Query 015264
Match_columns 410
No_of_seqs 423 out of 1865
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 04:39:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015264hhsearch_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 1.4E-62 3E-67 468.6 24.5 322 1-325 1-364 (380)
2 PF09668 Asp_protease: Asparty 100.0 2.2E-42 4.7E-47 291.7 12.2 124 173-296 1-124 (124)
3 cd05480 NRIP_C NRIP_C; putativ 100.0 2.1E-34 4.5E-39 229.3 10.6 101 199-299 1-103 (103)
4 cd05479 RP_DDI RP_DDI; retrope 100.0 2.2E-29 4.7E-34 215.4 14.7 123 182-304 2-124 (124)
5 KOG0010 Ubiquitin-like protein 100.0 1.1E-28 2.4E-33 245.6 14.8 200 1-212 16-273 (493)
6 TIGR00601 rad23 UV excision re 99.9 1.3E-23 2.8E-28 209.6 19.4 74 1-74 1-77 (378)
7 KOG0011 Nucleotide excision re 99.8 3.1E-20 6.7E-25 176.9 16.1 74 1-74 1-76 (340)
8 PF08284 RVP_2: Retroviral asp 99.8 8.4E-20 1.8E-24 158.1 12.7 112 196-307 21-132 (135)
9 cd01807 GDX_N ubiquitin-like d 99.7 8.9E-18 1.9E-22 130.5 9.4 73 1-73 1-73 (74)
10 cd01797 NIRF_N amino-terminal 99.7 6.5E-17 1.4E-21 126.8 9.1 74 1-74 1-76 (78)
11 cd05484 retropepsin_like_LTR_2 99.7 1.7E-16 3.8E-21 128.1 11.4 91 197-289 1-91 (91)
12 cd01791 Ubl5 UBL5 ubiquitin-li 99.7 6.1E-17 1.3E-21 125.2 8.2 70 1-70 2-71 (73)
13 TIGR02281 clan_AA_DTGA clan AA 99.7 8.1E-16 1.8E-20 130.8 13.2 109 193-304 8-119 (121)
14 cd01793 Fubi Fubi ubiquitin-li 99.7 2E-16 4.2E-21 122.9 8.5 70 1-72 1-70 (74)
15 cd01805 RAD23_N Ubiquitin-like 99.7 3.5E-16 7.6E-21 122.3 9.7 73 1-73 1-75 (77)
16 PTZ00044 ubiquitin; Provisiona 99.7 3.7E-16 8.1E-21 121.8 9.0 72 1-72 1-72 (76)
17 cd01804 midnolin_N Ubiquitin-l 99.7 4.5E-16 9.8E-21 122.1 8.5 72 1-73 2-73 (78)
18 cd01798 parkin_N amino-termina 99.6 6.2E-16 1.3E-20 118.8 8.1 69 3-71 1-69 (70)
19 cd01794 DC_UbP_C dendritic cel 99.6 6.6E-16 1.4E-20 118.6 7.7 69 3-71 1-69 (70)
20 cd01802 AN1_N ubiquitin-like d 99.6 8.3E-16 1.8E-20 126.8 8.7 72 1-72 28-99 (103)
21 cd01806 Nedd8 Nebb8-like ubiq 99.6 1.4E-15 3E-20 118.3 9.5 72 1-72 1-72 (76)
22 cd01809 Scythe_N Ubiquitin-lik 99.6 1.6E-15 3.4E-20 116.8 9.3 71 1-71 1-71 (72)
23 cd01803 Ubiquitin Ubiquitin. U 99.6 1.6E-15 3.4E-20 118.0 9.0 72 1-72 1-72 (76)
24 cd01810 ISG15_repeat2 ISG15 ub 99.6 1.1E-15 2.5E-20 118.6 8.0 70 3-72 1-70 (74)
25 cd01790 Herp_N Homocysteine-re 99.6 1.6E-15 3.5E-20 118.2 7.4 70 1-70 2-77 (79)
26 cd01792 ISG15_repeat1 ISG15 ub 99.6 2.5E-15 5.4E-20 118.5 8.3 73 1-73 3-77 (80)
27 cd01796 DDI1_N DNA damage indu 99.6 2.3E-15 4.9E-20 116.0 7.8 68 3-70 1-70 (71)
28 cd01808 hPLIC_N Ubiquitin-like 99.6 5.6E-15 1.2E-19 113.8 8.5 70 1-71 1-70 (71)
29 PF00240 ubiquitin: Ubiquitin 99.6 6.6E-15 1.4E-19 112.5 8.6 68 6-73 1-68 (69)
30 cd01813 UBP_N UBP ubiquitin pr 99.6 8.9E-15 1.9E-19 113.5 8.3 70 1-71 1-73 (74)
31 cd01812 BAG1_N Ubiquitin-like 99.6 1.2E-14 2.6E-19 111.7 8.1 70 1-71 1-70 (71)
32 KOG0005 Ubiquitin-like protein 99.5 5.4E-15 1.2E-19 105.9 4.8 70 1-70 1-70 (70)
33 PF13650 Asp_protease_2: Aspar 99.5 7.3E-14 1.6E-18 111.4 11.6 88 199-287 1-90 (90)
34 cd05483 retropepsin_like_bacte 99.5 5.6E-14 1.2E-18 113.4 10.7 93 195-289 1-96 (96)
35 PF00077 RVP: Retroviral aspar 99.5 5.6E-14 1.2E-18 115.2 10.2 95 196-296 5-100 (100)
36 cd01800 SF3a120_C Ubiquitin-li 99.5 8.3E-14 1.8E-18 108.7 7.7 66 8-73 5-70 (76)
37 KOG0003 Ubiquitin/60s ribosoma 99.4 2.3E-14 5E-19 114.8 1.2 72 1-72 1-72 (128)
38 smart00213 UBQ Ubiquitin homol 99.4 3.8E-13 8.2E-18 100.6 7.7 64 1-65 1-64 (64)
39 cd01815 BMSC_UbP_N Ubiquitin-l 99.4 3E-13 6.4E-18 104.1 5.5 54 19-72 19-75 (75)
40 cd06095 RP_RTVL_H_like Retrope 99.4 1.5E-12 3.3E-17 104.0 9.7 84 199-289 1-86 (86)
41 TIGR03698 clan_AA_DTGF clan AA 99.4 4.9E-12 1.1E-16 105.3 11.2 100 198-302 1-107 (107)
42 cd01763 Sumo Small ubiquitin-r 99.4 2.7E-12 5.9E-17 102.8 9.1 72 1-72 12-83 (87)
43 cd01799 Hoil1_N Ubiquitin-like 99.3 2E-12 4.3E-17 100.6 6.8 63 7-70 9-73 (75)
44 KOG0004 Ubiquitin/40S ribosoma 99.3 9.2E-13 2E-17 113.4 3.8 70 1-70 1-70 (156)
45 cd01769 UBL Ubiquitin-like dom 99.2 2.8E-11 6.1E-16 91.7 7.7 68 4-71 1-68 (69)
46 cd00303 retropepsin_like Retro 99.2 2.8E-10 6E-15 87.6 10.7 91 199-289 1-92 (92)
47 PF11976 Rad60-SLD: Ubiquitin- 99.2 9.9E-11 2.1E-15 90.1 7.5 70 1-70 1-71 (72)
48 PF00627 UBA: UBA/TS-N domain; 99.1 6E-11 1.3E-15 79.4 4.9 36 372-407 2-37 (37)
49 cd01814 NTGP5 Ubiquitin-like N 99.1 6.8E-11 1.5E-15 97.2 6.0 74 2-75 6-93 (113)
50 COG3577 Predicted aspartyl pro 99.1 2.5E-10 5.5E-15 103.1 8.6 97 194-292 103-202 (215)
51 cd05481 retropepsin_like_LTR_1 99.1 5.7E-10 1.2E-14 90.5 9.9 86 200-287 2-91 (93)
52 cd01795 USP48_C USP ubiquitin- 99.1 2.4E-10 5.2E-15 91.3 6.9 60 13-72 17-77 (107)
53 cd00194 UBA Ubiquitin Associat 99.0 4.7E-10 1E-14 75.4 5.2 37 373-409 2-38 (38)
54 PF12384 Peptidase_A2B: Ty3 tr 99.0 2.7E-09 5.9E-14 93.1 11.3 98 196-293 34-131 (177)
55 PF13975 gag-asp_proteas: gag- 99.0 1.2E-09 2.6E-14 84.3 7.7 66 192-257 4-70 (72)
56 smart00165 UBA Ubiquitin assoc 99.0 5.9E-10 1.3E-14 74.5 5.1 36 373-408 2-37 (37)
57 cd01789 Alp11_N Ubiquitin-like 99.0 2.8E-09 6.2E-14 84.7 9.0 71 2-72 3-81 (84)
58 KOG4248 Ubiquitin-like protein 98.8 5.1E-09 1.1E-13 112.8 6.7 73 2-75 4-76 (1143)
59 PF14560 Ubiquitin_2: Ubiquiti 98.8 1.8E-08 4E-13 80.5 7.8 72 2-73 3-84 (87)
60 PLN02560 enoyl-CoA reductase 98.8 2.4E-08 5.3E-13 97.9 8.5 71 1-71 1-82 (308)
61 COG5550 Predicted aspartyl pro 98.7 1.7E-07 3.7E-12 78.3 10.9 93 208-305 27-120 (125)
62 cd01801 Tsc13_N Ubiquitin-like 98.6 1.3E-07 2.8E-12 73.9 7.1 68 2-69 2-74 (77)
63 cd01788 ElonginB Ubiquitin-lik 98.6 1.4E-07 3E-12 77.4 7.1 72 1-72 1-80 (119)
64 cd06094 RP_Saci_like RP_Saci_l 98.6 1.4E-07 3E-12 74.9 6.6 79 207-292 9-88 (89)
65 KOG0001 Ubiquitin and ubiquiti 98.6 5E-07 1.1E-11 68.2 9.2 70 3-72 2-71 (75)
66 PF13881 Rad60-SLD_2: Ubiquiti 98.5 6.1E-07 1.3E-11 74.9 9.8 74 2-75 4-91 (111)
67 PF11543 UN_NPL4: Nuclear pore 98.5 1.9E-07 4.2E-12 73.4 5.2 69 1-70 5-78 (80)
68 PF02160 Peptidase_A3: Caulifl 98.5 5.8E-07 1.3E-11 82.1 8.2 108 195-306 3-117 (201)
69 cd05482 HIV_retropepsin_like R 98.3 2.7E-06 5.8E-11 67.9 8.3 86 200-289 2-87 (87)
70 cd00196 UBQ Ubiquitin-like pro 98.3 2.8E-06 6.2E-11 61.1 7.6 67 5-71 2-68 (69)
71 PF05585 DUF1758: Putative pep 98.3 3.1E-06 6.7E-11 75.7 8.3 70 206-275 11-81 (164)
72 KOG1872 Ubiquitin-specific pro 98.1 8.1E-06 1.7E-10 82.3 7.6 72 2-74 5-77 (473)
73 KOG3493 Ubiquitin-like protein 98.0 2.2E-06 4.8E-11 62.9 1.6 68 2-69 3-70 (73)
74 KOG0006 E3 ubiquitin-protein l 98.0 1E-05 2.2E-10 77.4 6.2 70 1-70 1-73 (446)
75 KOG0944 Ubiquitin-specific pro 97.7 2.5E-05 5.5E-10 81.6 3.9 40 370-409 633-672 (763)
76 TIGR00601 rad23 UV excision re 97.7 4.2E-05 9.1E-10 77.1 4.7 41 369-409 334-374 (378)
77 PF08817 YukD: WXG100 protein 97.6 0.00015 3.2E-09 56.9 5.8 69 2-70 4-79 (79)
78 PF14555 UBA_4: UBA-like domai 97.5 0.00018 3.9E-09 49.6 4.7 37 373-409 1-38 (43)
79 KOG1769 Ubiquitin-like protein 97.5 0.00076 1.6E-08 54.4 8.4 70 3-72 23-92 (99)
80 cd01811 OASL_repeat1 2'-5' oli 97.5 0.00086 1.9E-08 51.0 8.1 71 1-72 1-76 (80)
81 KOG4495 RNA polymerase II tran 97.4 0.00026 5.7E-09 56.3 4.4 62 1-62 1-65 (110)
82 PF02845 CUE: CUE domain; Int 97.2 0.00055 1.2E-08 46.9 3.9 38 373-410 2-41 (42)
83 PF00789 UBX: UBX domain; Int 97.1 0.0033 7.1E-08 49.3 8.6 69 2-70 8-81 (82)
84 KOG0418 Ubiquitin-protein liga 97.1 0.00052 1.1E-08 61.3 4.3 42 369-410 159-200 (200)
85 COG5417 Uncharacterized small 97.0 0.0034 7.3E-08 47.8 6.9 69 1-69 5-80 (81)
86 PF10302 DUF2407: DUF2407 ubiq 96.9 0.0022 4.8E-08 52.3 6.0 58 2-59 2-64 (97)
87 smart00166 UBX Domain present 96.9 0.0058 1.2E-07 47.9 8.2 69 2-70 6-79 (80)
88 PF11470 TUG-UBL1: GLUT4 regul 96.9 0.0043 9.3E-08 46.7 6.8 63 7-69 3-65 (65)
89 KOG0011 Nucleotide excision re 96.9 0.001 2.2E-08 64.7 4.2 41 369-409 295-335 (340)
90 PF12382 Peptidase_A2E: Retrot 96.7 0.015 3.3E-07 46.9 8.8 83 207-292 47-131 (137)
91 smart00546 CUE Domain that may 96.7 0.0044 9.6E-08 42.5 5.1 38 373-410 3-42 (43)
92 cd01767 UBX UBX (ubiquitin reg 96.6 0.016 3.5E-07 44.9 8.6 66 2-69 4-74 (77)
93 cd01772 SAKS1_UBX SAKS1-like U 96.6 0.014 3.1E-07 45.6 8.3 68 2-70 6-78 (79)
94 KOG1639 Steroid reductase requ 96.4 0.0068 1.5E-07 56.7 5.9 71 1-71 1-78 (297)
95 cd01770 p47_UBX p47-like ubiqu 96.3 0.026 5.6E-07 44.2 8.0 65 2-66 6-74 (79)
96 cd01773 Faf1_like1_UBX Faf1 ik 96.1 0.046 1E-06 43.1 8.5 68 2-70 7-79 (82)
97 PRK06369 nac nascent polypepti 96.1 0.011 2.3E-07 49.5 5.1 40 371-410 75-115 (115)
98 TIGR00264 alpha-NAC-related pr 95.9 0.015 3.2E-07 48.5 4.9 38 371-408 77-115 (116)
99 KOG3206 Alpha-tubulin folding 95.8 0.032 6.8E-07 51.0 7.2 74 2-75 3-84 (234)
100 cd01774 Faf1_like2_UBX Faf1 ik 95.8 0.07 1.5E-06 42.4 8.5 68 2-70 6-83 (85)
101 COG5227 SMT3 Ubiquitin-like pr 95.8 0.039 8.4E-07 43.7 6.6 69 3-71 27-95 (103)
102 KOG2561 Adaptor protein NUB1, 95.7 0.0093 2E-07 60.2 3.9 59 14-72 53-111 (568)
103 cd01771 Faf1_UBX Faf1 UBX doma 95.6 0.09 1.9E-06 41.3 8.3 68 2-70 6-78 (80)
104 PF09280 XPC-binding: XPC-bind 95.6 0.021 4.5E-07 42.1 4.3 41 94-135 11-55 (59)
105 COG5207 UBP14 Isopeptidase T [ 95.4 0.019 4.2E-07 58.8 4.7 38 372-409 558-596 (749)
106 COG1308 EGD2 Transcription fac 95.3 0.037 8E-07 46.5 5.3 39 370-408 82-121 (122)
107 PF09288 UBA_3: Fungal ubiquit 95.3 0.019 4.1E-07 41.4 3.1 26 372-397 9-34 (55)
108 KOG2561 Adaptor protein NUB1, 95.0 0.022 4.8E-07 57.6 3.8 38 371-408 428-465 (568)
109 KOG0013 Uncharacterized conser 95.0 0.053 1.1E-06 49.7 5.7 60 9-68 155-214 (231)
110 PF13019 Telomere_Sde2: Telome 94.9 0.16 3.5E-06 45.0 8.4 65 1-65 1-73 (162)
111 PF00026 Asp: Eukaryotic aspar 94.9 0.088 1.9E-06 51.3 7.6 89 197-287 2-114 (317)
112 cd05470 pepsin_retropepsin_lik 94.7 0.14 3.1E-06 41.7 7.5 85 199-285 1-109 (109)
113 PTZ00013 plasmepsin 4 (PM4); P 94.7 0.16 3.5E-06 52.8 9.2 91 195-287 137-251 (450)
114 PF14453 ThiS-like: ThiS-like 94.5 0.16 3.5E-06 37.1 6.3 56 1-72 1-56 (57)
115 PTZ00147 plasmepsin-1; Provisi 94.4 0.23 4.9E-06 51.8 9.6 92 194-287 137-252 (453)
116 COG5207 UBP14 Isopeptidase T [ 94.3 0.039 8.4E-07 56.7 3.6 40 370-409 619-658 (749)
117 cd05476 pepsin_A_like_plant Ch 94.3 0.14 3E-06 49.1 7.3 83 209-306 178-262 (265)
118 KOG0010 Ubiquitin-like protein 94.0 0.097 2.1E-06 53.8 5.6 41 370-410 452-493 (493)
119 cd06097 Aspergillopepsin_like 93.9 0.27 5.9E-06 47.3 8.5 89 198-287 2-114 (278)
120 PRK06437 hypothetical protein; 93.9 0.43 9.4E-06 36.0 7.8 59 4-71 4-62 (67)
121 KOG0944 Ubiquitin-specific pro 93.5 0.13 2.8E-06 54.7 5.8 39 371-409 570-609 (763)
122 PF15044 CLU_N: Mitochondrial 93.0 0.18 3.9E-06 39.2 4.5 57 17-73 1-59 (76)
123 PF11626 Rap1_C: TRF2-interact 92.9 0.12 2.6E-06 41.2 3.6 34 376-409 1-34 (87)
124 COG4067 Uncharacterized protei 92.8 0.28 6.1E-06 42.9 5.9 100 201-301 31-157 (162)
125 cd05474 SAP_like SAPs, pepsin- 92.6 0.94 2E-05 43.7 10.1 75 196-287 2-80 (295)
126 cd05478 pepsin_A Pepsin A, asp 92.4 1.3 2.8E-05 43.6 10.9 100 200-305 193-316 (317)
127 cd05487 renin_like Renin stimu 92.1 0.81 1.8E-05 45.2 9.1 91 195-287 7-121 (326)
128 cd06096 Plasmepsin_5 Plasmepsi 92.0 0.69 1.5E-05 45.7 8.4 90 207-305 231-321 (326)
129 PF05618 Zn_protease: Putative 91.7 0.34 7.4E-06 42.1 5.1 97 205-301 14-133 (138)
130 cd05478 pepsin_A Pepsin A, asp 91.6 0.97 2.1E-05 44.4 9.0 91 195-287 9-122 (317)
131 PRK08364 sulfur carrier protei 91.4 1.3 2.9E-05 33.5 7.6 51 12-71 15-65 (70)
132 cd06406 PB1_P67 A PB1 domain i 91.4 0.6 1.3E-05 36.5 5.7 37 12-48 12-48 (80)
133 cd06098 phytepsin Phytepsin, a 91.2 0.93 2E-05 44.6 8.4 91 195-287 9-123 (317)
134 KOG4583 Membrane-associated ER 90.7 0.12 2.6E-06 50.6 1.5 68 3-70 12-85 (391)
135 cd05477 gastricsin Gastricsins 90.7 1.5 3.3E-05 43.0 9.3 90 196-287 3-115 (318)
136 cd05477 gastricsin Gastricsins 90.6 1.3 2.8E-05 43.5 8.8 100 201-305 188-316 (318)
137 cd05474 SAP_like SAPs, pepsin- 90.4 2.5 5.5E-05 40.7 10.5 94 208-305 179-293 (295)
138 cd05485 Cathepsin_D_like Cathe 90.3 1.8 4E-05 42.8 9.7 100 201-305 199-328 (329)
139 cd05476 pepsin_A_like_plant Ch 89.6 1.1 2.4E-05 42.8 7.2 76 197-287 2-88 (265)
140 cd06407 PB1_NLP A PB1 domain i 89.4 1.6 3.5E-05 34.4 6.7 45 1-46 1-46 (82)
141 PLN02799 Molybdopterin synthas 89.2 1.8 3.8E-05 33.7 6.8 66 1-71 2-77 (82)
142 cd05488 Proteinase_A_fungi Fun 89.1 2 4.3E-05 42.3 8.8 90 196-287 10-122 (320)
143 PTZ00165 aspartyl protease; Pr 89.1 2.1 4.5E-05 45.1 9.2 100 186-287 108-237 (482)
144 cd05490 Cathepsin_D2 Cathepsin 89.0 1.6 3.4E-05 43.1 8.0 91 195-287 5-120 (325)
145 PF03539 Spuma_A9PTase: Spumav 89.0 2.7 5.8E-05 36.7 8.1 80 203-292 1-84 (163)
146 PRK06488 sulfur carrier protei 88.9 2.2 4.7E-05 31.7 6.9 60 1-71 1-60 (65)
147 PF07499 RuvA_C: RuvA, C-termi 88.9 0.61 1.3E-05 32.6 3.5 26 372-397 3-28 (47)
148 cd05485 Cathepsin_D_like Cathe 88.8 2 4.3E-05 42.6 8.6 91 195-287 10-125 (329)
149 cd00754 MoaD Ubiquitin domain 88.8 2.1 4.6E-05 32.8 7.0 55 12-71 17-75 (80)
150 cd05486 Cathespin_E Cathepsin 88.6 1.8 3.9E-05 42.5 8.0 88 198-287 2-112 (316)
151 cd06098 phytepsin Phytepsin, a 88.5 2.1 4.5E-05 42.2 8.4 95 200-305 196-316 (317)
152 TIGR02958 sec_mycoba_snm4 secr 88.3 2.7 5.9E-05 43.8 9.4 73 2-75 4-83 (452)
153 PF00026 Asp: Eukaryotic aspar 88.1 1.4 3E-05 42.8 6.9 98 201-305 187-315 (317)
154 smart00727 STI1 Heat shock cha 88.1 0.69 1.5E-05 31.1 3.3 24 96-119 16-39 (41)
155 PF10790 DUF2604: Protein of U 88.0 2.2 4.7E-05 31.8 6.0 66 9-74 4-73 (76)
156 cd06097 Aspergillopepsin_like 87.9 1.4 3.1E-05 42.4 6.7 78 207-305 198-277 (278)
157 PF09379 FERM_N: FERM N-termin 87.7 3.3 7.2E-05 31.7 7.5 66 5-70 1-75 (80)
158 PRK05659 sulfur carrier protei 87.2 2.9 6.4E-05 31.0 6.7 61 1-71 1-61 (66)
159 PRK05863 sulfur carrier protei 87.0 2.7 5.8E-05 31.4 6.3 60 1-71 1-60 (65)
160 smart00666 PB1 PB1 domain. Pho 86.9 2.7 5.9E-05 32.4 6.6 44 2-46 3-46 (81)
161 cd05488 Proteinase_A_fungi Fun 86.9 6.5 0.00014 38.7 10.9 99 201-305 194-319 (320)
162 PF14836 Ubiquitin_3: Ubiquiti 86.8 2.5 5.3E-05 33.8 6.2 61 11-72 14-80 (88)
163 PF06972 DUF1296: Protein of u 86.2 1.7 3.7E-05 31.8 4.6 37 373-409 6-44 (60)
164 cd06409 PB1_MUG70 The MUG70 pr 86.2 2.6 5.6E-05 33.6 6.0 44 2-45 2-48 (86)
165 PF07223 DUF1421: Protein of u 85.8 1.4 3.1E-05 44.2 5.5 34 369-402 318-354 (358)
