LMTQLFQSDPELAQVLLGN-DLNKLQDLLRERSR 138 (380)
Q Consensus 106 ~l~qL~~~nP~La~ai~~~-d~~~~~~~l~~~~~ 138 (380)
..+.|+..--.|.+|+..+ +.+++.++|..-+.
T Consensus 501 A~~~Lr~AQ~aL~eAL~~gAsdeEI~~Lm~eLR~ 534 (851)
T TIGR02302 501 AERRLRAAQDALKDALERGASDEEIKQLTDKLRA 534 (851)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 3555666666688888644 35677777766543
No 258
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=26.56 E-value=1.6e+02 Score=23.52 Aligned_cols=40 Identities=23% Similarity=0.305 Sum_probs=33.8
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeE-EecCCee
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQ-LLYNGRE 49 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~-Li~~Gk~ 49 (380)
.+.+.+.|++.+|=.++|..|+..+|+++...+ +...|+.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCce
Confidence 467999999999999999999999999997765 4466654
No 259
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=26.19 E-value=1.5e+02 Score=23.66 Aligned_cols=55 Identities=24% Similarity=0.271 Sum_probs=34.7
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-CC------eecCCc---ccc--hhcCCCCCcEEEEee
Q 016931 15 LDVDPHETVENVKALLEVETQVPLQQQQLLY-NG------REMNNA---EKL--SALGVKDEDLVMMVS 71 (380)
Q Consensus 15 i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-~G------k~L~D~---~tL--~~~gI~dg~~I~l~~ 71 (380)
++++...||.+|-+.+..++ +..+-.|+. +| .+|-++ ..| .++-+++||.|.+..
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P 89 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFIS 89 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEEC
Confidence 34445679999999998887 333444433 23 123233 234 357799999999874
No 260
>PF05952 ComX: Bacillus competence pheromone ComX; InterPro: IPR009233 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. Natural genetic competence in Bacillus subtilis is controlled by quorum-sensing (QS). The ComP- ComA two-component system detects the signalling molecule ComX, and this signal is transduced by a conserved phosphotransfer mechanism. ComX is synthesised as an inactive precursor and is then cleaved and modified by ComQ before export to the extracellular environment [].
Probab=25.49 E-value=74 Score=23.33 Aligned_cols=23 Identities=4% Similarity=0.215 Sum_probs=18.8
Q ss_pred HHHHHHHhcCHHHHHHHhhcCHH
Q 016931 94 AAFQQHIRNDANLMTQLFQSDPE 116 (380)
Q Consensus 94 ~~~~q~~l~nP~~l~qL~~~nP~ 116 (380)
+.+..++.+||+.+.++++.+-.
T Consensus 3 Q~iV~YLv~nPevl~kl~~g~as 25 (57)
T PF05952_consen 3 QEIVNYLVQNPEVLEKLKEGEAS 25 (57)
T ss_pred HHHHHHHHHChHHHHHHHcCCee
Confidence 46788999999999999886533
No 261
>TIGR03260 met_CoM_red_D methyl-coenzyme M reductase operon protein D. Members of this protein family are protein D, a non-structural protein, of the operon for methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). That enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis; it has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes. Proteins in this family are expressed at much lower levels than the methyl-coenzyme M reductase itself and associate and have been shown to form at least transient associations. The precise function is unknown.