166 cd06408 PB1_NoxR The PB1 domai 85.8 4 8.6E-05 32.5 6.9 44 2-47 4-47 (86)
167 PF11547 E3_UbLigase_EDD: E3 u 85.8 1.9 4.2E-05 30.1 4.4 40 370-409 7-48 (53)
168 cd05473 beta_secretase_like Be 85.8 3 6.4E-05 41.9 7.9 88 196-287 3-113 (364)
169 cd05472 cnd41_like Chloroplast 85.8 2.6 5.5E-05 41.0 7.3 79 197-287 2-89 (299)
170 cd05471 pepsin_like Pepsin-lik 85.5 3.9 8.4E-05 38.8 8.3 90 198-289 2-115 (283)
171 PF11620 GABP-alpha: GA-bindin 84.9 2 4.3E-05 33.9 4.7 59 12-70 4-62 (88)
172 cd05475 nucellin_like Nucellin 84.7 2.1 4.5E-05 41.2 6.0 88 201-306 166-270 (273)
173 cd05472 cnd41_like Chloroplast 84.4 8.1 0.00018 37.4 10.1 27 280-306 270-296 (299)
174 PRK06944 sulfur carrier protei 84.2 6.9 0.00015 28.8 7.4 60 1-71 1-60 (65)
175 cd06096 Plasmepsin_5 Plasmepsi 84.1 3.3 7.2E-05 40.9 7.3 92 196-288 3-139 (326)
176 cd05486 Cathespin_E Cathepsin 83.6 6.6 0.00014 38.5 9.1 25 280-304 290-314 (316)
177 cd05471 pepsin_like Pepsin-lik 83.3 1.8 3.9E-05 41.1 4.9 82 206-305 201-282 (283)
178 PRK08053 sulfur carrier protei 82.8 8.2 0.00018 28.7 7.3 61 1-71 1-61 (66)
179 PLN03146 aspartyl protease fam 82.4 4.1 9E-05 42.1 7.4 27 280-306 399-425 (431)
180 smart00455 RBD Raf-like Ras-bi 81.4 10 0.00022 28.9 7.4 51 3-53 2-54 (70)
181 PRK06083 sulfur carrier protei 79.5 6.8 0.00015 31.0 6.0 56 9-71 24-79 (84)
182 PF02954 HTH_8: Bacterial regu 79.3 1.6 3.4E-05 29.6 2.1 24 384-407 5-28 (42)
183 smart00804 TAP_C C-terminal do 79.2 5.2 0.00011 29.9 5.0 38 370-407 10-48 (63)
184 TIGR01682 moaD molybdopterin c 79.0 13 0.00028 28.6 7.5 54 13-71 18-75 (80)
185 PRK07440 hypothetical protein; 79.0 9.8 0.00021 28.9 6.6 61 3-71 5-65 (70)
186 cd00565 ThiS ThiaminS ubiquiti 78.7 6.9 0.00015 29.0 5.6 56 9-71 5-60 (65)
187 COG4008 Predicted metal-bindin 78.6 4.8 0.0001 34.0 5.1 39 369-408 111-149 (153)
188 PF00564 PB1: PB1 domain; Int 78.4 7.2 0.00016 30.1 5.9 45 2-47 3-48 (84)
189 PRK07696 sulfur carrier protei 78.1 12 0.00025 28.1 6.7 56 9-71 6-62 (67)
190 cd05992 PB1 The PB1 domain is 78.1 8.5 0.00018 29.4 6.3 45 2-47 2-47 (81)
191 cd01760 RBD Ubiquitin-like dom 78.0 6.9 0.00015 30.0 5.5 45 3-47 2-46 (72)
192 cd05487 renin_like Renin stimu 77.7 31 0.00068 33.9 11.7 26 280-305 299-324 (326)
193 PF12754 Blt1: Cell-cycle cont 77.0 0.78 1.7E-05 44.8 0.0 43 20-62 103-160 (309)
194 cd06411 PB1_p51 The PB1 domain 77.0 5.5 0.00012 31.0 4.7 36 12-47 8-43 (78)
195 cd05490 Cathepsin_D2 Cathepsin 76.8 33 0.00071 33.6 11.6 94 208-305 207-324 (325)
196 TIGR01687 moaD_arch MoaD famil 76.5 14 0.0003 29.0 7.1 57 11-71 16-83 (88)
197 PF09280 XPC-binding: XPC-bind 76.4 2.6 5.7E-05 31.0 2.7 23 99-121 3-27 (59)
198 smart00295 B41 Band 4.1 homolo 76.0 21 0.00046 32.1 9.3 71 2-72 5-83 (207)
199 KOG2086 Protein tyrosine phosp 75.9 5.2 0.00011 40.3 5.4 66 2-67 307-376 (380)
200 COG2104 ThiS Sulfur transfer p 75.6 20 0.00043 27.2 7.3 63 1-71 1-63 (68)
201 cd06396 PB1_NBR1 The PB1 domai 75.3 14 0.0003 29.1 6.5 35 2-37 2-38 (81)
202 cd05475 nucellin_like Nucellin 75.0 12 0.00025 36.0 7.6 83 197-287 3-102 (273)
203 PTZ00147 plasmepsin-1; Provisi 75.0 17 0.00036 38.0 9.2 94 207-306 332-448 (453)
204 PF02196 RBD: Raf-like Ras-bin 73.8 28 0.00061 26.4 7.9 57 3-59 3-61 (71)
205 PF02597 ThiS: ThiS family; I 71.9 11 0.00025 28.3 5.4 58 12-71 13-72 (77)
206 KOG2982 Uncharacterized conser 71.4 8.5 0.00018 38.0 5.5 56 16-71 353-416 (418)
207 PF03419 Peptidase_U4: Sporula 71.0 37 0.00079 33.1 10.1 34 196-229 157-201 (293)
208 TIGR01683 thiS thiamine biosyn 71.0 16 0.00034 27.0 5.8 56 9-71 4-59 (64)
209 PF08587 UBA_2: Ubiquitin asso 70.9 1.1 2.3E-05 31.2 -0.5 26 373-398 3-29 (46)
210 PTZ00380 microtubule-associate 70.9 5.1 0.00011 33.9 3.4 62 11-72 41-105 (121)
211 PF03474 DMA: DMRTA motif; In 70.8 5.9 0.00013 26.6 3.0 26 383-408 14-39 (39)
212 COG2103 Predicted sugar phosph 69.9 7.3 0.00016 37.5 4.6 38 373-410 234-272 (298)
213 cd05489 xylanase_inhibitor_I_l 69.0 18 0.00039 36.4 7.7 25 281-305 335-359 (362)
214 PF08337 Plexin_cytopl: Plexin 68.3 14 0.00031 39.2 6.9 64 10-73 201-290 (539)
215 PTZ00165 aspartyl protease; Pr 67.5 27 0.00059 36.8 8.8 28 279-306 418-445 (482)
216 PTZ00013 plasmepsin 4 (PM4); P 66.9 26 0.00057 36.5 8.5 37 269-305 408-446 (450)
217 PRK12751 cpxP periplasmic stre 66.4 28 0.0006 31.1 7.4 27 151-177 88-114 (162)
218 PF11925 DUF3443: Protein of u 65.8 17 0.00038 36.5 6.5 97 193-289 20-150 (370)
219 PF03943 TAP_C: TAP C-terminal 64.4 4.6 9.9E-05 28.8 1.7 34 374-407 2-36 (51)
220 PRK11840 bifunctional sulfur c 63.7 23 0.00049 35.3 6.8 61 1-71 1-61 (326)
221 PF11372 DUF3173: Domain of un 63.3 8.3 0.00018 28.4 2.8 21 376-396 6-26 (59)
222 COG5100 NPL4 Nuclear pore prot 62.7 26 0.00057 35.6 7.1 70 1-71 1-78 (571)
223 cd06398 PB1_Joka2 The PB1 doma 62.4 36 0.00077 27.3 6.6 43 3-46 3-51 (91)
224 PF08825 E2_bind: E2 binding d 62.3 8.8 0.00019 30.4 3.1 57 15-72 1-71 (84)
225 smart00727 STI1 Heat shock cha 62.3 17 0.00037 24.1 4.1 31 103-135 1-33 (41)
226 cd05473 beta_secretase_like Be 61.9 24 0.00052 35.3 7.0 27 280-306 318-344 (364)
227 cd06397 PB1_UP1 Uncharacterize 61.8 33 0.00071 26.9 6.0 43 2-45 2-44 (82)
228 PRK13901 ruvA Holliday junctio 60.9 10 0.00022 34.9 3.7 28 372-399 144-171 (196)
229 PRK01777 hypothetical protein; 60.8 59 0.0013 26.3 7.7 62 1-71 4-75 (95)
230 PF10209 DUF2340: Uncharacteri 60.4 19 0.00042 30.4 4.9 54 16-69 21-105 (122)
231 KOG2689 Predicted ubiquitin re 60.3 25 0.00055 33.9 6.3 69 2-70 212-285 (290)
232 cd06410 PB1_UP2 Uncharacterize 59.9 33 0.00072 27.9 6.1 40 5-45 17-56 (97)
233 PRK14602 ruvA Holliday junctio 59.4 26 0.00056 32.5 6.1 26 371-396 154-179 (203)
234 KOG1071 Mitochondrial translat 59.3 16 0.00034 36.1 4.7 37 372-408 46-83 (340)
235 KOG4250 TANK binding protein k 58.8 20 0.00042 39.1 5.8 42 9-50 323-364 (732)
236 TIGR00084 ruvA Holliday juncti 58.7 16 0.00036 33.4 4.7 27 372-398 147-173 (191)
237 PRK14601 ruvA Holliday junctio 57.8 12 0.00025 34.2 3.5 26 372-397 142-167 (183)
238 PRK14606 ruvA Holliday junctio 56.7 22 0.00048 32.5 5.2 26 372-397 143-168 (188)
239 KOG3048 Molecular chaperone Pr 56.6 25 0.00055 30.6 5.1 51 162-220 41-95 (153)
240 COG0632 RuvA Holliday junction 56.4 19 0.00041 33.3 4.7 29 371-399 155-183 (201)
241 PF14451 Ub-Mut7C: Mut7-C ubiq 54.7 50 0.0011 25.9 6.1 53 10-71 22-75 (81)
242 PF14533 USP7_C2: Ubiquitin-sp 54.6 46 0.001 30.9 7.0 56 12-69 35-98 (213)
243 PF10152 DUF2360: Predicted co 54.5 93 0.002 27.2 8.6 28 374-401 117-144 (148)
244 PRK14600 ruvA Holliday junctio 54.4 14 0.00031 33.7 3.5 27 372-398 145-171 (186)
245 PRK14603 ruvA Holliday junctio 54.2 35 0.00075 31.5 6.0 26 371-396 151-176 (197)
246 PF08938 HBS1_N: HBS1 N-termin 53.3 4.8 0.0001 31.3 0.2 34 376-409 35-69 (79)
247 KOG2239 Transcription factor c 53.0 18 0.0004 33.1 3.9 36 372-407 171-207 (209)
248 PF02991 Atg8: Autophagy prote 52.5 25 0.00054 29.0 4.3 56 16-71 38-97 (104)
249 PF14732 UAE_UbL: Ubiquitin/SU 52.3 28 0.00061 27.6 4.5 52 19-70 7-67 (87)
250 PRK14604 ruvA Holliday junctio 51.6 30 0.00065 31.8 5.2 26 372-397 149-174 (195)
251 PF02017 CIDE-N: CIDE-N domain 49.5 47 0.001 25.9 5.1 64 3-71 5-71 (78)
252 cd01787 GRB7_RA RA (RAS-associ 49.4 53 0.0011 26.1 5.5 67 3-69 5-82 (85)
253 cd01768 RA RA (Ras-associating 49.4 1.2E+02 0.0026 23.3 9.0 48 10-57 12-68 (87)
254 cd01817 RGS12_RBD Ubiquitin do 48.9 1.2E+02 0.0026 23.3 7.6 49 5-53 4-54 (73)
255 PF14327 CSTF2_hinge: Hinge do 48.5 19 0.00042 28.3 3.0 25 97-121 39-63 (84)
256 PRK05441 murQ N-acetylmuramic 48.0 29 0.00063 34.1 4.8 38 373-410 236-274 (299)
257 smart00266 CAD Domains present 47.3 57 0.0012 25.2 5.2 63 4-70 4-68 (74)
258 cd01611 GABARAP Ubiquitin doma 46.9 30 0.00065 28.9 4.0 56 15-71 45-105 (112)
259 PRK10363 cpxP periplasmic repr 46.4 65 0.0014 28.9 6.2 25 153-177 84-108 (166)
260 KOG1339 Aspartyl protease [Pos 44.4 90 0.002 31.7 8.0 92 195-287 45-181 (398)
261 TIGR00274 N-acetylmuramic acid 44.0 37 0.00081 33.2 4.8 41 370-410 228-269 (291)
262 PF12436 USP7_ICP0_bdg: ICP0-b 43.5 22 0.00049 33.9 3.2 59 15-73 89-153 (249)
263 PRK12750 cpxP periplasmic repr 43.2 1.7E+02 0.0038 26.2 8.6 27 151-177 95-121 (170)
264 PF11069 DUF2870: Protein of u 42.8 72 0.0016 26.0 5.4 23 42-64 3-25 (98)
265 PF00788 RA: Ras association ( 42.5 94 0.002 23.9 6.2 51 3-53 5-67 (93)
266 PF11834 DUF3354: Domain of un 41.1 33 0.00072 26.1 3.1 44 21-70 26-69 (69)
267 cd01782 AF6_RA_repeat1 Ubiquit 41.1 1.6E+02 0.0034 24.5 7.2 53 1-53 24-88 (112)
268 PRK11130 moaD molybdopterin sy 40.9 1.6E+02 0.0036 22.5 7.3 52 15-71 19-76 (81)
269 TIGR02854 spore_II_GA sigma-E 40.8 26 0.00056 34.3 3.1 35 196-230 158-203 (288)
270 PF00276 Ribosomal_L23: Riboso 40.2 67 0.0015 25.6 5.0 42 10-51 20-62 (91)
271 PF12685 SpoIIIAH: SpoIIIAH-li 39.1 1.9E+02 0.0042 26.3 8.5 64 146-216 101-169 (196)
272 PF14847 Ras_bdg_2: Ras-bindin 38.6 72 0.0016 26.3 5.0 45 3-47 3-50 (105)
273 cd01615 CIDE_N CIDE_N domain, 37.6 77 0.0017 24.7 4.7 54 14-70 15-70 (78)
274 PF12053 DUF3534: Domain of un 37.4 2.1E+02 0.0045 25.1 7.8 69 1-71 1-79 (145)
275 PF12436 USP7_ICP0_bdg: ICP0-b 36.7 69 0.0015 30.5 5.3 35 10-44 189-223 (249)
276 KOG2507 Ubiquitin regulatory p 36.4 62 0.0013 33.3 5.0 74 2-75 316-394 (506)
277 PRK14605 ruvA Holliday junctio 36.1 72 0.0016 29.2 5.2 27 372-398 148-174 (194)
278 PRK08769 DNA polymerase III su 35.7 76 0.0016 31.5 5.6 37 372-408 174-210 (319)
279 PF02505 MCR_D: Methyl-coenzym 35.5 61 0.0013 28.5 4.2 54 3-64 70-124 (153)
280 PRK12570 N-acetylmuramic acid- 35.5 57 0.0012 32.0 4.6 37 373-409 232-269 (296)
281 KOG3450 Huntingtin interacting 35.2 46 0.00099 27.4 3.2 39 371-409 79-118 (119)
282 PF07462 MSP1_C: Merozoite sur 34.6 57 0.0012 34.5 4.6 34 152-185 115-155 (574)
283 TIGR03260 met_CoM_red_D methyl 34.5 64 0.0014 28.3 4.2 54 3-64 69-122 (150)
284 PF03701 UPF0181: Uncharacteri 34.4 44 0.00095 23.7 2.6 20 373-392 17-36 (51)
285 smart00314 RA Ras association 34.4 1.6E+02 0.0036 22.8 6.4 44 10-53 15-65 (90)
286 smart00144 PI3K_rbd PI3-kinase 34.3 2.2E+02 0.0048 23.3 7.3 68 3-70 20-102 (108)
287 cd03568 VHS_STAM VHS domain fa 34.2 2.5E+02 0.0054 24.4 8.0 54 146-206 80-133 (144)
288 PLN03146 aspartyl protease fam 34.1 1.1E+02 0.0024 31.6 6.7 27 196-222 84-112 (431)
289 TIGR02105 III_needle type III 33.2 2.2E+02 0.0048 21.8 8.0 36 148-184 22-57 (72)
290 PF14543 TAXi_N: Xylanase inhi 32.9 45 0.00098 29.4 3.2 25 197-221 1-27 (164)
291 PRK07993 DNA polymerase III su 32.8 90 0.002 31.1 5.7 37 373-409 170-207 (334)
292 PF09145 Ubiq-assoc: Ubiquitin 32.8 25 0.00054 24.2 1.1 19 373-391 7-25 (46)
293 PRK01905 DNA-binding protein F 32.5 39 0.00085 26.0 2.4 24 384-407 37-60 (77)
294 COG3140 Uncharacterized protei 32.0 35 0.00076 24.6 1.8 32 373-404 17-52 (60)
295 COG2103 Predicted sugar phosph 32.0 59 0.0013 31.4 3.9 33 374-406 262-295 (298)
296 PRK14011 prefoldin subunit alp 31.9 3.3E+02 0.0071 23.8 8.3 33 187-220 49-82 (144)
297 cd06539 CIDE_N_A CIDE_N domain 31.3 1.2E+02 0.0025 23.8 4.7 49 21-71 21-71 (78)
298 cd01775 CYR1_RA Ubiquitin doma 31.0 2E+02 0.0044 23.4 6.3 65 5-69 7-84 (97)
299 cd01764 Urm1 Urm1-like ubuitin 30.6 1.2E+02 0.0025 24.4 4.9 54 16-71 24-89 (94)
300 KOG1464 COP9 signalosome, subu 30.3 88 0.0019 30.6 4.7 52 99-172 297-348 (440)
301 PF09469 Cobl: Cordon-bleu ubi 30.0 40 0.00087 26.2 2.0 39 29-70 2-43 (79)
302 PF07946 DUF1682: Protein of u 30.0 1.7E+02 0.0037 29.0 7.1 20 156-175 299-318 (321)
303 PRK05441 murQ N-acetylmuramic 29.5 75 0.0016 31.2 4.4 33 375-407 265-298 (299)
304 KOG3192 Mitochondrial J-type c 28.9 4.2E+02 0.0091 23.6 8.5 73 102-181 93-165 (168)
305 cd06538 CIDE_N_FSP27 CIDE_N do 28.9 1.3E+02 0.0028 23.5 4.6 55 13-70 14-69 (79)
306 TIGR02938 nifL_nitrog nitrogen 28.4 2.9E+02 0.0063 27.8 8.8 53 174-229 389-443 (494)
307 cd01777 SNX27_RA Ubiquitin dom 28.4 1.3E+02 0.0027 24.1 4.6 41 2-42 3-43 (87)
308 PRK05114 hypothetical protein; 27.9 64 0.0014 23.6 2.6 19 373-391 17-35 (59)
309 TIGR03090 SASP_tlp small, acid 27.9 78 0.0017 24.1 3.2 15 123-137 7-21 (70)
310 PRK00430 fis global DNA-bindin 27.8 51 0.0011 26.6 2.4 24 384-407 55-78 (95)
311 PF06234 TmoB: Toluene-4-monoo 27.6 1.8E+02 0.0039 23.1 5.3 58 13-70 17-82 (85)
312 PRK10455 periplasmic protein; 27.5 2.6E+02 0.0056 24.9 7.0 7 155-161 92-98 (161)
313 PHA00431 internal virion prote 27.4 3.5E+02 0.0077 29.3 8.9 83 91-177 80-179 (746)
314 cd06536 CIDE_N_ICAD CIDE_N dom 27.3 1.4E+02 0.003 23.4 4.6 63 4-70 6-72 (80)
315 cd01818 TIAM1_RBD Ubiquitin do 27.2 1.7E+02 0.0036 22.8 4.9 38 5-42 4-41 (77)
316 PRK03830 small acid-soluble sp 26.4 85 0.0018 24.1 3.1 39 123-169 8-46 (73)
317 PF02824 TGS: TGS domain; Int 26.3 2.5E+02 0.0055 20.2 5.7 59 3-70 1-59 (60)
318 PF05952 ComX: Bacillus compet 26.3 74 0.0016 23.3 2.7 22 94-115 3-24 (57)
319 TIGR00274 N-acetylmuramic acid 26.2 78 0.0017 31.0 3.8 31 375-405 260-291 (291)
320 PF03671 Ufm1: Ubiquitin fold 26.1 2.3E+02 0.005 21.8 5.4 57 13-69 18-75 (76)
321 KOG1364 Predicted ubiquitin re 26.0 66 0.0014 32.2 3.2 65 2-66 279-349 (356)
322 cd01612 APG12_C Ubiquitin-like 25.8 1.3E+02 0.0029 23.8 4.4 58 14-72 19-81 (87)
323 cd05007 SIS_Etherase N-acetylm 25.8 52 0.0011 31.5 2.5 33 372-404 222-255 (257)
324 KOG3439 Protein conjugation fa 25.7 2E+02 0.0044 24.0 5.5 39 13-51 47-85 (116)
325 PRK05738 rplW 50S ribosomal pr 25.3 1.9E+02 0.0041 23.1 5.2 40 10-49 20-60 (92)
326 PF00794 PI3K_rbd: PI3-kinase 25.0 2.5E+02 0.0053 22.7 6.1 59 2-60 18-85 (106)
327 cd06404 PB1_aPKC PB1 domain is 24.8 3.5E+02 0.0076 21.4 6.7 43 2-45 2-45 (83)
328 PRK12570 N-acetylmuramic acid- 24.4 98 0.0021 30.4 4.2 31 375-405 261-292 (296)
329 PF12244 DUF3606: Protein of u 24.0 1.2E+02 0.0026 22.0 3.5 36 372-407 19-55 (57)
330 PF03765 CRAL_TRIO_N: CRAL/TRI 23.5 1.2E+02 0.0026 21.3 3.5 28 381-408 26-53 (55)
331 cd06537 CIDE_N_B CIDE_N domain 23.3 1.8E+02 0.004 22.8 4.6 66 3-72 5-71 (81)
332 cd01776 Rin1_RA Ubiquitin doma 23.1 1.8E+02 0.0039 23.0 4.5 44 10-53 12-61 (87)
333 TIGR02302 aProt_lowcomp conser 22.3 5.7E+02 0.012 29.1 9.9 34 107-140 502-536 (851)
334 TIGR00624 tag DNA-3-methyladen 22.0 1E+02 0.0023 28.0 3.5 51 148-208 72-122 (179)