Probab=25.22 E-value=1.2e+02 Score=26.59 Aligned_cols=51 Identities=12% Similarity=0.262 Sum_probs=36.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhc
Q 016931 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSAL 59 (380)
Q Consensus 2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~ 59 (380)
.++|+. |. +.+++.....++++++.+.+.+-++-+ +.-|+-++...|++||
T Consensus 68 eL~V~V--Gr-I~le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 68 ELRVQV--GR-IILELEDEDIVEEIEEICKEMLPFGYE----VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEEE--eE-EEEEecCHHHHHHHHHHHHhhCCCceE----eeeeeEeecCCchhhh
Confidence 455555 44 457777888899999888887754422 3567888888998887
No 262
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=24.21 E-value=45 Score=25.17 Aligned_cols=18 Identities=28% Similarity=0.355 Sum_probs=12.5
Q ss_pred cccchhcCCCCCcEEEEe
Q 016931 53 AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 53 ~~tL~~~gI~dg~~I~l~ 70 (380)
.+.|...|+++||+|.+-
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T PF09269_consen 46 EKALRKAGAKEGDTVRIG 63 (69)
T ss_dssp HHHHHTTT--TT-EEEET
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 467999999999999873
No 263
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=23.82 E-value=1.7e+02 Score=22.73 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=30.1
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEE
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQL 43 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~L 43 (380)
.+.+.+.|+++.+=.++|..|+..+++.+...+-
T Consensus 14 ~n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 14 ENKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 3679999999999999999999999998876654
No 264
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=23.71 E-value=3.5e+02 Score=20.97 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=47.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-cCCeecCCcccchhcCCCCCcEEEEee
Q 016931 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVS 71 (380)
Q Consensus 13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~~ 71 (380)
..+.|..+....-+-+..++++++|+..--++ -+|--+....|-+.+-+|.|+.+.++.
T Consensus 18 kvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliP 77 (82)
T cd01766 18 KVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIP 77 (82)
T ss_pred eEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeecc
Confidence 44688888888888889999999999776666 456667777888998899999988874
No 265
>PRK14011 prefoldin subunit alpha; Provisional
Probab=23.38 E-value=4.6e+02 Score=22.80 Aligned_cols=35 Identities=14% Similarity=0.248 Sum_probs=25.5
Q ss_pred hcCCccccccc-eeEEeeeecCeeEEEEEcCCccccc
Q 016931 185 EHNPEAFARVV-MLYVDMEVNGIPLKAFVDSGAQSTI 220 (380)
Q Consensus 185 E~~Pe~f~~~~-~lyv~v~Ing~~v~alVDTGA~~si 220 (380)
+...|.+.++. .+||+.+|.+ +=++|||-|+...+
T Consensus 47 ~~~~eiLVPLg~s~yV~g~i~d-~dkVlVdIGtGy~V 82 (144)
T PRK14011 47 KTSEEILIPLGPGAFLKAKIVD-PDKAILGVGSDIYL 82 (144)
T ss_pred CCCCeEEEEcCCCcEEeEEecC-CCeEEEEccCCeEE
Confidence 34566666644 4999999974 45789999988765
No 266
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=23.28 E-value=2.5e+02 Score=22.53 Aligned_cols=59 Identities=24% Similarity=0.286 Sum_probs=36.3
Q ss_pred EEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHH--hCCCC---c-CeEEecCCee--cCCcccchhcC
Q 016931 2 RITVMTA-DEQIISLDVDPHETVENVKALLEVE--TQVPL---Q-QQQLLYNGRE--MNNAEKLSALG 60 (380)
Q Consensus 2 ~ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~--~gip~---~-~q~Li~~Gk~--L~D~~tL~~~g 60 (380)
.|.|... ....+++.++.+.|+.+|-+.+-.+ .+..+ . +..|--.|+. |..+.+|.+|.
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~ 85 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYE 85 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBH
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccH
Confidence 4566666 3566899999999999999877776 22222 1 4555556643 55566676663
No 267
>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=22.99 E-value=1.8e+02 Score=23.06 Aligned_cols=57 Identities=9% Similarity=0.089 Sum_probs=38.0
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCCcC-eEEecCCeec-CCcccch---hcCCCCCcEEEEee
Q 016931 14 SLDVDPHETVENVKALLEVETQVPLQQ-QQLLYNGREM-NNAEKLS---ALGVKDEDLVMMVS 71 (380)
Q Consensus 14 ~i~V~~~~TV~~LK~~I~~~~gip~~~-q~Li~~Gk~L-~D~~tL~---~~gI~dg~~I~l~~ 71 (380)
.+-|+.+.|+++|...|..+.++.+++ .-|+.+...+ ..+.+++ ++- .++..+++.-
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Y 80 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSY 80 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEE
Confidence 356899999999999999999998776 4444454323 3334443 333 4566777654
No 268
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=22.96 E-value=1.4e+02 Score=28.44 Aligned_cols=24 Identities=29% Similarity=0.336 Sum_probs=18.4
Q ss_pred HHHhhCCCccHHHHHHHHHHHHhh
Q 016931 151 MALLYADPFDVEAQKKIEAAIRQK 174 (380)
Q Consensus 151 l~~l~~dP~~~E~Q~~I~E~Irq~ 174 (380)
|......|-|+|+-++|.+.|+++
T Consensus 16 L~~ae~~prD~eAe~lI~~~~~~q 39 (247)
T PF09849_consen 16 LKQAEAQPRDPEAEALIAQALARQ 39 (247)
T ss_pred HHhccCCCCCHHHHHHHHHHHHhC
Confidence 444556688999999999998764
No 269
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=22.56 E-value=95 Score=24.78 Aligned_cols=40 Identities=25% Similarity=0.449 Sum_probs=21.0
Q ss_pred HHHHHHHhcCHHHHHHHhhcCHHHHHHhcCCCHHHHHHHH
Q 016931 94 AAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLL 133 (380)
Q Consensus 94 ~~~~q~~l~nP~~l~qL~~~nP~La~ai~~~d~~~~~~~l 133 (380)
+.+.+.+++||.+.+=|.+..|+|-+.....+...|.+.+
T Consensus 22 ~~l~~~vl~dp~V~~Fl~~h~~eLt~~~i~rsl~kLyEy~ 61 (94)
T PF07319_consen 22 EQLKQEVLSDPEVQAFLQEHQPELTQEMIERSLSKLYEYV 61 (94)
T ss_dssp HHHHHHHTT-HHHHHHHHHSTTT--HHHHHHTHHHHHHHH
T ss_pred HHHHHHHHcCHHHHHHHHHhHHhcCHHHHHHHHHHHHHHH
Confidence 4566777777777666655447766544334444444444
No 270
>TIGR00624 tag DNA-3-methyladenine glycosylase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.12 E-value=1.2e+02 Score=27.60 Aligned_cols=52 Identities=27% Similarity=0.323 Sum_probs=38.0
Q ss_pred hHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHHHhcCCccccccceeEEeeeecCeeE
Q 016931 147 QEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPL 208 (380)
Q Consensus 147 ~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v 208 (380)
.++++..|+.||--.-+.+||+..|. |-...++--.|+|....=-| ++|+|+
T Consensus 71 ~e~~ie~L~~d~~IIRnr~KI~Avi~------NA~~~l~i~~esf~~ylW~f----v~~~Pi 122 (179)
T TIGR00624 71 TDADVERLLQDDGIIRNRGKIEATIA------NARAALQLEQNDLVEFLWSF----VNHQPQ 122 (179)
T ss_pred CHHHHHHHhcCccchhhHHHHHHHHH------HHHHHHHHHHccHHHHHHhc----cCCCCc
Confidence 34568889999999999999999999 66666555555887655445 455553
No 271
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=21.86 E-value=2e+02 Score=22.76 Aligned_cols=34 Identities=21% Similarity=0.243 Sum_probs=30.4
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEE
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQL 43 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~L 43 (380)