335 PF07319 DnaI_N: Primosomal pr 22.0 94 0.002 24.9 2.9 41 94-134 22-62 (94)
336 KOG4572 Predicted DNA-binding 21.9 1.2E+02 0.0026 33.8 4.4 52 9-60 3-56 (1424)
337 PRK00116 ruvA Holliday junctio 21.9 1.6E+02 0.0035 26.8 4.9 27 372-398 149-175 (192)
338 PF03931 Skp1_POZ: Skp1 family 21.7 68 0.0015 23.4 1.9 32 1-32 1-32 (62)
339 PF02153 PDH: Prephenate dehyd 20.5 1.8E+02 0.0039 27.6 5.1 13 60-72 119-131 (258)
340 PF13779 DUF4175: Domain of un 20.4 6.6E+02 0.014 28.5 10.0 34 107-140 471-505 (820)
341 TIGR03636 L23_arch archaeal ri 20.3 2.3E+02 0.0049 22.0 4.6 34 10-43 14-47 (77)
342 PRK08507 prephenate dehydrogen 20.1 2.4E+02 0.0053 26.8 5.9 10 125-134 220-229 (275)
No 1
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=100.00 E-value=1.4e-62 Score=468.61 Aligned_cols=322 Identities=42% Similarity=0.697 Sum_probs=282.8
Q ss_pred CEEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCC--CcccccCCCCCCeEEEEecCCCC
Q 015264 1 MRITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA--EKLSALGVKDEDLVMMVSNAASS 76 (410)
Q Consensus 1 M~I~vk~~--~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~--~tL~~~gI~~g~~i~l~~~~~~s 76 (410)
|.++|.+. ..+.+.++|..+..+.+|+.+++..+|++.+..-|+|+++++.+. .+|.++|+++||++.+..+.+.+
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 77787765 567788999999999999999999999999999999999999865 78999999999999997543321
Q ss_pred --CC----------CC--------CCC----------CC--------CCCCCCChHHHHHHHhcCHHHHHHHhhcCHHHH
Q 015264 77 --PA----------TN--------NLS----------FN--------PDGSAVNPAAFQQHIRNDANLMTQLFQSDPELA 118 (410)
Q Consensus 77 --~~----------~~--------~~~----------~~--------~~g~~~~p~~~~~~~~~nP~~l~~l~~~nP~L~ 118 (410)
.. ++ +.+ .+ +.+...+|+.++|.++++|..+..++.-+|.|+
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 00 000 00 011135788899999999999999999999999
Q ss_pred HHhccCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhCCCCCHHHHHHHHHHHHHHhHHHHHHHHHHhCCccccceeEEE
Q 015264 119 QVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLY 198 (410)
Q Consensus 119 ~ai~~~~~~~~~~~l~~~~~~~~~~~~~~~~el~~l~~dP~~~E~Q~~i~E~ir~~~i~~n~~~A~e~~Pe~f~~~~~ly 198 (410)
.++..+|.+.|.+.+.......+ ++..-..+.+.+||||+|+|++|+|.|||++|+|||.+|+||+||.|+.|.|||
T Consensus 161 ~~l~~g~~~k~~~~~~~~q~d~~---rr~~~~~rl~eanPfd~E~q~rIee~irq~~i~eq~~~ai~~~pe~f~~v~ML~ 237 (380)
T KOG0012|consen 161 ALLVLGDLEKFDRTLKEMQKDYQ---RRSVHQRRLLEANPFDLEAQRRIEEKIRQNAIDEQMSHAIEYHPEDFTQVTMLY 237 (380)
T ss_pred hhhcccchhhhhhhhhhhccccc---hhhhhhHHHHhcCCcchhhhhhhhHHHHHHHHHHHHHHhhhcCccccccceEEE
Confidence 99999999999888875432222 122334567889999999999999999999999999999999999999999999
Q ss_pred EEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCC
Q 015264 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPN 278 (410)
Q Consensus 199 ~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~ 278 (410)
|+|+|||++||||||||||.|+||.+||+||||.+++|+||.|.++|||+.|++|+||.++|+||+.+++|+|.|++..+
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 CceeeechhhhhcceEEEccCCEEEECCcceeecCcCCCCCCCCCch
Q 015264 279 MEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLD 325 (410)
Q Consensus 279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~~~~~~~pfl~~~ei~~~~~~ 325 (410)
.|++||+|+|++|+|+||+++++|+|+++++++|||...++|++.+.
T Consensus 318 ~d~llGLd~Lrr~~ccIdL~~~~L~ig~~~teiPfl~~~~lp~~~~~ 364 (380)
T KOG0012|consen 318 MDLLLGLDMLRRHQCCIDLKTNVLRIGNTETEIPFLPSNELPSHNKE 364 (380)
T ss_pred cchhhhHHHHHhccceeecccCeEEecCCCccccccccccCCccccc
Confidence 99999999999999999999999999999889999999999998653
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=2.2e-42 Score=291.70 Aligned_cols=124 Identities=60% Similarity=1.157 Sum_probs=87.2
Q ss_pred HHhHHHHHHHHHHhCCccccceeEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceee
Q 015264 173 QKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL 252 (410)
Q Consensus 173 ~~~i~~n~~~A~e~~Pe~f~~~~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~ 252 (410)
|+||+|||+.||||+||.|.++.||||+|+|||++++||||||||+|+||.+||+||||++++|+|+.+.+.|+|+.+++
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 eEEEEEeEEEcCEEEEEEEEEecCCCCceeeechhhhhcceEEE
Q 015264 253 GRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIID 296 (410)
Q Consensus 253 g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID 296 (410)
|+||.++++||+.+++|+|.|+++...|+|||+|||++|+|+||
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=2.1e-34 Score=229.27 Aligned_cols=101 Identities=29% Similarity=0.547 Sum_probs=97.2
Q ss_pred EEeEecCEeEEEeecCCCcccccCHHHHHHcCCcccccc-ceeeEeeCCCc-ceeeeEEEEEeEEEcCEEEEEEEEEecC
Q 015264 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVLDS 276 (410)
Q Consensus 199 ~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~-~~~~~~~g~g~-~~~~g~i~~~~l~ig~~~~~~~~~Vl~~ 276 (410)
|+|++||+++|||||||||+|+||+.||+||||.+++++ ++.+++.|+|+ .+++|+||.++++||+.+++|+|.|+|.
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 589999999999999999999999999999999988886 88899999998 6999999999999999999999999999
Q ss_pred CCCceeeechhhhhcceEEEccC
Q 015264 277 PNMEFLFGLDMLRKHQCIIDLKE 299 (410)
Q Consensus 277 ~~~d~iLG~D~L~~~~~~ID~~~ 299 (410)
.+.|++||+|+|+||+|+||+++
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=99.96 E-value=2.2e-29 Score=215.41 Aligned_cols=123 Identities=64% Similarity=1.232 Sum_probs=116.7
Q ss_pred HHHHhCCccccceeEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEE
Q 015264 182 AALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 182 ~A~e~~Pe~f~~~~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
.|+|++||.|+.+.++|++|+|||++++|||||||++|+||+++|+||||....+.++.+.+.|+|..+..|+++.+.|+
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 57899999999999999999999999999999999999999999999999776677777888998888999999999999
Q ss_pred EcCEEEEEEEEEecCCCCceeeechhhhhcceEEEccCCEEEE
Q 015264 262 IGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRV 304 (410)
Q Consensus 262 ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i 304 (410)
||+..++++|.|++..++|+|||||||++++++|||++++|+|
T Consensus 82 i~~~~~~~~~~Vl~~~~~d~ILG~d~L~~~~~~ID~~~~~i~~ 124 (124)
T cd05479 82 IGNLFLPCSFTVLEDDDVDFLIGLDMLKRHQCVIDLKENVLRI 124 (124)
T ss_pred ECCEEeeeEEEEECCCCcCEEecHHHHHhCCeEEECCCCEEEC
Confidence 9999999999999988999999999999999999999999985
No 5
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.96 E-value=1.1e-28 Score=245.60 Aligned_cols=200 Identities=22% Similarity=0.411 Sum_probs=161.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCCCCCCC-
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPAT- 79 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~~s~~~- 79 (410)
++|+||+.++ ++.|.|..+.||.+||++|+..+++++++++|||.||+|+|++||..|||+||+|||||++....+.+
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 4799999877 78999999999999999999999999999999999999999999999999999999999765431111
Q ss_pred ----------CC--------CCCCCCC---------C---------C-CChHHHHHHHhcCHHHHHHHhhcCHHHHHHhc
Q 015264 80 ----------NN--------LSFNPDG---------S---------A-VNPAAFQQHIRNDANLMTQLFQSDPELAQVLL 122 (410)
Q Consensus 80 ----------~~--------~~~~~~g---------~---------~-~~p~~~~~~~~~nP~~l~~l~~~nP~L~~ai~ 122 (410)
.+ .+.++.+ . + .....+.+++.+||+++.+|+. ||-++..+
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 00 0111110 0 0 0112467889999999999985 99999999
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhCCCCC----HHH---HHHHHHHHHHHhHHHHHHHHH---HhCCcccc
Q 015264 123 GNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFD----VEA---QKKIEAAIRQKGIDENWAAAL---EHNPEAFA 192 (410)
Q Consensus 123 ~~~~~~~~~~l~~~~~~~~~~~~~~~~el~~l~~dP~~----~E~---Q~~i~E~ir~~~i~~n~~~A~---e~~Pe~f~ 192 (410)
+|++.+|+++..+ +++++.. ++++|+.|+++||.. +|. ...+.|+|| |.++|| |.+|++|.
T Consensus 173 -~Npd~mrq~I~an-Pqmq~lm-~~npei~h~ln~p~i~rQtle~arNP~m~qemmr------n~d~a~SnlesiPgG~n 243 (493)
T KOG0010|consen 173 -NNPDLMRQLIMAN-PQMQDLM-QRNPEIGHLLNNPLILRQTLESARNPEMMQEMMR------NQDRAMSNLESIPGGYN 243 (493)
T ss_pred -cChHHHHHHHhcC-HHHHHHH-hhCCcchhhhcChHHHHHHHHhccCHHHHHHHHh------hccccccChhcCccHHH
Confidence 7899999999988 6777664 899999999999866 443 556888888 999999 99999999
Q ss_pred ceeEEEEEeE----------ecCEeEEEee
Q 015264 193 RVVMLYVDME----------VNGIPLKAFV 212 (410)
Q Consensus 193 ~~~~ly~~v~----------Ing~~v~alV 212 (410)
.+.++|.++. ..|-|+..+.
T Consensus 244 ~l~~my~diqdPm~Na~~~~~g~Npfasl~ 273 (493)
T KOG0010|consen 244 ALRRMYTDIQDPMLNAASEQFGGNPFASLP 273 (493)
T ss_pred HHHHHhhhccchhhhhcccccCCCCccccc
Confidence 9999999985 3555655555
No 6
>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=99.91 E-value=1.3e-23 Score=209.62 Aligned_cols=74 Identities=28% Similarity=0.570 Sum_probs=70.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC---CCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g---ip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
|+|+||+.+|++|.|+|++++||.+||++|+...| +|+++|||||+||+|+|+++|++|||++|++|+++.+..
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccC
Confidence 89999999999999999999999999999999998 999999999999999999999999999999999986543
No 7
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.84 E-value=3.1e-20 Score=176.88 Aligned_cols=74 Identities=28% Similarity=0.552 Sum_probs=70.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC--CCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
|+|+||++.+.+|++++.++.||.++|.+|+...| +|+++|+|||+||+|+|+.|+.+|+|++++.|.|+-+..
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 89999999999999999999999999999999999 999999999999999999999999999999998885543
No 8
>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=99.82 E-value=8.4e-20 Score=158.14 Aligned_cols=112 Identities=26% Similarity=0.344 Sum_probs=95.7
Q ss_pred EEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEec
Q 015264 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD 275 (410)
Q Consensus 196 ~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~ 275 (410)
-+-..+.|+++++.+||||||++|||+.++|++++|.-....+...+..+.|.....+.++.+.+.++++.+..+|.|++
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 45567899999999999999999999999999999944332233333333456677888999999999999999999999
Q ss_pred CCCCceeeechhhhhcceEEEccCCEEEECCc
Q 015264 276 SPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG 307 (410)
Q Consensus 276 ~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~~ 307 (410)
..++|+|||||||++|+..|||..++|+|...
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 9
>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=99.74 E-value=8.9e-18 Score=130.49 Aligned_cols=73 Identities=27% Similarity=0.423 Sum_probs=70.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
|+|+||+.+|+++.++|++++||++||++|++++|+|+++|+|+|+|++|+|+.+|++|||++|++|||+.++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999998664
No 10
>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=99.70 E-value=6.5e-17 Score=126.83 Aligned_cols=74 Identities=23% Similarity=0.351 Sum_probs=70.0
Q ss_pred CEEEEEeCCCCE-EEEE-eCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 1 MRITVMTADEQI-ISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 1 M~I~vk~~~g~~-~~ie-v~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
|+|+||+.+|+. +.++ ++++.||++||++|++.+|+|+++|||+|+||+|+|+.||++|||++|++|||+.+..
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 6895 8999999999999999999999999999999999999999999999999999987654
No 11
>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=99.70 E-value=1.7e-16 Score=128.12 Aligned_cols=91 Identities=27% Similarity=0.302 Sum_probs=80.2
Q ss_pred EEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecC
Q 015264 197 LYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDS 276 (410)
Q Consensus 197 ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~ 276 (410)
.|+.++|||++++++|||||++|+||.++++++|+..+.+.......++....++.|++ .+.+++|+..+..+|+|++.
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 38999999999999999999999999999999999775555555555555578999999 56999999999999999998
Q ss_pred CCCceeeechhhh
Q 015264 277 PNMEFLFGLDMLR 289 (410)
Q Consensus 277 ~~~d~iLG~D~L~ 289 (410)
. ++.|||+|||.
T Consensus 80 ~-~~~lLG~~wl~ 91 (91)
T cd05484 80 E-GLNLLGRDWLD 91 (91)
T ss_pred C-CCCccChhhcC
Confidence 7 99999999984
No 12
>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=99.69 E-value=6.1e-17 Score=125.21 Aligned_cols=70 Identities=11% Similarity=0.150 Sum_probs=68.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|+|++..|+.+.++++++.||++||++|+...|+|+++|||+|.|++|+|+.||++|||++|++|||-
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 13
>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=99.67 E-value=8.1e-16 Score=130.85 Aligned_cols=109 Identities=21% Similarity=0.242 Sum_probs=83.5
Q ss_pred ceeEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEE-EEE
Q 015264 193 RVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSF 271 (410)
Q Consensus 193 ~~~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~-~~~ 271 (410)
+--++|++++|||+++.|+|||||++++||+++|+++|+..... .......+.+.......+....|+||+..+. +.+
T Consensus 8 ~~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~-~~~~~~~ta~G~~~~~~~~l~~l~iG~~~~~nv~~ 86 (121)
T TIGR02281 8 GDGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRL-GYTVTVSTANGQIKAARVTLDRVAIGGIVVNDVDA 86 (121)
T ss_pred CCCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccC-CceEEEEeCCCcEEEEEEEeCEEEECCEEEeCcEE
Confidence 45589999999999999999999999999999999999954322 1222222332223356678889999997775 999
Q ss_pred EEecCC-CCceeeechhhhhcc-eEEEccCCEEEE
Q 015264 272 VVLDSP-NMEFLFGLDMLRKHQ-CIIDLKENVLRV 304 (410)
Q Consensus 272 ~Vl~~~-~~d~iLG~D~L~~~~-~~ID~~~~~l~i 304 (410)
.|++.. ..+.|||||||++++ +.||- +.|++
T Consensus 87 ~v~~~~~~~~~LLGm~fL~~~~~~~~~~--~~l~l 119 (121)
T TIGR02281 87 MVAEGGALSESLLGMSFLNRLSRFTVRG--GKLIL 119 (121)
T ss_pred EEeCCCcCCceEcCHHHHhccccEEEEC--CEEEE
Confidence 999865 358999999999997 66654 55554
No 14
>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=99.67 E-value=2e-16 Score=122.94 Aligned_cols=70 Identities=23% Similarity=0.334 Sum_probs=66.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+||+ ++++.++|++++||++||++|++++|+|+++|+|+|+||+|+|+.||++|||+++++||++..