.+.+.+.|+++.+=.++|..|+..+|+.+...+-
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT 54 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNT 54 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 4679999999999999999999999999877654
No 272
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=21.77 E-value=61 Score=24.47 Aligned_cols=18 Identities=33% Similarity=0.420 Sum_probs=15.8
Q ss_pred cccchhcCCCCCcEEEEe
Q 016931 53 AEKLSALGVKDEDLVMMV 70 (380)
Q Consensus 53 ~~tL~~~gI~dg~~I~l~ 70 (380)
.+.|...|+++||+|.+-
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 478999999999999874
No 273
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=21.40 E-value=75 Score=29.38 Aligned_cols=31 Identities=23% Similarity=0.190 Sum_probs=22.7
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcC
Q 016931 10 EQIISLDVDPHETVENVKALLEVETQVPLQQ 40 (380)
Q Consensus 10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~ 40 (380)
|-.|.+.|.+..|..++|++|+.++|++..+
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~ke 162 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDKE 162 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HHH
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChhh
Confidence 5668889999999999999999999998743
No 274
>PRK15443 pduE propanediol dehydratase small subunit; Provisional
Probab=21.02 E-value=66 Score=27.70 Aligned_cols=35 Identities=20% Similarity=0.287 Sum_probs=28.9
Q ss_pred CCCccHHHHHHHHHHHHhhcHHHHHHHH--HhcCCcc
Q 016931 156 ADPFDVEAQKKIEAAIRQKGIDENWAAA--LEHNPEA 190 (380)
Q Consensus 156 ~dP~~~E~Q~~I~E~Irq~~i~en~~~A--~E~~Pe~ 190 (380)
=+|.-.+.|..|.|..-...+..|+.+| |...|..
T Consensus 46 ItpetL~~QaqiAe~~Gr~~la~NfrRAAELt~vpD~ 82 (138)
T PRK15443 46 ITPETLRMQAQIAEDAGRPQLAMNFRRAAELTAVPDD 82 (138)
T ss_pred cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCHH
Confidence 3677778999999999999999999999 5556653
No 275
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=20.59 E-value=6.1e+02 Score=22.61 Aligned_cols=73 Identities=14% Similarity=0.185 Sum_probs=43.5
Q ss_pred cCHHHHHHHhhcCHHHHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHH
Q 016931 102 NDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWA 181 (380)
Q Consensus 102 ~nP~~l~qL~~~nP~La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~ 181 (380)
.||+++-.++.-+-++.++ +|...++++=..+ +. ...+...+++..+++-.-.|+-..|.++=...++.+|..
T Consensus 93 tDpe~Lmevle~~E~IS~~---~De~~l~~lk~q~-q~---ri~q~~~qlge~~esk~~~~Al~~i~rlrY~~~~~k~v~ 165 (168)
T KOG3192|consen 93 TDPEFLMEVLEYHEAISEM---DDEEDLKQLKSQN-QE---RIAQCKQQLGEAFESKKYDEALKKILRLRYWYELRKNVH 165 (168)
T ss_pred cCHHHHHHHHHHHHHHHhc---cCcHHHHHHHHHH-HH---HHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677777776655555443 3444454444333 22 222345567777777667788888887777777776654
No 276
>PF12508 DUF3714: Protein of unknown function (DUF3714) ; InterPro: IPR022187 Proteins in this entry are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage.
Probab=20.18 E-value=4.6e+02 Score=24.15 Aligned_cols=23 Identities=26% Similarity=0.457 Sum_probs=18.7
Q ss_pred EEEEeEEEcCEEEeEEEEEecCC
Q 016931 255 IHVAPIKIGNVFYPCSFVVLDSP 277 (380)
Q Consensus 255 i~~~~i~ig~~~~~~~~~Vl~~~ 277 (380)
+..-.|++++..+|+++.|.|.+
T Consensus 105 i~I~SI~~~~~IipV~L~vYD~D 127 (200)
T PF12508_consen 105 ITITSIEYGGNIIPVELSVYDLD 127 (200)
T ss_pred EEEEEEEECCEEEEEEEEEECCC
Confidence 34446889999999999999874
Done!