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 478999999999999999999999999999999999999999999999999999999999854
No 15
>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=99.67 E-value=3.5e-16 Score=122.25 Aligned_cols=73 Identities=30% Similarity=0.580 Sum_probs=70.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC--CcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQV--PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gi--p~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
|+|+|++.+|+.+.+++++++||.+||+.|+..+|+ |+++|+|+|+|++|+|+.+|++|||++|++|+++.+.
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 9999999999999999999999999999999998654
No 16
>PTZ00044 ubiquitin; Provisional
Probab=99.66 E-value=3.7e-16 Score=121.83 Aligned_cols=72 Identities=29% Similarity=0.452 Sum_probs=70.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+||+.+|+++.+++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|++|++||++.+
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 17
>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=99.65 E-value=4.5e-16 Score=122.14 Aligned_cols=72 Identities=26% Similarity=0.433 Sum_probs=69.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
|+|+|+...|+.+.++++++.||.+||+.|+.+.++|+++|+|+|.|++|+|+ +|++|||++|++|||+...
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence 89999999999999999999999999999999999999999999999999999 9999999999999998653
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=99.64 E-value=6.2e-16 Score=118.77 Aligned_cols=69 Identities=19% Similarity=0.442 Sum_probs=66.9
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+||+.+|+++.+++++++||.+||++|++++|+|+++|+|+|+|++|+|+.+|++|||++|++|||+.
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 578999999999999999999999999999999999999999999999999999999999999999985
No 19
>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=99.64 E-value=6.6e-16 Score=118.58 Aligned_cols=69 Identities=17% Similarity=0.321 Sum_probs=65.9
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
++||..+|+++.+++++++||.+||++|++..|+|+++|+|+|+|++|+|+.+|++|||++|++|||+-
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 367888999999999999999999999999999999999999999999999999999999999999963
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=99.63 E-value=8.3e-16 Score=126.81 Aligned_cols=72 Identities=26% Similarity=0.378 Sum_probs=69.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+||+.+|+++.++|++++||.+||++|+...|+|+++|+|+|+|+.|+|+.+|++|+|++|++|||+..
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 899999999999999999999999999999999999999999999999999999999999999999999854
No 21
>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=99.63 E-value=1.4e-15 Score=118.30 Aligned_cols=72 Identities=29% Similarity=0.525 Sum_probs=70.0
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+|+..+|+.+.++++++.||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|++||++..
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 22
>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=99.63 E-value=1.6e-15 Score=116.79 Aligned_cols=71 Identities=32% Similarity=0.515 Sum_probs=69.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+||+.+|+++.++++++.||.+||++|+..+|+|++.|+|+|+|++|+|+.+|++|||++|++||++.
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 23
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.62 E-value=1.6e-15 Score=118.00 Aligned_cols=72 Identities=32% Similarity=0.583 Sum_probs=70.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+|++.+|+.+.++++++.||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
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 899999999999999999999999999999999999999999999999999999999999999999999865
No 24
>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=99.62 E-value=1.1e-15 Score=118.64 Aligned_cols=70 Identities=24% Similarity=0.287 Sum_probs=67.5
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+||+.+|+++.++++++.||.+||++|+...|+|+++|+|+|+|++|+|+.+|++|||++|++|+++..
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 6899999999999999999999999999999999999999999999999999999999999999999854
No 25
>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=99.61 E-value=1.6e-15 Score=118.19 Aligned_cols=70 Identities=19% Similarity=0.235 Sum_probs=63.3
Q ss_pred CEEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhC--CCcCCeEEEeCCeecCCCCcccccC--CCCCCeEEEE
Q 015264 1 MRITVMTADEQI--ISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALG--VKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~--~~iev~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~d~~tL~~~g--I~~g~~i~l~ 70 (410)
+.|+||+++++. +.+++++++||.+||++|+...+ .++++|||||.||+|+|+.||++|+ +++|.+|||+
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 578999999999 45555899999999999999874 5579999999999999999999996 9999999997
No 26
>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=99.60 E-value=2.5e-15 Score=118.54 Aligned_cols=73 Identities=19% Similarity=0.233 Sum_probs=69.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEE--EeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQL--LYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~L--i~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
|+|+|+..+|+.+.++++++.||.+||+.|+..+|+|+++|+| +|+|++|+|+.+|++|||++|++|+|+.+.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 7899999999999999999999999999999999999999999 899999999999999999999999998653
No 27
>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=99.60 E-value=2.3e-15 Score=116.02 Aligned_cols=68 Identities=54% Similarity=0.764 Sum_probs=64.9
Q ss_pred EEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCC-CcccccCCCCCCeEEEE
Q 015264 3 ITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMV 70 (410)
Q Consensus 3 I~vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~-~tL~~~gI~~g~~i~l~ 70 (410)
|+|++. +|+++.+++++++||++||++|+.++|+|+++|+|+|+|++|+|+ .+|++|||++|++|||.
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 588998 899999999999999999999999999999999999999999998 68999999999999984
No 28
>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=99.59 E-value=5.6e-15 Score=113.79 Aligned_cols=70 Identities=19% Similarity=0.376 Sum_probs=66.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+||+..|+ ..++++++.||.+||+.|+..+|+++++|+|+|+|++|.|+.+|++|||++|++||++.
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 68999999897 58999999999999999999999999999999999999999999999999999999974
No 29
>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=99.58 E-value=6.6e-15 Score=112.50 Aligned_cols=68 Identities=35% Similarity=0.643 Sum_probs=64.8
Q ss_pred EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 6 MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 6 k~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
|+.+|+.+.++|+++.||.+||..|+.++++|+++|+|+|+|++|+|+.||++|||++|++|+|+.++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence 57789999999999999999999999999999999999999999999999999999999999998653
No 30
>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=99.57 E-value=8.9e-15 Score=113.53 Aligned_cols=70 Identities=27% Similarity=0.330 Sum_probs=66.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe---CCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~---~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+|++ +|+.|.++|++++||++||+.|+..+|+|+++|+|+| .|++|+|+.+|++|+|++|+.|+|+-
T Consensus 1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG 73 (74)
T cd01813 1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG 73 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence 6899999 7999999999999999999999999999999999996 99999999999999999999999973
No 31
>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=99.56 E-value=1.2e-14 Score=111.66 Aligned_cols=70 Identities=30% Similarity=0.496 Sum_probs=66.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+||+. |+.+.++++++.||.+||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|++|+|+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 68999995 99999999999999999999999999999999999999999999999999999999999873
No 32
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=5.4e-15 Score=105.87 Aligned_cols=70 Identities=30% Similarity=0.535 Sum_probs=68.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|.|.|++++|+.+.+++++.++|+.+|+.|+++.||||.+|||+|.||++.|+.|-++|++.-|++||++
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 33
>PF13650 Asp_protease_2: Aspartyl protease
Probab=99.54 E-value=7.3e-14 Score=111.44 Aligned_cols=88 Identities=31% Similarity=0.486 Sum_probs=70.2
Q ss_pred EEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEE-EEEEEEec-C
Q 015264 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-PCSFVVLD-S 276 (410)
Q Consensus 199 ~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~-~~~~~Vl~-~ 276 (410)
|+++|||++++|+|||||+.++|++++|+++|+..... .......|.+...........+++||+..+ .+.+.|++ .
T Consensus 1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~i~ig~~~~~~~~~~v~~~~ 79 (90)
T PF13650_consen 1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPK-SVPISVSGAGGSVTVYRGRVDSITIGGITLKNVPFLVVDLG 79 (90)
T ss_pred CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCC-ceeEEEEeCCCCEEEEEEEEEEEEECCEEEEeEEEEEECCC
Confidence 58999999999999999999999999999999954333 212333444433455566666899999777 79999999 7
Q ss_pred CCCceeeechh
Q 015264 277 PNMEFLFGLDM 287 (410)
Q Consensus 277 ~~~d~iLG~D~ 287 (410)
..+|+|||+||
T Consensus 80 ~~~~~iLG~df 90 (90)
T PF13650_consen 80 DPIDGILGMDF 90 (90)
T ss_pred CCCEEEeCCcC
Confidence 78999999998
No 34
>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=99.54 E-value=5.6e-14 Score=113.38 Aligned_cols=93 Identities=29% Similarity=0.449 Sum_probs=73.0
Q ss_pred eEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEE-EEEEEE
Q 015264 195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-PCSFVV 273 (410)
Q Consensus 195 ~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~-~~~~~V 273 (410)
.++|++|+|||++++|+|||||+.++|+.+++++|++..... ......+.+......+.....++||+..+ .+.+.|
T Consensus 1 ~~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~--~~~~~~~~~G~~~~~~~~~~~i~ig~~~~~~~~~~v 78 (96)
T cd05483 1 GHFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLG--GKVTVQTANGRVRAARVRLDSLQIGGITLRNVPAVV 78 (96)
T ss_pred CcEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCC--CcEEEEecCCCccceEEEcceEEECCcEEeccEEEE
Confidence 378999999999999999999999999999999999822222 22234444433334455577899999776 589999
Q ss_pred ecCCC--Cceeeechhhh
Q 015264 274 LDSPN--MEFLFGLDMLR 289 (410)
Q Consensus 274 l~~~~--~d~iLG~D~L~ 289 (410)
++... .|+|||+|||+
T Consensus 79 ~d~~~~~~~gIlG~d~l~ 96 (96)
T cd05483 79 LPGDALGVDGLLGMDFLR 96 (96)
T ss_pred eCCcccCCceEeChHHhC
Confidence 99876 99999999995
No 35
>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=5.6e-14 Score=115.15 Aligned_cols=95 Identities=31% Similarity=0.521 Sum_probs=78.6
Q ss_pred EEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCc-ceeeeEEEEEeEEEcCEEEEEEEEEe
Q 015264 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVL 274 (410)
Q Consensus 196 ~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~-~~~~g~i~~~~l~ig~~~~~~~~~Vl 274 (410)
+-|+.++|||++++|||||||++|+|+.+++.+.+.. ........|.|. ....|.+. +.+++++..+...|.|+
T Consensus 5 rp~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~----~~~~~~v~~~~g~~~~~~~~~-~~v~~~~~~~~~~~~v~ 79 (100)
T PF00077_consen 5 RPYITVKINGKKIKALLDTGADVSIISEKDWKKLGPP----PKTSITVRGAGGSSSILGSTT-VEVKIGGKEFNHTFLVV 79 (100)
T ss_dssp SSEEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE----EEEEEEEEETTEEEEEEEEEE-EEEEETTEEEEEEEEES
T ss_pred CceEEEeECCEEEEEEEecCCCcceeccccccccccc----ccCCceeccCCCcceeeeEEE-EEEEEECccceEEEEec
Confidence 5689999999999999999999999999999887764 222334556653 36666664 49999999999999999
Q ss_pred cCCCCceeeechhhhhcceEEE
Q 015264 275 DSPNMEFLFGLDMLRKHQCIID 296 (410)
Q Consensus 275 ~~~~~d~iLG~D~L~~~~~~ID 296 (410)
+....| |||.|||+++++.|+
T Consensus 80 ~~~~~~-ILG~D~L~~~~~~i~ 100 (100)
T PF00077_consen 80 PDLPMN-ILGRDFLKKLNAVIN 100 (100)
T ss_dssp STCSSE-EEEHHHHTTTTCEEE
T ss_pred CCCCCC-EeChhHHHHcCCEEC
Confidence 987788 999999999999885
No 36
>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=99.49 E-value=8.3e-14 Score=108.71 Aligned_cols=66 Identities=17% Similarity=0.341 Sum_probs=62.7
Q ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecC
Q 015264 8 ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 8 ~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
.+|+++.+++++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~ 70 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEec
Confidence 368999999999999999999999999999999999999999999999999999999999998653
No 37
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.44 E-value=2.3e-14 Score=114.80 Aligned_cols=72 Identities=29% Similarity=0.574 Sum_probs=69.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|++++++..|+++++++++++||..+|++|....|+|+++|+|+|+||+|+|..||++|||+..||||++.+
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 788999999999999999999999999999999999999999999999999999999999999999999854
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.44 E-value=3.8e-13 Score=100.62 Aligned_cols=64 Identities=31% Similarity=0.597 Sum_probs=61.4
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED 65 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~ 65 (410)
|+|+|++.+ +.+.++|+++.||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|+
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 899999987 7899999999999999999999999999999999999999999999999999885
No 39
>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=99.41 E-value=3e-13 Score=104.09 Aligned_cols=54 Identities=17% Similarity=0.362 Sum_probs=50.0
Q ss_pred CCCCHHHHHHHHHHHh--CCC-cCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 19 PHETVENVKALLEVET--QVP-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 19 ~~~TV~~LK~~I~~~~--gip-~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
.++||.+||++|++++ |++ +++|||||+||+|+|+.||++|||++|++|||+++
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 464 99999999999999999999999999999999864
No 40
>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=99.40 E-value=1.5e-12 Score=104.05 Aligned_cols=84 Identities=23% Similarity=0.377 Sum_probs=63.5
Q ss_pred EEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcce--eeeEEEEEeEEEcCEEEEEEEEEecC
Q 015264 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSE--ILGRIHVAPIKIGNVFYPCSFVVLDS 276 (410)
Q Consensus 199 ~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~--~~g~i~~~~l~ig~~~~~~~~~Vl~~ 276 (410)
+.+.|||+++.|||||||+.|+|+..+|+++.+ . .......|+|... .+..... .+++|+......+.|.+.
T Consensus 1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~~~---~--~~~~~v~gagG~~~~~v~~~~~-~v~vg~~~~~~~~~v~~~ 74 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQEL---S--TTSVLIRGVSGQSQQPVTTYRT-LVDLGGHTVSHSFLVVPN 74 (86)
T ss_pred CEEEECCEEEEEEEECCCCeEEECHHHhhhccC---C--CCcEEEEeCCCcccccEEEeee-EEEECCEEEEEEEEEEcC
Confidence 468999999999999999999999999999822 2 2334556665432 2221111 699999988888888875
Q ss_pred CCCceeeechhhh
Q 015264 277 PNMEFLFGLDMLR 289 (410)
Q Consensus 277 ~~~d~iLG~D~L~ 289 (410)
. .+.|||+|||+
T Consensus 75 ~-~~~lLG~dfL~ 86 (86)
T cd06095 75 C-PDPLLGRDLLS 86 (86)
T ss_pred C-CCcEechhhcC
Confidence 4 69999999995
No 41
>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=99.37 E-value=4.9e-12 Score=105.28 Aligned_cols=100 Identities=25% Similarity=0.358 Sum_probs=74.7
Q ss_pred EEEeEecC------EeEEEeecCCCcccc-cCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEE
Q 015264 198 YVDMEVNG------IPLKAFVDSGAQSTI-ISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCS 270 (410)
Q Consensus 198 y~~v~Ing------~~v~alVDTGA~~s~-is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~ 270 (410)
|++++|.+ .+++|||||||+..+ |+.++|+++||..... .. ...+.|. ....++....+++|+....+.
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 489999999999997 9999999999966432 22 2222232 334456788999999887666
Q ss_pred EEEecCCCCceeeechhhhhcceEEEccCCEE
Q 015264 271 FVVLDSPNMEFLFGLDMLRKHQCIIDLKENVL 302 (410)
Q Consensus 271 ~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l 302 (410)
+.+.+..+ +.|||+.||.+++..|||+++++
T Consensus 77 v~~~~~~~-~~LLG~~~L~~l~l~id~~~~~~ 107 (107)
T TIGR03698 77 VESLGYVD-EPLLGTELLEGLGIVIDYRNQGL 107 (107)
T ss_pred EEecCCCC-ccEecHHHHhhCCEEEehhhCcC
Confidence 55555444 89999999999999999998764
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=99.37 E-value=2.7e-12 Score=102.81 Aligned_cols=72 Identities=11% Similarity=0.307 Sum_probs=68.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|.|+|++.+|+.+.+.|.+++|+..||..++.+.|+|+++|+|+|+|+.|.++.|+++|||++||+|+++..
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 578899999999999999999999999999999999999999999999999999999999999999999743
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=99.35 E-value=2e-12 Score=100.56 Aligned_cols=63 Identities=22% Similarity=0.334 Sum_probs=58.0
Q ss_pred eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecC-CCCcccccCCC-CCCeEEEE
Q 015264 7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVK-DEDLVMMV 70 (410)
Q Consensus 7 ~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-d~~tL~~~gI~-~g~~i~l~ 70 (410)
...|.++.+++++++||++||.+|+.++|+|+++|+| |+|+.|. |+.+|++|||+ +|+++||-
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 4468899999999999999999999999999999999 9999986 66899999998 88999984
No 44
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=99.32 E-value=9.2e-13 Score=113.36 Aligned_cols=70 Identities=30% Similarity=0.576 Sum_probs=68.9
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|+|++..++++.+++.++.||..+|++|+...|||+++|||||.|+.|.|+.||+||+|+..++|||+
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~ 70 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEE
Confidence 8999999999999999999999999999999999999999999999999999999999999999999998
No 45
>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=99.24 E-value=2.8e-11 Score=91.69 Aligned_cols=68 Identities=32% Similarity=0.556 Sum_probs=63.8
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 4 ~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+..+|+.+.++++++.||.+||.+|+..+|+|+++|+|+|+|+.|+|+.+|++|++++|+.|++..
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 36777899999999999999999999999999999999999999999999999999999999999863
No 46
>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=99.17 E-value=2.8e-10 Score=87.60 Aligned_cols=91 Identities=33% Similarity=0.491 Sum_probs=69.3
Q ss_pred EEeEecCEeEEEeecCCCcccccCHHHHHHcCC-ccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCC
Q 015264 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGL-LRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSP 277 (410)
Q Consensus 199 ~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl-~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~ 277 (410)
+.|.+||+++.+|+||||+.++++..++++.++ .....................+.+..+.+.+++..+...|.+++..
T Consensus 1 ~~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 80 (92)
T cd00303 1 LKGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTIGIGGKTFTVDFYVLDLL 80 (92)
T ss_pred CEEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCcEEEEEEEEeCCEEEEEEEEEEcCC
Confidence 468899999999999999999999999999987 3333322222222212334444446678899999999999999988
Q ss_pred CCceeeechhhh
Q 015264 278 NMEFLFGLDMLR 289 (410)
Q Consensus 278 ~~d~iLG~D~L~ 289 (410)
.+++|||+|||+
T Consensus 81 ~~~~ilG~~~l~ 92 (92)
T cd00303 81 SYDVILGRPWLE 92 (92)
T ss_pred CcCEEecccccC
Confidence 999999999985
No 47
>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=99.16 E-value=9.9e-11 Score=90.13 Aligned_cols=70 Identities=21% Similarity=0.451 Sum_probs=65.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCc-CCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~-~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|+|++.+|+.+.+.|.+++++..|++.++...|+|+ +.++|+|+|+.|.++.|+++|||++||+|+|+
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 48
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.15 E-value=6e-11 Score=79.38 Aligned_cols=36 Identities=44% Similarity=0.682 Sum_probs=33.8
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
++++|++|++|||++++|++||++++||+++|++||
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 578999999999999999999999999999999997
No 49
>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=99.14 E-value=6.8e-11 Score=97.20 Aligned_cols=74 Identities=15% Similarity=0.126 Sum_probs=61.8
Q ss_pred EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHh-----CCC--cCCeEEEeCCeecCCCCcccccC------CCCCCeE
Q 015264 2 RITVMTADEQ-IISLDVDPHETVENVKALLEVET-----QVP--LQQQQLLYNGREMNNAEKLSALG------VKDEDLV 67 (410)
Q Consensus 2 ~I~vk~~~g~-~~~iev~~~~TV~~LK~~I~~~~-----gip--~~~q~Li~~Gk~L~d~~tL~~~g------I~~g~~i 67 (410)
.|.+|..+|. +-...+++++||.+||++|++.. ++| +++|+|||.||+|+|++||++|+ +....|+
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 4667777774 34567889999999999999555 455 99999999999999999999999 7778999
Q ss_pred EEEecCCC
Q 015264 68 MMVSNAAS 75 (410)
Q Consensus 68 ~l~~~~~~ 75 (410)
||+..++.
T Consensus 86 Hvvlr~~~ 93 (113)
T cd01814 86 HVVVQPPL 93 (113)
T ss_pred EEEecCCC
Confidence 99976654
No 50
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=99.11 E-value=2.5e-10 Score=103.07 Aligned_cols=97 Identities=22% Similarity=0.263 Sum_probs=75.4
Q ss_pred eeEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccc-cccceeeEeeCCCcceeeeEEEEEeEEEcCEEE-EEEE
Q 015264 194 VVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRL-LDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-PCSF 271 (410)
Q Consensus 194 ~~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~-~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~-~~~~ 271 (410)
--|.++++.|||++|++||||||+...++.+.|+|+|+..- .+..+.. .-..|.. ....|....|+||+..+ .+..
T Consensus 103 ~GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~v-~TANG~~-~AA~V~Ld~v~IG~I~~~nV~A 180 (215)
T COG3577 103 DGHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITV-STANGRA-RAAPVTLDRVQIGGIRVKNVDA 180 (215)
T ss_pred CCcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceEE-EccCCcc-ccceEEeeeEEEccEEEcCchh
Confidence 34899999999999999999999999999999999999443 3323322 2222332 33457788999999666 6999
Q ss_pred EEecCC-CCceeeechhhhhcc
Q 015264 272 VVLDSP-NMEFLFGLDMLRKHQ 292 (410)
Q Consensus 272 ~Vl~~~-~~d~iLG~D~L~~~~ 292 (410)
.|++.. -...||||.||.+++
T Consensus 181 ~V~~~g~L~~sLLGMSfL~rL~ 202 (215)
T COG3577 181 MVAEDGALDESLLGMSFLNRLS 202 (215)
T ss_pred heecCCccchhhhhHHHHhhcc
Confidence 999744 567899999999986
No 51
>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=99.10 E-value=5.7e-10 Score=90.46 Aligned_cols=86 Identities=22% Similarity=0.238 Sum_probs=74.8
Q ss_pred EeEecC-EeEEEeecCCCcccccCHHHHHHcC---CccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEec
Q 015264 200 DMEVNG-IPLKAFVDSGAQSTIISKSCAERCG---LLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD 275 (410)
Q Consensus 200 ~v~Ing-~~v~alVDTGA~~s~is~~~a~~lg---l~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~ 275 (410)
+++||| ++++++|||||++|+|+.++++++| ..++..+.....+++.......|.+ .+.+++++..+++.|+|++
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 568999 9999999999999999999999999 7778888887788887788999984 5689999999999999999
Q ss_pred CCCCceeeechh
Q 015264 276 SPNMEFLFGLDM 287 (410)
Q Consensus 276 ~~~~d~iLG~D~ 287 (410)
.. ..-|||.+.
T Consensus 81 ~~-~~~lLG~~~ 91 (93)
T cd05481 81 EE-GPPLLGAKA 91 (93)
T ss_pred CC-CCceEcccc
Confidence 65 456888764
No 52
>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=99.09 E-value=2.4e-10 Score=91.29 Aligned_cols=60 Identities=22% Similarity=0.352 Sum_probs=56.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCC-CcccccCCCCCCeEEEEec
Q 015264 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~-~tL~~~gI~~g~~i~l~~~ 72 (410)
..++|++++||.+||.+|...++++|++|+|+|+|+.|.|+ +||++|||..|++|+|...
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 56889999999999999999999999999999999999876 8999999999999999864
No 53
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=99.02 E-value=4.7e-10 Score=75.43 Aligned_cols=37 Identities=38% Similarity=0.627 Sum_probs=35.4
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 373 EAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
++.|++|++|||++++|++||++++||++.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 5789999999999999999999999999999999985
No 54
>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=99.02 E-value=2.7e-09 Score=93.07 Aligned_cols=98 Identities=19% Similarity=0.263 Sum_probs=80.4
Q ss_pred EEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEec
Q 015264 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD 275 (410)
Q Consensus 196 ~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~ 275 (410)
-.-++..|+|.++++|+||||-.|||+++.+++|+|+......+.-....-+.......+-.+++.+.+..+...++|++
T Consensus 34 T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~~~~~tsEAv~ld~~i~n~~i~i~aYV~d 113 (177)
T PF12384_consen 34 TAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSGESATTSEAVTLDFYIDNKLIDIAAYVTD 113 (177)
T ss_pred EEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccCCceEEEEeEEEEEEECCeEEEEEEEEec
Confidence 34567789999999999999999999999999999977665444333333234555666666799999999999999999
Q ss_pred CCCCceeeechhhhhcce
Q 015264 276 SPNMEFLFGLDMLRKHQC 293 (410)
Q Consensus 276 ~~~~d~iLG~D~L~~~~~ 293 (410)
..++|+|+|..+|++|.-
T Consensus 114 ~m~~dlIIGnPiL~ryp~ 131 (177)
T PF12384_consen 114 NMDHDLIIGNPILDRYPT 131 (177)
T ss_pred cCCcceEeccHHHhhhHH
Confidence 999999999999999863
No 55
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=99.01 E-value=1.2e-09 Score=84.27 Aligned_cols=66 Identities=30% Similarity=0.342 Sum_probs=53.7
Q ss_pred cceeEEEEEeEecCEeEEEeecCCCcccccCHHHHHHcCCcccccc-ceeeEeeCCCcceeeeEEEE
Q 015264 192 ARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQSEILGRIHV 257 (410)
Q Consensus 192 ~~~~~ly~~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~-~~~~~~~g~g~~~~~g~i~~ 257 (410)
.....+|+.|.|||+.+.+||||||++||||.++|+|||+...... +.....++.....+.|.++.
T Consensus 4 ~~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~~~ 70 (72)
T PF13975_consen 4 PDPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVAEN 70 (72)
T ss_pred ccCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEEEe
Confidence 3456899999999999999999999999999999999999776665 45555555556677776664
No 56
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=99.01 E-value=5.9e-10 Score=74.51 Aligned_cols=36 Identities=44% Similarity=0.801 Sum_probs=34.8
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 373 EAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
+++|++|++|||++++|++||++++||+++|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 678999999999999999999999999999999997
No 57
>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=98.98 E-value=2.8e-09 Score=84.72 Aligned_cols=71 Identities=14% Similarity=0.266 Sum_probs=58.6
Q ss_pred EEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE-eCCe-----ec-CCCCcccccCCCCCCeEEEEec
Q 015264 2 RITVMTADE-QIISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGR-----EM-NNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 2 ~I~vk~~~g-~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li-~~Gk-----~L-~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
+|.|+.... ......+++++||.+||++++..+|+|++.|+|. |.|+ .| +|+++|+.||+++|+.|||+..
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 566776442 2234459999999999999999999999999995 8888 46 4668999999999999999854
No 58
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=5.1e-09 Score=112.84 Aligned_cols=73 Identities=21% Similarity=0.440 Sum_probs=69.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCCC
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS 75 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~~ 75 (410)
.|+||+++.++.++.|...+||.+||..|.++.+|+.+.|||||.||+|.|++++.+||| +|.+|||+.++++
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 9999999976554
No 59
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.80 E-value=1.8e-08 Score=80.55 Aligned_cols=72 Identities=19% Similarity=0.325 Sum_probs=57.8
Q ss_pred EEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC----Ce---ecC-CCCcccccCCCCCCeEEEEe
Q 015264 2 RITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN----GR---EMN-NAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 2 ~I~vk~~~g--~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~----Gk---~L~-d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+|.+... ......++.++||.+||.+|+..+|+|++.|+|.+. +. .+. |..+|..||+++|++|||.-
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 577887654 478889999999999999999999999999999864 22 243 46899999999999999985
Q ss_pred cC
Q 015264 72 NA 73 (410)
Q Consensus 72 ~~ 73 (410)
..
T Consensus 83 ~~ 84 (87)
T PF14560_consen 83 TN 84 (87)
T ss_dssp -T
T ss_pred CC
Confidence 43
No 60
>PLN02560 enoyl-CoA reductase
Probab=98.75 E-value=2.4e-08 Score=97.86 Aligned_cols=71 Identities=23% Similarity=0.371 Sum_probs=64.0
Q ss_pred CEEEEEeCCCCEE---EEEeCCCCCHHHHHHHHHHHhCC-CcCCeEEEeC---C----eecCCCCcccccCCCCCCeEEE
Q 015264 1 MRITVMTADEQII---SLDVDPHETVENVKALLEVETQV-PLQQQQLLYN---G----REMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 1 M~I~vk~~~g~~~---~iev~~~~TV~~LK~~I~~~~gi-p~~~q~Li~~---G----k~L~d~~tL~~~gI~~g~~i~l 69 (410)
|+|+|+..+|+.+ +++++++.||+|||..|+++.++ ++++|||++. | +.|+|+++|+++|+++|++|++
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 8999998888887 79999999999999999999986 8999999972 4 4889999999999999999988
Q ss_pred Ee
Q 015264 70 VS 71 (410)
Q Consensus 70 ~~ 71 (410)
..
T Consensus 81 kD 82 (308)
T PLN02560 81 KD 82 (308)
T ss_pred Ee
Confidence 64
No 61
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=1.7e-07 Score=78.28 Aligned_cols=93 Identities=20% Similarity=0.244 Sum_probs=74.2
Q ss_pred EEEeecCCCc-ccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCCCceeeech
Q 015264 208 LKAFVDSGAQ-STIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLD 286 (410)
Q Consensus 208 v~alVDTGA~-~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~iLG~D 286 (410)
..+|||||++ ..+++++.|+++|+..+-..+....+.| .....++.+.++|+|........+.+....+ ++|++
T Consensus 27 ~~~LiDTGFtg~lvlp~~vaek~~~~~~~~~~~~~a~~~----~v~t~V~~~~iki~g~e~~~~Vl~s~~~~~~-liG~~ 101 (125)
T COG5550 27 YDELIDTGFTGYLVLPPQVAEKLGLPLFSTIRIVLADGG----VVKTSVALATIKIDGVEKVAFVLASDNLPEP-LIGVN 101 (125)
T ss_pred eeeEEecCCceeEEeCHHHHHhcCCCccCChhhhhhcCC----EEEEEEEEEEEEECCEEEEEEEEccCCCccc-chhhh
Confidence 3448999999 9999999999999966544333222222 5566788889999998887777777777677 99999
Q ss_pred hhhhcceEEEccCCEEEEC
Q 015264 287 MLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 287 ~L~~~~~~ID~~~~~l~i~ 305 (410)
||+..+..+|.+.++|+-.
T Consensus 102 ~lk~l~~~vn~~~g~LEk~ 120 (125)
T COG5550 102 LLKLLGLVVNPKTGKLEKP 120 (125)
T ss_pred hhhhccEEEcCCcceEecc
Confidence 9999999999999998753
No 62
>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=98.61 E-value=1.3e-07 Score=73.91 Aligned_cols=68 Identities=21% Similarity=0.337 Sum_probs=54.5
Q ss_pred EEEEEeCC-CCEEEEEe-CCCCCHHHHHHHHHHHhC-CCcCCeEEE--eCCeecCCCCcccccCCCCCCeEEE
Q 015264 2 RITVMTAD-EQIISLDV-DPHETVENVKALLEVETQ-VPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 2 ~I~vk~~~-g~~~~iev-~~~~TV~~LK~~I~~~~g-ip~~~q~Li--~~Gk~L~d~~tL~~~gI~~g~~i~l 69 (410)
.|.++..+ .....+++ +++.||.+||..|+...+ +++++|||. +.|+.|.|+.+|++|||++|++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 35555544 33333444 488999999999999986 589999985 8999999999999999999999987
No 63
>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=98.59 E-value=1.4e-07 Score=77.40 Aligned_cols=72 Identities=19% Similarity=0.261 Sum_probs=61.8
Q ss_pred CEEEEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCC-------CCCCeEEEEec
Q 015264 1 MRITVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV-------KDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~-g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI-------~~g~~i~l~~~ 72 (410)
|-+++.... ..++.+++.++.||-+||.+|+.....||++|+|+..+.+|+|++||++||+ +...+|-|.-+
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 566776554 4457789999999999999999999999999999988899999999999999 66778777644
No 64
>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=98.58 E-value=1.4e-07 Score=74.87 Aligned_cols=79 Identities=23% Similarity=0.338 Sum_probs=60.3
Q ss_pred eEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcC-EEEEEEEEEecCCCCceeeec
Q 015264 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN-VFYPCSFVVLDSPNMEFLFGL 285 (410)
Q Consensus 207 ~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~-~~~~~~~~Vl~~~~~d~iLG~ 285 (410)
.+++||||||.+|+|.....++- .....+...+++....++.| .+...+.+|. ..+...|.|.+-. ..|||.
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 47899999999999998887753 22333344455534568899 4555899997 5899999998864 479999
Q ss_pred hhhhhcc
Q 015264 286 DMLRKHQ 292 (410)
Q Consensus 286 D~L~~~~ 292 (410)
|||++|+
T Consensus 82 DfL~~~~ 88 (89)
T cd06094 82 DFLQHYG 88 (89)
T ss_pred HHHHHcC
Confidence 9999986
No 65
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.56 E-value=5e-07 Score=68.23 Aligned_cols=70 Identities=29% Similarity=0.549 Sum_probs=65.9
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
+++++..|+.+.+++.+..++..+|.+|+...|++.++|++.|.|+.|.|+.+|.+|+|..+.+++++..
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 5677778999999999999999999999999999999999999999999999999999999999998754
No 66
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=98.54 E-value=6.1e-07 Score=74.92 Aligned_cols=74 Identities=22% Similarity=0.336 Sum_probs=55.1
Q ss_pred EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHh-------CCCcCCeEEEeCCeecCCCCcccccCCCCCC------eE
Q 015264 2 RITVMTADEQ-IISLDVDPHETVENVKALLEVET-------QVPLQQQQLLYNGREMNNAEKLSALGVKDED------LV 67 (410)
Q Consensus 2 ~I~vk~~~g~-~~~iev~~~~TV~~LK~~I~~~~-------gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~------~i 67 (410)
.|+++..+|+ +..+..++++||.+||+.|..+. -..++.+||||.||+|+|..||+++++..|+ ++
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 4566677898 78889999999999999998753 1234689999999999999999999998877 57
Q ss_pred EEEecCCC
Q 015264 68 MMVSNAAS 75 (410)
Q Consensus 68 ~l~~~~~~ 75 (410)
||+.++..
T Consensus 84 Hlvvrp~~ 91 (111)
T PF13881_consen 84 HLVVRPNA 91 (111)
T ss_dssp EEEE-SSS
T ss_pred EEEecCCC
Confidence 88765543
No 67
>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=98.49 E-value=1.9e-07 Score=73.40 Aligned_cols=69 Identities=25% Similarity=0.453 Sum_probs=43.1
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC--C-eec--CCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--G-REM--NNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~--G-k~L--~d~~tL~~~gI~~g~~i~l~ 70 (410)
|-|.|++.+|- +.|++++++|+.+||++|++.+++|.+.|.|+.+ + ..| .+.+||+++||+.||+|+|.
T Consensus 5 milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 56788886654 6789999999999999999999999999988642 2 344 35689999999999999984
No 68
>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=98.46 E-value=5.8e-07 Score=82.07 Aligned_cols=108 Identities=16% Similarity=0.270 Sum_probs=77.6
Q ss_pred eEEEEEeEe--cC---EeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCC-C-cceeeeEEEEEeEEEcCEEE
Q 015264 195 VMLYVDMEV--NG---IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGV-G-QSEILGRIHVAPIKIGNVFY 267 (410)
Q Consensus 195 ~~ly~~v~I--ng---~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~-g-~~~~~g~i~~~~l~ig~~~~ 267 (410)
+..||.+++ .| ..+.++|||||++.+++..+.-.-.+... .......|. | ...+.-++....+.|++..|
T Consensus 3 NsiyI~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~we~~---~~~i~v~~an~~~~~i~~~~~~~~i~I~~~~F 79 (201)
T PF02160_consen 3 NSIYIKVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEYWEKS---KKPIKVKGANGSIIQINKKAKNGKIQIADKIF 79 (201)
T ss_pred ccEEEEEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHHHHhC---CCcEEEEEecCCceEEEEEecCceEEEccEEE
Confidence 457777765 44 24788999999999887766433322111 112234443 3 46788888999999999999
Q ss_pred EEEEEEecCCCCceeeechhhhhcceEEEccCCEEEECC
Q 015264 268 PCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 268 ~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
..++.-.-..+.|+|||++|++.++-.+.+.+ .+.|-.
T Consensus 80 ~IP~iYq~~~g~d~IlG~NF~r~y~Pfiq~~~-~I~f~~ 117 (201)
T PF02160_consen 80 RIPTIYQQESGIDIILGNNFLRLYEPFIQTED-RIQFHK 117 (201)
T ss_pred eccEEEEecCCCCEEecchHHHhcCCcEEEcc-EEEEEe
Confidence 88776665578999999999999998898875 566643
No 69
>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=98.33 E-value=2.7e-06 Score=67.92 Aligned_cols=86 Identities=19% Similarity=0.184 Sum_probs=61.0
Q ss_pred EeEecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCCC
Q 015264 200 DMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNM 279 (410)
Q Consensus 200 ~v~Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~ 279 (410)
.++|+|+++.+|+||||+.|+|+...+.+--- ... ......|+|...-.-+...+.+++.+.....++.|.+..-.
T Consensus 2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~p~~w~--~~~--~~~~i~GIGG~~~~~~~~~v~i~i~~~~~~g~vlv~~~~~P 77 (87)
T cd05482 2 TLYINGKLFEGLLDTGADVSIIAENDWPKNWP--IQP--APSNLTGIGGAITPSQSSVLLLEIDGEGHLGTILVYVLSLP 77 (87)
T ss_pred EEEECCEEEEEEEccCCCCeEEcccccCCCCc--cCC--CCeEEEeccceEEEEEEeeEEEEEcCCeEEEEEEEccCCCc
Confidence 57899999999999999999999865543321 011 12356677754444445567899999888888888875334
Q ss_pred ceeeechhhh
Q 015264 280 EFLFGLDMLR 289 (410)
Q Consensus 280 d~iLG~D~L~ 289 (410)
.-|||-|+|.
T Consensus 78 ~nllGRd~L~ 87 (87)
T cd05482 78 VNLWGRDILS 87 (87)
T ss_pred ccEEccccCC
Confidence 5699998873
No 70
>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=98.32 E-value=2.8e-06 Score=61.07 Aligned_cols=67 Identities=30% Similarity=0.436 Sum_probs=60.8
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+..++....+.+.++.|+.+||..|..++|++++.++|+++|..+.+...+.++++.+|++|++..
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3444688888999999999999999999999999999999999999999888999999999999864
No 71
>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=98.27 E-value=3.1e-06 Score=75.70 Aligned_cols=70 Identities=17% Similarity=0.147 Sum_probs=43.1
Q ss_pred EeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEE-EEEeEEEcCEEEEEEEEEec
Q 015264 206 IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI-HVAPIKIGNVFYPCSFVVLD 275 (410)
Q Consensus 206 ~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i-~~~~l~ig~~~~~~~~~Vl~ 275 (410)
+++++|+|||||.|+|+.++|++|+|.....+.......|....+....+ ..+.+++++..+.+.+.+++
T Consensus 11 ~~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~i~alvv~ 81 (164)
T PF05585_consen 11 VEARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTFGSSSPKSKKCVRVKISSRTSNNSLEIEALVVP 81 (164)
T ss_pred EEEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEeccCccCccceeEEEEEEEEecCCCceEEEEEecC
Confidence 36899999999999999999999999644332221112222122222221 12345566655777777665
No 72
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=8.1e-06 Score=82.34 Aligned_cols=72 Identities=24% Similarity=0.305 Sum_probs=66.2
Q ss_pred EEEEEeCCCCEEEEE-eCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 2 RITVMTADEQIISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 2 ~I~vk~~~g~~~~ie-v~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
.|.||+ .|+.|.++ ++.+.|+.+||+++...+|++|++|++++.|+.+.|+--+..++|++|.+|+++-...
T Consensus 5 ~v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e 77 (473)
T KOG1872|consen 5 TVIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE 77 (473)
T ss_pred eEeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence 367787 78999998 9999999999999999999999999999999999999889999999999999995544
No 73
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=2.2e-06 Score=62.92 Aligned_cols=68 Identities=12% Similarity=0.129 Sum_probs=59.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l 69 (410)
++.+...-|+...+...+++||+|||.+|+.++|..++..+|--.+.+++|.-+|++|.|++|--+.+
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 34555555999999999999999999999999999999999987788999999999999999987655
No 74
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=1e-05 Score=77.43 Aligned_cols=70 Identities=16% Similarity=0.353 Sum_probs=62.5
Q ss_pred CEEEEEeCC-C--CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTAD-E--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~-g--~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|.+.|.... | ..++++|+.+.+|.+||+.++.+.|+|+++.++||.||.|.|+.|+..+.+..-+.+|++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence 677887742 2 337889999999999999999999999999999999999999999999988888888888
No 75
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=2.5e-05 Score=81.59 Aligned_cols=40 Identities=38% Similarity=0.572 Sum_probs=38.2
Q ss_pred CChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 370 ADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 370 ~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
..+|+.++.|++|||++.||+.||++++||+|||++|+|+
T Consensus 633 ~~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~ 672 (763)
T KOG0944|consen 633 EVDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFS 672 (763)
T ss_pred CCChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 5678999999999999999999999999999999999996
No 76
>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=97.67 E-value=4.2e-05 Score=77.13 Aligned_cols=41 Identities=39% Similarity=0.536 Sum_probs=38.4
Q ss_pred CCChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 369 GADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 369 ~~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
+.+..++|++|++|||+|..|++|-.||+.|.|.|++|||.
T Consensus 334 T~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~ 374 (378)
T TIGR00601 334 TPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLS 374 (378)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHh
Confidence 45667899999999999999999999999999999999995
No 77
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.59 E-value=0.00015 Score=56.85 Aligned_cols=69 Identities=23% Similarity=0.337 Sum_probs=50.0
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC------CeEEE-eCCeecCCCCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ------QQQLL-YNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~------~q~Li-~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
+|+|...+|+.+.+.++.+.+|.+|...|...++.+.. ..+|. -+|..|+++.||+++||.+|++|+|.
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 56777755688999999999999999999998876432 35666 67999999999999999999999873
No 78
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=97.52 E-value=0.00018 Score=49.60 Aligned_cols=37 Identities=24% Similarity=0.373 Sum_probs=32.1
Q ss_pred HHHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 373 EAKVAKLVEL-GFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 373 e~~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
+++|+++|+. |.+++.|+..|++++||+++|++..|.
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 5789999995 999999999999999999999998773
No 79
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=0.00076 Score=54.38 Aligned_cols=70 Identities=13% Similarity=0.340 Sum_probs=63.1
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
+.|+.-++....+.|..++.+..|+..-+...|++.+..|++|+|+.++...|=++++.++||.|-++..
T Consensus 23 LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~ 92 (99)
T KOG1769|consen 23 LKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQE 92 (99)
T ss_pred EEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEee
Confidence 4455545777788999999999999999999999999999999999999999999999999999999854
No 80
>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=97.47 E-value=0.00086 Score=51.04 Aligned_cols=71 Identities=15% Similarity=0.290 Sum_probs=60.6
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC---C--eecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN---G--REMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~---G--k~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
++|+|+-.++..+.+.|+|..+|..+|++|....+++- .|||.|. | +.|.+..+|++|||=.+-.|.|+..
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 47999987888899999999999999999999999886 9999983 3 3577889999999987777777643
No 81
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=97.37 E-value=0.00026 Score=56.30 Aligned_cols=62 Identities=21% Similarity=0.277 Sum_probs=51.1
Q ss_pred CEEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe-CC-eecCCCCcccccCCC
Q 015264 1 MRITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY-NG-REMNNAEKLSALGVK 62 (410)
Q Consensus 1 M~I~vk~~-~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~-~G-k~L~d~~tL~~~gI~ 62 (410)
|.++++.. +..++.++..++.||-+||.+++..+.-|++.|||+. .. .+|.|.+||+++|..
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 45555543 3556788999999999999999999999999999986 33 678899999999653
No 82
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=97.18 E-value=0.00055 Score=46.88 Aligned_cols=38 Identities=29% Similarity=0.365 Sum_probs=34.5
Q ss_pred HHHHHHHHhc--CCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 373 EAKVAKLVEL--GFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 373 e~~i~~l~~m--Gf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
++.|++|.+| .++++....+|++++||+|.|++.|+.|
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 6789999999 8999999999999999999999999864
No 83
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.14 E-value=0.0033 Score=49.33 Aligned_cols=69 Identities=17% Similarity=0.319 Sum_probs=60.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCC-eEEE--eCCeecCCC--CcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQ-QQLL--YNGREMNNA--EKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~-q~Li--~~Gk~L~d~--~tL~~~gI~~g~~i~l~ 70 (410)
+|.||.++|+.+.-....++||.+|...|......+... ..|+ |-.+.|.++ .||+++|+.++.+|+|.
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 588999999999889999999999999999988777765 7886 677888754 69999999999999884
No 84
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00052 Score=61.31 Aligned_cols=42 Identities=31% Similarity=0.301 Sum_probs=39.7
Q ss_pred CCChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 369 GADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 369 ~~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
+..+..+|..|.+|||+|+.++.+|+..+||.+.|.+.||+|
T Consensus 159 ~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 159 DPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred CchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 566788999999999999999999999999999999999987
No 85
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.00 E-value=0.0034 Score=47.77 Aligned_cols=69 Identities=12% Similarity=0.232 Sum_probs=56.4
Q ss_pred CEEEEEe--CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCc-----CCeEEEeCCeecCCCCcccccCCCCCCeEEE
Q 015264 1 MRITVMT--ADEQIISLDVDPHETVENVKALLEVETQVPL-----QQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 1 M~I~vk~--~~g~~~~iev~~~~TV~~LK~~I~~~~gip~-----~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l 69 (410)
|+|||-. -+|++|.+.++.-.++..|-..+.+...+.. .+.|..-++++|.++..|.+|||.+||.+.+
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 3555543 3599999999999999999988887665422 4678889999999999999999999999875
No 86
>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=96.93 E-value=0.0022 Score=52.26 Aligned_cols=58 Identities=26% Similarity=0.369 Sum_probs=44.5
Q ss_pred EEEEEeCCC-CEEEEEeC--CCCCHHHHHHHHHHHhC--CCcCCeEEEeCCeecCCCCccccc
Q 015264 2 RITVMTADE-QIISLDVD--PHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSAL 59 (410)
Q Consensus 2 ~I~vk~~~g-~~~~iev~--~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~d~~tL~~~ 59 (410)
.|+|++.++ --..++|+ ...||..||.+|....+ ..-..+||||+||.|.|...|+..
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence 367787652 12566776 88999999999999983 333578999999999998777665
No 87
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.93 E-value=0.0058 Score=47.86 Aligned_cols=69 Identities=12% Similarity=0.168 Sum_probs=58.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l~ 70 (410)
+|.||..+|+.+......++||.+|.+.|....+.......|+ |-.|.+.+ +.||.++|+....+|.|.
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 5889999999999999999999999999976666666677886 67788874 479999999999888773
No 88
>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=96.89 E-value=0.0043 Score=46.69 Aligned_cols=63 Identities=10% Similarity=0.078 Sum_probs=46.7
Q ss_pred eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEE
Q 015264 7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 7 ~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l 69 (410)
+.+++.+.+.+.++.++.++-+....++++.+++..|.|++|.|+-..++.-.|+.+|+.+.|
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 457889999999999999999999999999999999999999999999999999999998864
No 89
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=96.88 E-value=0.001 Score=64.66 Aligned_cols=41 Identities=39% Similarity=0.514 Sum_probs=38.0
Q ss_pred CCChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 369 GADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 369 ~~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
.++..++|.+|.+|||+|.-|++|-=||+-|.+.|++|||+
T Consensus 295 tpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~ 335 (340)
T KOG0011|consen 295 TPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLS 335 (340)
T ss_pred CHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 45567899999999999999999999999999999999996
No 90
>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=96.68 E-value=0.015 Score=46.87 Aligned_cols=83 Identities=18% Similarity=0.252 Sum_probs=57.8
Q ss_pred eEEEeecCCCcccccCHHHHHHcCCcccccccee-eEe-eCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCCCceeee
Q 015264 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVA-HGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFG 284 (410)
Q Consensus 207 ~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~-~~~-~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~iLG 284 (410)
.+..|+|||||.++|..+.++.-.|... .|. .+. .||=..++--+.....+.+.|..+...|.|+..-....-+.
T Consensus 47 sipclidtgaq~niiteetvrahklptr---pw~~sviyggvyp~kinrkt~kl~i~lngisikteflvvkkfshpaais 123 (137)
T PF12382_consen 47 SIPCLIDTGAQVNIITEETVRAHKLPTR---PWSQSVIYGGVYPNKINRKTIKLNINLNGISIKTEFLVVKKFSHPAAIS 123 (137)
T ss_pred cceeEEccCceeeeeehhhhhhccCCCC---cchhheEeccccccccccceEEEEEEecceEEEEEEEEEEeccCcceEE
Confidence 3567999999999999999998887322 222 122 33334567666777788899999999999998655555555
Q ss_pred chhhhhcc
Q 015264 285 LDMLRKHQ 292 (410)
Q Consensus 285 ~D~L~~~~ 292 (410)
...|-..+
T Consensus 124 fttlydnn 131 (137)
T PF12382_consen 124 FTTLYDNN 131 (137)
T ss_pred EEEEeeCc
Confidence 54444333
No 91
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=96.67 E-value=0.0044 Score=42.52 Aligned_cols=38 Identities=21% Similarity=0.379 Sum_probs=34.9
Q ss_pred HHHHHHHHhc--CCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 373 EAKVAKLVEL--GFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 373 e~~i~~l~~m--Gf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
++.|..|.+| .++++.++..|++++||+|.|++.|+.|
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 5789999999 7789999999999999999999999875
No 92
>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=96.62 E-value=0.016 Score=44.94 Aligned_cols=66 Identities=14% Similarity=0.315 Sum_probs=53.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMM 69 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l 69 (410)
+|.||.++|+.+.-....++||++|.+.|.....- .....|+ |-.|.+.+ +.||+++|+.+ +++.+
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 58899999999888999999999999999876543 4567776 66788865 58999999994 55544
No 93
>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=96.62 E-value=0.014 Score=45.62 Aligned_cols=68 Identities=16% Similarity=0.315 Sum_probs=56.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l~ 70 (410)
+|.||..+|+.+.-..+.++|+.++.+.|....+.. ....|+ |-.|.+.+ +.||.++|+.+..+|+|-
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 578999999998889999999999999998765433 556776 77888864 489999999999998874
No 94
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=96.39 E-value=0.0068 Score=56.74 Aligned_cols=71 Identities=17% Similarity=0.269 Sum_probs=54.8
Q ss_pred CEEEEEeCCC-CEEE-EEeCCCCCHHHHHHHHH-HHhCCCcCCeEEE----eCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADE-QIIS-LDVDPHETVENVKALLE-VETQVPLQQQQLL----YNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g-~~~~-iev~~~~TV~~LK~~I~-~~~gip~~~q~Li----~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|++...++ -..+ .+++...|+.|++..+. ....+.+..+|+. -+|+.|.|+.+|++||..+|++|.+..
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vKD 78 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVKD 78 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEec
Confidence 8899988765 3344 67888999999996555 4556777555443 479999999999999999999988753
No 95
>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=96.31 E-value=0.026 Score=44.21 Aligned_cols=65 Identities=12% Similarity=0.206 Sum_probs=53.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCC-cCCeEEE--eCCeecCC-CCcccccCCCCCCe
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVP-LQQQQLL--YNGREMNN-AEKLSALGVKDEDL 66 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip-~~~q~Li--~~Gk~L~d-~~tL~~~gI~~g~~ 66 (410)
+|-||..+|+.+......++||.+|.+.|....+-+ .....|. |-.|.|.| +.||+++|+.+..+
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v 74 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVI 74 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEE
Confidence 578999999999999999999999999999876432 3456776 77888876 58999999986443
No 96
>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=96.13 E-value=0.046 Score=43.08 Aligned_cols=68 Identities=13% Similarity=0.243 Sum_probs=59.5
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l~ 70 (410)
+|.||.++|+...-....+.++.+|...|.. .|.+++...|+ |--|++.. +.||.++|+.+..+|.|-
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 6889999999998899999999999999998 57788899998 66777753 479999999999999885
No 97
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=96.10 E-value=0.011 Score=49.49 Aligned_cols=40 Identities=23% Similarity=0.161 Sum_probs=36.3
Q ss_pred ChHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 371 DFEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 371 ~~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
.++++|+-+++ -|.+|++|++||+.|+||+-.|+-+|-++
T Consensus 75 i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~~ 115 (115)
T PRK06369 75 IPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSSE 115 (115)
T ss_pred CCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhcC
Confidence 45899999999 59999999999999999999999998653
No 98
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=95.85 E-value=0.015 Score=48.51 Aligned_cols=38 Identities=18% Similarity=0.134 Sum_probs=34.8
Q ss_pred ChHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 371 DFEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 371 ~~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
.++++|.-+++ -|.+|++|++||++|+||.-.|+-+|-
T Consensus 77 i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 77 ITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 45899999999 599999999999999999999998874
No 99
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.032 Score=50.97 Aligned_cols=74 Identities=19% Similarity=0.273 Sum_probs=57.5
Q ss_pred EEEEEeCCCCE-EEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE-eCC-----eecCC-CCcccccCCCCCCeEEEEecC
Q 015264 2 RITVMTADEQI-ISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNG-----REMNN-AEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 2 ~I~vk~~~g~~-~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li-~~G-----k~L~d-~~tL~~~gI~~g~~i~l~~~~ 73 (410)
+|.|.+..-+. .....+.++||.+||.+++..+|.+++..+|. |.| ..|.| +..|..|+..+|..||++-..
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 45565543332 34567899999999999999999999999885 655 34555 589999999999999999765
Q ss_pred CC
Q 015264 74 AS 75 (410)
Q Consensus 74 ~~ 75 (410)
+.
T Consensus 83 ~~ 84 (234)
T KOG3206|consen 83 AQ 84 (234)
T ss_pred cc
Confidence 44
No 100
>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=95.84 E-value=0.07 Score=42.40 Aligned_cols=68 Identities=10% Similarity=0.152 Sum_probs=56.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC--CeecC--------CCCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--GREMN--------NAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~--Gk~L~--------d~~tL~~~gI~~g~~i~l~ 70 (410)
+|.||.++|+.+.-....+.||++|...|... +..++...|+++ -|.+. .+.||++.|+....+|.|.
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 68899999999888899999999999999654 556678888854 47886 2579999999988888774
No 101
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.039 Score=43.68 Aligned_cols=69 Identities=13% Similarity=0.298 Sum_probs=60.7
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+.|..-+|..+.+.|..+++...|....+..-|-..+..|+.|+|+-++-++|=.+++..+++.|.++.
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 334444677788899999999999999999999999999999999999999999999999999886653
No 102
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=95.75 E-value=0.0093 Score=60.20 Aligned_cols=59 Identities=17% Similarity=0.231 Sum_probs=50.9
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 14 SLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
.++.+.+.|-.+|...|+.++||+.+-.+.|-+||+|.-.+||.+-|++...-+.|...
T Consensus 53 l~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 34566778889999999999999999899999999999999999999988776665543
No 103
>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=95.63 E-value=0.09 Score=41.27 Aligned_cols=68 Identities=12% Similarity=0.263 Sum_probs=58.3
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecC--C-CCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--d-~~tL~~~gI~~g~~i~l~ 70 (410)
+|.||.++|+...-....++++++|...|... |.++...+|+ |--|.+. | +.||.+.|+....+|.|-
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 67899999999888899999999999999875 7777888987 6678885 2 479999999999998874
No 104
>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=95.62 E-value=0.021 Score=42.14 Aligned_cols=41 Identities=29% Similarity=0.491 Sum_probs=33.1
Q ss_pred HHHHHHHhcCHH----HHHHHhhcCHHHHHHhccCCHHHHHHHHHH
Q 015264 94 AAFQQHIRNDAN----LMTQLFQSDPELAQVLLGNDLNKLQDLLRE 135 (410)
Q Consensus 94 ~~~~~~~~~nP~----~l~~l~~~nP~L~~ai~~~~~~~~~~~l~~ 135 (410)
..+|+.+.+||+ ++++|.++||+|.+.|. .|++.|-++|..
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 568999999985 57777789999999996 689988888753
No 105
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.019 Score=58.83 Aligned_cols=38 Identities=29% Similarity=0.519 Sum_probs=34.9
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCC-CHHHHHHhhhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDG-NEEQAAGFLFG 409 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~-n~~~A~~~l~~ 409 (410)
....|.+|++|||+.+.+.+||-++|| |.|.|++|||.
T Consensus 558 Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFq 596 (749)
T COG5207 558 NQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQ 596 (749)
T ss_pred hHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHh
Confidence 356899999999999999999999988 89999999985
No 106
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=95.31 E-value=0.037 Score=46.48 Aligned_cols=39 Identities=28% Similarity=0.271 Sum_probs=35.0
Q ss_pred CChHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 370 ADFEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 370 ~~~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
..+|++|+-.|+ -|.||++|+.||.++|||+-.|+--|.
T Consensus 82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 467999999999 599999999999999999999987764
No 107
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=95.28 E-value=0.019 Score=41.40 Aligned_cols=26 Identities=23% Similarity=0.480 Sum_probs=20.8
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFD 397 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~ 397 (410)
..+.|+++++|||+++.+++|||.-|
T Consensus 9 ~~~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 9 DKDLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred CHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence 35789999999999999999999865
No 108
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=95.04 E-value=0.022 Score=57.60 Aligned_cols=38 Identities=29% Similarity=0.291 Sum_probs=35.5
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 371 DFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 371 ~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
.++..|.+|+.|||++-.|+.||++++||++.|..+|+
T Consensus 428 vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~ 465 (568)
T KOG2561|consen 428 VDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLS 465 (568)
T ss_pred cchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHH
Confidence 35678999999999999999999999999999999986
No 109
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.96 E-value=0.053 Score=49.66 Aligned_cols=60 Identities=15% Similarity=0.213 Sum_probs=53.8
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEE
Q 015264 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVM 68 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~ 68 (410)
.++.+.+.+..-+|+.++|..+.+..|+.+-.|+++|+|++|-|...|..|+|..|....
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYv 214 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYV 214 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEE
Confidence 356677888889999999999999999999999999999999999999999999995433
No 110
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=94.87 E-value=0.16 Score=45.04 Aligned_cols=65 Identities=23% Similarity=0.300 Sum_probs=50.3
Q ss_pred CEEEEEeCCC----CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCe-EEEe-CCeec--CCCCcccccCCCCCC
Q 015264 1 MRITVMTADE----QIISLDVDPHETVENVKALLEVETQVPLQQQ-QLLY-NGREM--NNAEKLSALGVKDED 65 (410)
Q Consensus 1 M~I~vk~~~g----~~~~iev~~~~TV~~LK~~I~~~~gip~~~q-~Li~-~Gk~L--~d~~tL~~~gI~~g~ 65 (410)
|+|+|++.+| .++.+.+++++||.+|+..|....+++...+ .|.+ .++.| .++..++.+.-.+++
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 5788999999999999999999999998874 4554 34444 355667777554443
No 111
>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=94.85 E-value=0.088 Score=51.26 Aligned_cols=89 Identities=19% Similarity=0.455 Sum_probs=58.5
Q ss_pred EEEEeEec--CEeEEEeecCCCcccccCHHHHHHc---CCccccccc----e------eeEeeCCCcceeeeEEEEEeEE
Q 015264 197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERC---GLLRLLDDR----Y------RGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 197 ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~l---gl~~~~~~~----~------~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
.|++|.|+ +++++++||||+..+.+...-+..| ......+.. + .....|.| .+.|.+....|.
T Consensus 2 Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~~~~~~~~~y~~~~S~t~~~~~~~~~~~y~~g--~~~G~~~~D~v~ 79 (317)
T PF00026_consen 2 YYINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSCSSCASSGFYNPSKSSTFSNQGKPFSISYGDG--SVSGNLVSDTVS 79 (317)
T ss_dssp EEEEEEETTTTEEEEEEEETTBSSEEEEBTTECSHTHHCTSC-BBGGGSTTEEEEEEEEEEEETTE--EEEEEEEEEEEE
T ss_pred eEEEEEECCCCeEEEEEEecccceeeeceeccccccccccccccccccccccccceeeeeeeccCc--ccccccccceEe
Confidence 47899997 8999999999999887754332222 221111111 1 11223333 389999999999
Q ss_pred EcCEEEE-EEEEEecC--------CCCceeeechh
Q 015264 262 IGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (410)
Q Consensus 262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (410)
||+..+. ..|.++.. ...|+||||-+
T Consensus 80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg~ 114 (317)
T PF00026_consen 80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLGF 114 (317)
T ss_dssp ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-SS
T ss_pred eeeccccccceeccccccccccccccccccccccC
Confidence 9997775 67766653 35799999983
No 112
>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=94.75 E-value=0.14 Score=41.73 Aligned_cols=85 Identities=13% Similarity=0.296 Sum_probs=51.7
Q ss_pred EEeEecC--EeEEEeecCCCcccccCHHHHHHcCCcc--cc-c----------cceeeEeeCCCcceeeeEEEEEeEEEc
Q 015264 199 VDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLR--LL-D----------DRYRGVAHGVGQSEILGRIHVAPIKIG 263 (410)
Q Consensus 199 ~~v~Ing--~~v~alVDTGA~~s~is~~~a~~lgl~~--~~-~----------~~~~~~~~g~g~~~~~g~i~~~~l~ig 263 (410)
+++.|+. +++.+++|||++.+.+...-+..|+... .. + .....+..|-| ...|.+....|.||
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 3677875 8899999999998888766555444211 01 0 00111233434 34577778889998
Q ss_pred CEEE-EEEEEEecC--------CCCceeeec
Q 015264 264 NVFY-PCSFVVLDS--------PNMEFLFGL 285 (410)
Q Consensus 264 ~~~~-~~~~~Vl~~--------~~~d~iLG~ 285 (410)
+..+ ...|-++.. ...|.||||
T Consensus 79 ~~~~~~~~fg~~~~~~~~~~~~~~~~GilGL 109 (109)
T cd05470 79 DIEVVGQAFGCATDEPGATFLPALFDGILGL 109 (109)
T ss_pred CEEECCEEEEEEEecCCccccccccccccCC
Confidence 8654 355555531 346888886
No 113
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=94.65 E-value=0.16 Score=52.78 Aligned_cols=91 Identities=20% Similarity=0.411 Sum_probs=60.3
Q ss_pred eEEEEEeEec--CEeEEEeecCCCcccccCHHHHHH--cCCcccccc----------ceeeEeeCCCcceeeeEEEEEeE
Q 015264 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAER--CGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPI 260 (410)
Q Consensus 195 ~~ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~--lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~l 260 (410)
.+.|.+++|+ ++++++++|||+..+-+...-+.. |......+. ....+..|.| .+.|.+....|
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 4678899997 789999999999999885443322 222111221 1113345545 37899999999
Q ss_pred EEcCEEEEEEEEEec----------CCCCceeeechh
Q 015264 261 KIGNVFYPCSFVVLD----------SPNMEFLFGLDM 287 (410)
Q Consensus 261 ~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~ 287 (410)
.||+..++..|.++. ....|+||||-|
T Consensus 215 ~iG~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~ 251 (450)
T PTZ00013 215 TLGHLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGW 251 (450)
T ss_pred EECCEEEccEEEEEEeccccccceecccccceecccC
Confidence 999977765555442 124799999975
No 114
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=94.53 E-value=0.16 Score=37.06 Aligned_cols=56 Identities=18% Similarity=0.345 Sum_probs=42.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|+|+|. |+ .+++..+.|+.+||..+..... .+||||-+.+++. -+++||.|.+.++
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 566654 33 5788899999999998876432 7799998887764 5678999988765
No 115
>PTZ00147 plasmepsin-1; Provisional
Probab=94.39 E-value=0.23 Score=51.77 Aligned_cols=92 Identities=21% Similarity=0.355 Sum_probs=60.5
Q ss_pred eeEEEEEeEec--CEeEEEeecCCCcccccCHHHHHH--cCCcccccc----------ceeeEeeCCCcceeeeEEEEEe
Q 015264 194 VVMLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAER--CGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAP 259 (410)
Q Consensus 194 ~~~ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~--lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~ 259 (410)
-.+.|.+++|+ ++++.+++|||++.+-+...-+.. |......+. ....+..|-| .+.|.+-...
T Consensus 137 n~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~G--svsG~~~~Dt 214 (453)
T PTZ00147 137 NVMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIKCTTEGCETKNLYDSSKSKTYEKDGTKVEMNYVSG--TVSGFFSKDL 214 (453)
T ss_pred CCEEEEEEEECCCCeEEEEEEeCCCCcEEEeecCCCcccccCCCccCCccCcceEECCCEEEEEeCCC--CEEEEEEEEE
Confidence 34678899998 789999999999988875432222 322222221 1112334545 4679998999
Q ss_pred EEEcCEEEEEEEEEec----------CCCCceeeechh
Q 015264 260 IKIGNVFYPCSFVVLD----------SPNMEFLFGLDM 287 (410)
Q Consensus 260 l~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~ 287 (410)
|.||+..++..|..+. ....|+||||-|
T Consensus 215 VtiG~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~ 252 (453)
T PTZ00147 215 VTIGNLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGW 252 (453)
T ss_pred EEECCEEEEEEEEEEEeccCcccccccccccceecccC
Confidence 9999977765554432 124799999986
No 116
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=94.30 E-value=0.039 Score=56.70 Aligned_cols=40 Identities=18% Similarity=0.184 Sum_probs=37.3
Q ss_pred CChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 370 ADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 370 ~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
..+|++++.|.+|||...+++.||--.++|.+|++.|.++
T Consensus 619 eVdE~~~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~N 658 (749)
T COG5207 619 EVDESKARSLLENGLNPNLCRKALMDMNTDSKRRVVWCIN 658 (749)
T ss_pred cccHHHHHHHHHcCCCHHHHHHHHHHccCCchheEEEEEe
Confidence 3568999999999999999999999999999999999875
No 117
>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=94.26 E-value=0.14 Score=49.08 Aligned_cols=83 Identities=16% Similarity=0.149 Sum_probs=48.9
Q ss_pred EEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCc-ceeeeEEEEEeEEEcCEEEEEEEEEecC-CCCceeeech
Q 015264 209 KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVLDS-PNMEFLFGLD 286 (410)
Q Consensus 209 ~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~-~~~~g~i~~~~l~ig~~~~~~~~~Vl~~-~~~d~iLG~D 286 (410)
.++||||++.+.+.+++.. .+.- ..+.|. ..+...-.. +.. .....| +.++.. ...-.|||..
T Consensus 178 ~ai~DTGTs~~~lp~~~~P----------~i~~-~f~~~~~~~i~~~~y~--~~~-~~~~~C-~~~~~~~~~~~~ilG~~ 242 (265)
T cd05476 178 GTIIDSGTTLTYLPDPAYP----------DLTL-HFDGGADLELPPENYF--VDV-GEGVVC-LAILSSSSGGVSILGNI 242 (265)
T ss_pred cEEEeCCCcceEcCccccC----------CEEE-EECCCCEEEeCcccEE--EEC-CCCCEE-EEEecCCCCCcEEEChh
Confidence 4899999999999988861 1111 111111 111110000 011 111234 233333 3556899999
Q ss_pred hhhhcceEEEccCCEEEECC
Q 015264 287 MLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 287 ~L~~~~~~ID~~~~~l~i~~ 306 (410)
||+.+-..+|+.+++|.|..
T Consensus 243 fl~~~~~vFD~~~~~iGfa~ 262 (265)
T cd05476 243 QQQNFLVEYDLENSRLGFAP 262 (265)
T ss_pred hcccEEEEEECCCCEEeeec
Confidence 99999999999999998853
No 118
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=93.95 E-value=0.097 Score=53.82 Aligned_cols=41 Identities=32% Similarity=0.578 Sum_probs=36.2
Q ss_pred CChHHHHHHHHhcCC-CHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 370 ADFEAKVAKLVELGF-GREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 370 ~~~e~~i~~l~~mGf-~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
..++.-.++|-+||| +|++.++||+++|||+.+|++.|+.+
T Consensus 452 ~r~q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~s 493 (493)
T KOG0010|consen 452 ERYQTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLGS 493 (493)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhcC
Confidence 344567899999998 79999999999999999999999864
No 119
>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=93.87 E-value=0.27 Score=47.34 Aligned_cols=89 Identities=18% Similarity=0.207 Sum_probs=56.9
Q ss_pred EEEeEecC--EeEEEeecCCCcccccCHHHHHHcCCccc--ccc-----------ceeeEeeCCCcceeeeEEEEEeEEE
Q 015264 198 YVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLRL--LDD-----------RYRGVAHGVGQSEILGRIHVAPIKI 262 (410)
Q Consensus 198 y~~v~Ing--~~v~alVDTGA~~s~is~~~a~~lgl~~~--~~~-----------~~~~~~~g~g~~~~~g~i~~~~l~i 262 (410)
|++++|+. +++.++||||+....+...-+..|..... .+. ....+..|-| ..+.|.+....|.|
T Consensus 2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~c~~~~~~~~~~y~~~~Sst~~~~~~~~~~i~Y~~G-~~~~G~~~~D~v~i 80 (278)
T cd06097 2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSSETPAAQQGGHKLYDPSKSSTAKLLPGATWSISYGDG-SSASGIVYTDTVSI 80 (278)
T ss_pred eeeEEECCCCcEEEEEEeCCCCceeEeeCCCCchhhccCCcCCCccCccceecCCcEEEEEeCCC-CeEEEEEEEEEEEE
Confidence 78899988 88999999999999886554444433111 110 1111223323 24678888889999
Q ss_pred cCEEEE-EEEEEec--------CCCCceeeechh
Q 015264 263 GNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 263 g~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
|+..++ ..|-+.. ....|+||||-+
T Consensus 81 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 114 (278)
T cd06097 81 GGVEVPNQAIELATAVSASFFSDTASDGLLGLAF 114 (278)
T ss_pred CCEEECCeEEEEEeecCccccccccccceeeecc
Confidence 986653 4454443 236899999965
No 120
>PRK06437 hypothetical protein; Provisional
Probab=93.86 E-value=0.43 Score=36.00 Aligned_cols=59 Identities=17% Similarity=0.225 Sum_probs=45.8
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 4 ~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
.++..+++...++++...||.+|-+. .+++++...+..||+++. .++-+++||.|-++.
T Consensus 4 ~~~v~g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 4 MIRVKGHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE 62 (67)
T ss_pred eEEecCCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence 44443456577888888999887754 478888888899999997 555788999998874
No 121
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=93.54 E-value=0.13 Score=54.69 Aligned_cols=39 Identities=31% Similarity=0.452 Sum_probs=35.7
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHhhhC
Q 015264 371 DFEAKVAKLVELGFGREAVIQALKLF-DGNEEQAAGFLFG 409 (410)
Q Consensus 371 ~~e~~i~~l~~mGf~r~~~~~aL~~~-~~n~~~A~~~l~~ 409 (410)
..+..|.+|++|||+.+.+.+||=.+ +.+.|.|.+|||.
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~ 609 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLME 609 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHH
Confidence 56788999999999999999999999 7789999999984
No 122
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=92.97 E-value=0.18 Score=39.19 Aligned_cols=57 Identities=28% Similarity=0.480 Sum_probs=46.9
Q ss_pred eCCCCCHHHHHHHHHHHhC-CCcCCeEEEeCCeecCCCCccccc-CCCCCCeEEEEecC
Q 015264 17 VDPHETVENVKALLEVETQ-VPLQQQQLLYNGREMNNAEKLSAL-GVKDEDLVMMVSNA 73 (410)
Q Consensus 17 v~~~~TV~~LK~~I~~~~g-ip~~~q~Li~~Gk~L~d~~tL~~~-gI~~g~~i~l~~~~ 73 (410)
|+++++|.|+++.+..... ..-....|.++|+.|++...|+++ |+++|++|.|+..+
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p 59 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP 59 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence 5788999999999987654 445678899999999888888777 58999999998654
No 123
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=92.95 E-value=0.12 Score=41.22 Aligned_cols=34 Identities=35% Similarity=0.538 Sum_probs=29.6
Q ss_pred HHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 376 VAKLVELGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 376 i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
|+.+.+.||+++.+..||.+|.||+..|..|++.
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~ 34 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLN 34 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHH
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 5678889999999999999999999999998764
No 124
>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]
Probab=92.83 E-value=0.28 Score=42.90 Aligned_cols=100 Identities=26% Similarity=0.358 Sum_probs=65.6
Q ss_pred eEecCE--eEEEeecCCCcccccCHHHHHHcCC----------c--cccccc----------eeeEeeCCCc-ceeeeEE
Q 015264 201 MEVNGI--PLKAFVDSGAQSTIISKSCAERCGL----------L--RLLDDR----------YRGVAHGVGQ-SEILGRI 255 (410)
Q Consensus 201 v~Ing~--~v~alVDTGA~~s~is~~~a~~lgl----------~--~~~~~~----------~~~~~~g~g~-~~~~g~i 255 (410)
+.++|. .++|=+||||..|.++..-.++..- . ...+.+ ...+..+.|. ...- .|
T Consensus 31 ~~l~~l~~~~kAkiDTGA~TSsL~A~dI~~fkRdGe~WVRF~~~~~~~~~~~~~~~e~pvi~~ikvR~s~~~~~e~R-pV 109 (162)
T COG4067 31 VSLPGLKIQLKAKIDTGAVTSSLSASDIERFKRDGERWVRFRLADTDNLDQRSEECEAPVIRKIKVRSSSGSRAERR-PV 109 (162)
T ss_pred EEcCcccceeeeeecccceeeeEEeecceeeeeCCceEEEEEeecccCccccceeeccceEEEEEEecCCCCccccc-cE
Confidence 456665 4899999999999998876554322 0 000000 0011112122 1222 23
Q ss_pred EEEeEEEcCEEEEEEEEEec--CCCCceeeechhhhhcceEEEccCCE
Q 015264 256 HVAPIKIGNVFYPCSFVVLD--SPNMEFLFGLDMLRKHQCIIDLKENV 301 (410)
Q Consensus 256 ~~~~l~ig~~~~~~~~~Vl~--~~~~d~iLG~D~L~~~~~~ID~~~~~ 301 (410)
-...|.+|+...+..|+..+ .-.|.+|||--+|++.++.+|..+..
T Consensus 110 V~~~l~lG~~~~~~E~tLtDR~~m~Yp~LlGrk~l~~~~~~VDpSr~y 157 (162)
T COG4067 110 VRLTLCLGGRILPIEFTLTDRSNMRYPVLLGRKALRHFGAVVDPSRKY 157 (162)
T ss_pred EEEEEeeCCeeeeEEEEeecccccccceEecHHHHhhCCeEECchhhc
Confidence 34489999999999999998 45799999999999999999987643
No 125
>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=92.56 E-value=0.94 Score=43.73 Aligned_cols=75 Identities=15% Similarity=0.291 Sum_probs=55.5
Q ss_pred EEEEEeEecC--EeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEE-EEEE
Q 015264 196 MLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFV 272 (410)
Q Consensus 196 ~ly~~v~Ing--~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~-~~~~ 272 (410)
..|+++.|+. +++.+++|||+..+.+. . ..+..|-| ..+.|.+....|.+|+..++ ..|-
T Consensus 2 ~Y~~~i~iGtp~q~~~v~~DTgS~~~wv~---------------~-~~~~Y~~g-~~~~G~~~~D~v~~g~~~~~~~~fg 64 (295)
T cd05474 2 YYSAELSVGTPPQKVTVLLDTGSSDLWVP---------------D-FSISYGDG-TSASGTWGTDTVSIGGATVKNLQFA 64 (295)
T ss_pred eEEEEEEECCCCcEEEEEEeCCCCcceee---------------e-eEEEeccC-CcEEEEEEEEEEEECCeEecceEEE
Confidence 3578899988 78999999999999988 1 12333322 46778888889999987654 5566
Q ss_pred Eec-CCCCceeeechh
Q 015264 273 VLD-SPNMEFLFGLDM 287 (410)
Q Consensus 273 Vl~-~~~~d~iLG~D~ 287 (410)
+.. ....|+||||-+
T Consensus 65 ~~~~~~~~~GilGLg~ 80 (295)
T cd05474 65 VANSTSSDVGVLGIGL 80 (295)
T ss_pred EEecCCCCcceeeECC
Confidence 664 456899999774
No 126
>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=92.41 E-value=1.3 Score=43.59 Aligned_cols=100 Identities=16% Similarity=0.218 Sum_probs=61.0
Q ss_pred EeEecCEeE------EEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCc--cee--eeEEEEEeEEEcCEEEEE
Q 015264 200 DMEVNGIPL------KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEI--LGRIHVAPIKIGNVFYPC 269 (410)
Q Consensus 200 ~v~Ing~~v------~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~--~~~--~g~i~~~~l~ig~~~~~~ 269 (410)
.++|||..+ .++||||++.+.+.....+++-- . +.... ...|. ..+ ........+.+++..+.+
T Consensus 193 ~v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~-~-~~~~~----~~~~~~~~~C~~~~~~P~~~f~f~g~~~~i 266 (317)
T cd05478 193 SVTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQS-D-IGASQ----NQNGEMVVNCSSISSMPDVVFTINGVQYPL 266 (317)
T ss_pred EEEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHH-H-hCCcc----ccCCcEEeCCcCcccCCcEEEEECCEEEEE
Confidence 367788765 58999999999999998877521 1 11000 00110 000 112223445566654442
Q ss_pred -------------EEEEecC-CCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 270 -------------SFVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 270 -------------~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
-+.+... .....|||-.||+.+-.++|+.+.+|-|.
T Consensus 267 ~~~~y~~~~~~~C~~~~~~~~~~~~~IlG~~fl~~~y~vfD~~~~~iG~A 316 (317)
T cd05478 267 PPSAYILQDQGSCTSGFQSMGLGELWILGDVFIRQYYSVFDRANNKVGLA 316 (317)
T ss_pred CHHHheecCCCEEeEEEEeCCCCCeEEechHHhcceEEEEeCCCCEEeec
Confidence 2223332 23468999999999999999999998774
No 127
>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=92.12 E-value=0.81 Score=45.21 Aligned_cols=91 Identities=14% Similarity=0.289 Sum_probs=57.7
Q ss_pred eEEEEEeEec--CEeEEEeecCCCcccccCH-HHHH---HcCCcccccc----------ceeeEeeCCCcceeeeEEEEE
Q 015264 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAE---RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVA 258 (410)
Q Consensus 195 ~~ly~~v~In--g~~v~alVDTGA~~s~is~-~~a~---~lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~ 258 (410)
.-.|++++|+ +++++++||||+..+.+.. .|.. .|......+. ....+..|-| .+.|.+...
T Consensus 7 ~~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~SsT~~~~~~~~~~~Yg~g--~~~G~~~~D 84 (326)
T cd05487 7 TQYYGEIGIGTPPQTFKVVFDTGSSNLWVPSSKCSPLYTACVTHNLYDASDSSTYKENGTEFTIHYASG--TVKGFLSQD 84 (326)
T ss_pred CeEEEEEEECCCCcEEEEEEeCCccceEEccCCCcCcchhhcccCcCCCCCCeeeeECCEEEEEEeCCc--eEEEEEeee
Confidence 3467899998 7899999999999998854 3321 3432222221 1112234444 478999889
Q ss_pred eEEEcCEEEEEEEEEec--------CCCCceeeechh
Q 015264 259 PIKIGNVFYPCSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 259 ~l~ig~~~~~~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
.|.+|+......|.++. ....|+||||-+
T Consensus 85 ~v~~g~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 121 (326)
T cd05487 85 IVTVGGIPVTQMFGEVTALPAIPFMLAKFDGVLGMGY 121 (326)
T ss_pred EEEECCEEeeEEEEEEEeccCCccceeecceEEecCC
Confidence 99999865543343332 125799999975
No 128
>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=91.95 E-value=0.69 Score=45.75 Aligned_cols=90 Identities=14% Similarity=0.133 Sum_probs=51.4
Q ss_pred eEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCc-ceeeeEEEEEeEEEcCEEEEEEEEEecCCCCceeeec
Q 015264 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGL 285 (410)
Q Consensus 207 ~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~-~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~iLG~ 285 (410)
...++||||.+.+.+..+..+++--. +. .+. ...+.|. ..+..+-.. +...+. .|-+.... ...-.|||-
T Consensus 231 ~~~aivDSGTs~~~lp~~~~~~l~~~--~P-~i~-~~f~~g~~~~i~p~~y~--~~~~~~--~c~~~~~~-~~~~~ILG~ 301 (326)
T cd06096 231 GLGMLVDSGSTLSHFPEDLYNKINNF--FP-TIT-IIFENNLKIDWKPSSYL--YKKESF--WCKGGEKS-VSNKPILGA 301 (326)
T ss_pred CCCEEEeCCCCcccCCHHHHHHHHhh--cC-cEE-EEEcCCcEEEECHHHhc--cccCCc--eEEEEEec-CCCceEECh
Confidence 35689999999999999999886421 11 111 1111111 000000000 011111 12222222 233579999
Q ss_pred hhhhhcceEEEccCCEEEEC
Q 015264 286 DMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 286 D~L~~~~~~ID~~~~~l~i~ 305 (410)
.||+.+-.++|+.+++|-|.
T Consensus 302 ~flr~~y~vFD~~~~riGfa 321 (326)
T cd06096 302 SFFKNKQIIFDLDNNRIGFV 321 (326)
T ss_pred HHhcCcEEEEECcCCEEeeE
Confidence 99999999999999999885
No 129
>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=91.65 E-value=0.34 Score=42.10 Aligned_cols=97 Identities=15% Similarity=0.260 Sum_probs=50.1
Q ss_pred CEeEEEeecCCCcccccCHHHHHHcCCccccccceee----EeeCCC---cceeee--------------EEEEEeEEEc
Q 015264 205 GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRG----VAHGVG---QSEILG--------------RIHVAPIKIG 263 (410)
Q Consensus 205 g~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~----~~~g~g---~~~~~g--------------~i~~~~l~ig 263 (410)
|..++|=|||||..|-|+..-.+...-....-.+|.. ...+.+ ..++.. .+-...+.||
T Consensus 14 ~~~~~aKiDTGA~tSSLhA~~I~~ferdg~~~VrF~~~~~~~~~~~~~~~e~p~~~~~~Ik~s~g~~e~R~VV~~~~~lg 93 (138)
T PF05618_consen 14 GLTIKAKIDTGAKTSSLHATDIEEFERDGEKWVRFTVHDPDNEEKEGVTFEAPVVRRRKIKSSNGESERRPVVETTLCLG 93 (138)
T ss_dssp TEEEEEEE-TT-SSEEEE-EEEEEEEETTEEEEEE----EEEETTEEEEEEEEEECEEE---------CCEEEEEEEEET
T ss_pred CCEEEEEEcCCCcccceeecceEEeeeCCceEEEEecccccCCCcceEEEEEEeEeEEEEEcCCCceeEeeEEEEEEEEC
Confidence 5668999999999999977554422110000001100 000000 001111 1225588999
Q ss_pred CEEEEEEEEEec--CCCCceeeechhhhhcceEEEccCCE
Q 015264 264 NVFYPCSFVVLD--SPNMEFLFGLDMLRKHQCIIDLKENV 301 (410)
Q Consensus 264 ~~~~~~~~~Vl~--~~~~d~iLG~D~L~~~~~~ID~~~~~ 301 (410)
+..+...|.+.+ .-.|.+|||.--+.+.++.+|..+..
T Consensus 94 ~~~~~~e~tL~dR~~m~yp~LlGrR~~l~~~~lVD~s~~~ 133 (138)
T PF05618_consen 94 GKTWKIEFTLTDRSNMKYPMLLGRRNFLRGRFLVDVSRSF 133 (138)
T ss_dssp TEEEEEEEEEE-S--SS-SEEE-HHHHHHTTEEEETT---
T ss_pred CEEEEEEEEEcCCCcCcCCEEEEehHHhcCCEEECCChhh
Confidence 999999999998 44789999955555667888876543
No 130
>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=91.58 E-value=0.97 Score=44.43 Aligned_cols=91 Identities=11% Similarity=0.242 Sum_probs=56.4
Q ss_pred eEEEEEeEec--CEeEEEeecCCCcccccCHHHHHHcCC--cccccc----------ceeeEeeCCCcceeeeEEEEEeE
Q 015264 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGL--LRLLDD----------RYRGVAHGVGQSEILGRIHVAPI 260 (410)
Q Consensus 195 ~~ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~lgl--~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~l 260 (410)
...|+++.|+ .++++++||||+..+.+...-+..+++ ....+. ....+..|-|. ..|.+....|
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 3567889997 578999999999999886433332222 111111 01113344443 5788888899
Q ss_pred EEcCEEEE-EEEEEecC--------CCCceeeechh
Q 015264 261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (410)
Q Consensus 261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (410)
+||+..++ ..|-+... ...|+||||-+
T Consensus 87 ~ig~~~i~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 122 (317)
T cd05478 87 QVGGISDTNQIFGLSETEPGSFFYYAPFDGILGLAY 122 (317)
T ss_pred EECCEEECCEEEEEEEecCccccccccccceeeecc
Confidence 99986653 44444431 13689999975
No 131
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=91.43 E-value=1.3 Score=33.55 Aligned_cols=51 Identities=16% Similarity=0.115 Sum_probs=40.2
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
...++++...||.+|-+.+ ++++....+..||+.+.. +.-+++||.|-+..
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 4677888889999988665 677777778899999853 45688999998874
No 132
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=91.39 E-value=0.6 Score=36.52 Aligned_cols=37 Identities=11% Similarity=0.251 Sum_probs=34.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCe
Q 015264 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGR 48 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk 48 (410)
++.|.|+++.+..+|.++|..++++|++..+|.|.-.
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde 48 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE 48 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence 8899999999999999999999999999999999643
No 133
>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=91.19 E-value=0.93 Score=44.61 Aligned_cols=91 Identities=13% Similarity=0.318 Sum_probs=57.6
Q ss_pred eEEEEEeEec--CEeEEEeecCCCcccccCH-HHH--HHcCCcccccc----------ceeeEeeCCCcceeeeEEEEEe
Q 015264 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCA--ERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAP 259 (410)
Q Consensus 195 ~~ly~~v~In--g~~v~alVDTGA~~s~is~-~~a--~~lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~ 259 (410)
...|++++|+ ++++++++|||+....+.. .|. ..|......+. ....+..|.| .+.|.+-...
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 4568899998 6889999999998887754 332 23433222211 1112334444 3679888889
Q ss_pred EEEcCEEEE-EEEEEec--------CCCCceeeechh
Q 015264 260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 260 l~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
|.||+..++ ..|.+.. ....|+||||-+
T Consensus 87 v~ig~~~v~~~~f~~~~~~~~~~~~~~~~dGilGLg~ 123 (317)
T cd06098 87 VTVGDLVVKNQVFIEATKEPGLTFLLAKFDGILGLGF 123 (317)
T ss_pred EEECCEEECCEEEEEEEecCCccccccccceeccccc
Confidence 999986654 3444432 134699999975
No 134
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=90.74 E-value=0.12 Score=50.57 Aligned_cols=68 Identities=22% Similarity=0.328 Sum_probs=50.4
Q ss_pred EEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhCC-C-cCCeEEEeCCeecCCCCcccccCCC--CCCeEEEE
Q 015264 3 ITVMTADEQI--ISLDVDPHETVENVKALLEVETQV-P-LQQQQLLYNGREMNNAEKLSALGVK--DEDLVMMV 70 (410)
Q Consensus 3 I~vk~~~g~~--~~iev~~~~TV~~LK~~I~~~~gi-p-~~~q~Li~~Gk~L~d~~tL~~~gI~--~g~~i~l~ 70 (410)
+.||..+.+- .+|+.+...||++||..++...-- | ..+|||+|.||.|.|..-|.++=+| ..+++||+
T Consensus 12 lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlv 85 (391)
T KOG4583|consen 12 LLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLV 85 (391)
T ss_pred EEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHh
Confidence 5567766433 556677889999999999887532 2 2579999999999998888877554 35677776
No 135
>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=90.65 E-value=1.5 Score=43.03 Aligned_cols=90 Identities=11% Similarity=0.270 Sum_probs=57.8
Q ss_pred EEEEEeEecC--EeEEEeecCCCcccccCHHHHH--HcCCcccccc----------ceeeEeeCCCcceeeeEEEEEeEE
Q 015264 196 MLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAE--RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 196 ~ly~~v~Ing--~~v~alVDTGA~~s~is~~~a~--~lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
..|+++.|+. +++.++||||+..+-+...-+. .|+.....+. ....+..|-| ...|.+....|.
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 4577889985 7899999999999888543222 2332112211 1112234444 367889888999
Q ss_pred EcCEEEE-EEEEEecC--------CCCceeeechh
Q 015264 262 IGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (410)
Q Consensus 262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (410)
+|+..++ ..|-++.. ...|.||||-+
T Consensus 81 ~g~~~i~~~~Fg~~~~~~~~~~~~~~~~GilGLg~ 115 (318)
T cd05477 81 VQGIIITNQEFGLSETEPGTNFVYAQFDGILGLAY 115 (318)
T ss_pred ECCEEEcCEEEEEEEecccccccccceeeEeecCc
Confidence 9997764 56666542 23689999974
No 136
>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=90.63 E-value=1.3 Score=43.54 Aligned_cols=100 Identities=16% Similarity=0.268 Sum_probs=58.4
Q ss_pred eEecCEe-------EEEeecCCCcccccCHHHHHHcCCcccccccee---eEeeCCCcceeeeEEEEEeEEEcCEEEE--
Q 015264 201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR---GVAHGVGQSEILGRIHVAPIKIGNVFYP-- 268 (410)
Q Consensus 201 v~Ing~~-------v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~---~~~~g~g~~~~~g~i~~~~l~ig~~~~~-- 268 (410)
+.|||.. ..++||||.+.+.+..+..+++-- .+..... .....+.. ........+.+++..+.
T Consensus 188 i~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~~~~~~~~~~C~~---~~~~p~l~~~f~g~~~~v~ 262 (318)
T cd05477 188 FQINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTLMQ--SIGAQQDQYGQYVVNCNN---IQNLPTLTFTINGVSFPLP 262 (318)
T ss_pred EEECCEEecccCCCceeeECCCCccEECCHHHHHHHHH--HhCCccccCCCEEEeCCc---cccCCcEEEEECCEEEEEC
Confidence 4677764 358999999999999988887531 1111100 00000000 00112234455554433
Q ss_pred -----------EEEEEec------CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 -----------CSFVVLD------SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 -----------~~~~Vl~------~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+.+ ......|||..||+.+-..+|+.+.+|.|.
T Consensus 263 ~~~y~~~~~~~C~~~i~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~ig~a 316 (318)
T cd05477 263 PSAYILQNNGYCTVGIEPTYLPSQNGQPLWILGDVFLRQYYSVYDLGNNQVGFA 316 (318)
T ss_pred HHHeEecCCCeEEEEEEecccCCCCCCceEEEcHHHhhheEEEEeCCCCEEeee
Confidence 2223322 112458999999999999999999998874
No 137
>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=90.41 E-value=2.5 Score=40.70 Aligned_cols=94 Identities=17% Similarity=0.206 Sum_probs=55.2
Q ss_pred EEEeecCCCcccccCHHHHHHcCC--ccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEE-----------------
Q 015264 208 LKAFVDSGAQSTIISKSCAERCGL--LRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP----------------- 268 (410)
Q Consensus 208 v~alVDTGA~~s~is~~~a~~lgl--~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~----------------- 268 (410)
..++||||++.+.++.+..+.+-- ..............+.... . ..+.+.+++..+.
T Consensus 179 ~~~iiDSGt~~~~lP~~~~~~l~~~~~~~~~~~~~~~~~~C~~~~---~-p~i~f~f~g~~~~i~~~~~~~~~~~~~~~~ 254 (295)
T cd05474 179 LPALLDSGTTLTYLPSDIVDAIAKQLGATYDSDEGLYVVDCDAKD---D-GSLTFNFGGATISVPLSDLVLPASTDDGGD 254 (295)
T ss_pred ccEEECCCCccEeCCHHHHHHHHHHhCCEEcCCCcEEEEeCCCCC---C-CEEEEEECCeEEEEEHHHhEeccccCCCCC
Confidence 588999999999999999887421 1000000000000000000 0 2334445543332
Q ss_pred --EEEEEecCCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 --CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 --~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+........|||..||+.+-..+|+.++++.|.
T Consensus 255 ~~C~~~i~~~~~~~~iLG~~fl~~~y~vfD~~~~~ig~a 293 (295)
T cd05474 255 GACYLGIQPSTSDYNILGDTFLRSAYVVYDLDNNEISLA 293 (295)
T ss_pred CCeEEEEEeCCCCcEEeChHHhhcEEEEEECCCCEEEee
Confidence 3233333332468999999999999999999999874
No 138
>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=90.33 E-value=1.8 Score=42.79 Aligned_cols=100 Identities=12% Similarity=0.123 Sum_probs=56.4
Q ss_pred eEecCEeE-----EEeecCCCcccccCHHHHHHcCCccccccce-e--eEeeCCCcceeeeEEEEEeEEEcCEEEE----
Q 015264 201 MEVNGIPL-----KAFVDSGAQSTIISKSCAERCGLLRLLDDRY-R--GVAHGVGQSEILGRIHVAPIKIGNVFYP---- 268 (410)
Q Consensus 201 v~Ing~~v-----~alVDTGA~~s~is~~~a~~lgl~~~~~~~~-~--~~~~g~g~~~~~g~i~~~~l~ig~~~~~---- 268 (410)
++|+|..+ .++||||.+.+.+..+.++.+.- .+.... . .-..-+.. ......+.+.+|+..+.
T Consensus 199 i~v~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~~~~~~~~~~C~~---~~~~p~i~f~fgg~~~~i~~~ 273 (329)
T cd05485 199 VSVGEGEFCSGGCQAIADTGTSLIAGPVDEIEKLNN--AIGAKPIIGGEYMVNCSA---IPSLPDITFVLGGKSFSLTGK 273 (329)
T ss_pred EEECCeeecCCCcEEEEccCCcceeCCHHHHHHHHH--HhCCccccCCcEEEeccc---cccCCcEEEEECCEEeEEChH
Confidence 45666543 69999999999999988776521 111000 0 00000000 01112233444443332
Q ss_pred -------------EEEEEec-----CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 -------------CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 -------------~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+.. ..+...|||..||+.+-.++|+++.+|.|.
T Consensus 274 ~yi~~~~~~~~~~C~~~~~~~~~~~~~~~~~IlG~~fl~~~y~vFD~~~~~ig~a 328 (329)
T cd05485 274 DYVLKVTQMGQTICLSGFMGIDIPPPAGPLWILGDVFIGKYYTEFDLGNNRVGFA 328 (329)
T ss_pred HeEEEecCCCCCEEeeeEEECcCCCCCCCeEEEchHHhccceEEEeCCCCEEeec
Confidence 2222221 112358999999999999999999998874
No 139
>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=89.57 E-value=1.1 Score=42.81 Aligned_cols=76 Identities=20% Similarity=0.309 Sum_probs=53.8
Q ss_pred EEEEeEec--CEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCE--EE-EEEE
Q 015264 197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV--FY-PCSF 271 (410)
Q Consensus 197 ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~--~~-~~~~ 271 (410)
.|++++|+ .+++.+++|||+..+-+.. | .+ ....|- ...+.|.+....|.||+. .+ ...|
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 47889998 6789999999999888753 2 12 122331 346788888889999986 44 3556
Q ss_pred EEecC------CCCceeeechh
Q 015264 272 VVLDS------PNMEFLFGLDM 287 (410)
Q Consensus 272 ~Vl~~------~~~d~iLG~D~ 287 (410)
-++.. ...|.||||-+
T Consensus 67 g~~~~~~~~~~~~~~GIlGLg~ 88 (265)
T cd05476 67 GCGTDNEGGSFGGADGILGLGR 88 (265)
T ss_pred EecccccCCccCCCCEEEECCC
Confidence 55543 35899999976
No 140
>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=89.44 E-value=1.6 Score=34.38 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=37.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCc-CCeEEEeC
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYN 46 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~-~~q~Li~~ 46 (410)
|+|++.. +|..+.+.++++.++.+|++.|..++++.. ....|.|.
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 5667776 678899999999999999999999999865 56677663
No 141
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=89.17 E-value=1.8 Score=33.72 Aligned_cols=66 Identities=17% Similarity=0.165 Sum_probs=45.3
Q ss_pred CEEEEEeCC------C-CEEEEEeCCCCCHHHHHHHHHHHhC-CCc--CCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTAD------E-QIISLDVDPHETVENVKALLEVETQ-VPL--QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~------g-~~~~iev~~~~TV~~LK~~I~~~~g-ip~--~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|+|+.-. | +...++++...||.+|++.+..... +.. ....+..||+...+ +.-|++||.|.+.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~-----~~~l~dgDeVai~ 76 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTE-----SAALKDGDELAII 76 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 678888532 4 4467788889999999999977641 111 12345678887643 3457889999886
Q ss_pred e
Q 015264 71 S 71 (410)
Q Consensus 71 ~ 71 (410)
.
T Consensus 77 P 77 (82)
T PLN02799 77 P 77 (82)
T ss_pred C
Confidence 3
No 142
>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=89.14 E-value=2 Score=42.32 Aligned_cols=90 Identities=17% Similarity=0.285 Sum_probs=56.9
Q ss_pred EEEEEeEecC--EeEEEeecCCCcccccCHHHHH--HcCCccccc----------cceeeEeeCCCcceeeeEEEEEeEE
Q 015264 196 MLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAE--RCGLLRLLD----------DRYRGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 196 ~ly~~v~Ing--~~v~alVDTGA~~s~is~~~a~--~lgl~~~~~----------~~~~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
..|+++.|+. +++.+++|||++.+.+...-+. .|......+ .....+..|-| ...|.+....|.
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 4789999984 8999999999998888543222 233211111 01112234444 367999888999
Q ss_pred EcCEEEE-EEEEEec--------CCCCceeeechh
Q 015264 262 IGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 262 ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
||+..++ ..|.+.. ....|+||||-+
T Consensus 88 ig~~~~~~~~f~~a~~~~g~~~~~~~~dGilGLg~ 122 (320)
T cd05488 88 IGDLTIKKQDFAEATSEPGLAFAFGKFDGILGLAY 122 (320)
T ss_pred ECCEEECCEEEEEEecCCCcceeeeeeceEEecCC
Confidence 9986653 3444442 124699999985
No 143
>PTZ00165 aspartyl protease; Provisional
Probab=89.07 E-value=2.1 Score=45.08 Aligned_cols=100 Identities=17% Similarity=0.185 Sum_probs=60.9
Q ss_pred hCCccccc--eeEEEEEeEecC--EeEEEeecCCCcccccCHHHHHHcCC--cccccc----c-----------eeeEee
Q 015264 186 HNPEAFAR--VVMLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGL--LRLLDD----R-----------YRGVAH 244 (410)
Q Consensus 186 ~~Pe~f~~--~~~ly~~v~Ing--~~v~alVDTGA~~s~is~~~a~~lgl--~~~~~~----~-----------~~~~~~ 244 (410)
..||.+.. -...|.++.|+. +++++++|||++..-+...-+..+++ ....+. . ...+..
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 35665533 346788999987 78999999999988775443333222 111110 0 011234
Q ss_pred CCCcceeeeEEEEEeEEEcCEEEE-EEEEEec--------CCCCceeeechh
Q 015264 245 GVGQSEILGRIHVAPIKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 245 g~g~~~~~g~i~~~~l~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
|-| ...|.+-...|+||+..++ ..|-+.. ....|+||||-|
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 3557788889999986653 3443332 124799999987
No 144
>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=89.00 E-value=1.6 Score=43.05 Aligned_cols=91 Identities=14% Similarity=0.285 Sum_probs=56.9
Q ss_pred eEEEEEeEecC--EeEEEeecCCCcccccC-HHHH---HHcCCccccccc----------eeeEeeCCCcceeeeEEEEE
Q 015264 195 VMLYVDMEVNG--IPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVA 258 (410)
Q Consensus 195 ~~ly~~v~Ing--~~v~alVDTGA~~s~is-~~~a---~~lgl~~~~~~~----------~~~~~~g~g~~~~~g~i~~~ 258 (410)
...|+++.|+. +++.+++|||++..-+. ..|. ..|+.....+.. ...+..|-| .+.|.+...
T Consensus 5 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--~~~G~~~~D 82 (325)
T cd05490 5 AQYYGEIGIGTPPQTFTVVFDTGSSNLWVPSVHCSLLDIACWLHHKYNSSKSSTYVKNGTEFAIQYGSG--SLSGYLSQD 82 (325)
T ss_pred CEEEEEEEECCCCcEEEEEEeCCCccEEEEcCCCCCCCccccCcCcCCcccCcceeeCCcEEEEEECCc--EEEEEEeee
Confidence 35688999974 78999999999988774 3332 134332222111 112334444 367999999
Q ss_pred eEEEcCEEEE-EEEEEecC--------CCCceeeechh
Q 015264 259 PIKIGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (410)
Q Consensus 259 ~l~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (410)
.|.+|+..++ ..|-+... ...|.||||-|
T Consensus 83 ~v~~g~~~~~~~~Fg~~~~~~~~~~~~~~~dGilGLg~ 120 (325)
T cd05490 83 TVSIGGLQVEGQLFGEAVKQPGITFIAAKFDGILGMAY 120 (325)
T ss_pred EEEECCEEEcCEEEEEEeeccCCcccceeeeEEEecCC
Confidence 9999986654 44544321 24699999964
No 145
>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=88.96 E-value=2.7 Score=36.68 Aligned_cols=80 Identities=23% Similarity=0.291 Sum_probs=44.2
Q ss_pred ecCEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCCCcee
Q 015264 203 VNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFL 282 (410)
Q Consensus 203 Ing~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~i 282 (410)
|.|..+++.-||||++|+|...+.+. +..+.+.......| ...+.+.-+.++|.|..+.+.+.--+ +|.+
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 56889999999999999999887432 11111111112223 44556677789999988766554433 2333
Q ss_pred e----echhhhhcc
Q 015264 283 F----GLDMLRKHQ 292 (410)
Q Consensus 283 L----G~D~L~~~~ 292 (410)
| -+.|++..-
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 357888654
No 146
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=88.92 E-value=2.2 Score=31.72 Aligned_cols=60 Identities=17% Similarity=0.200 Sum_probs=41.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+.+.+ + ..|+.+|...+ +++++...+-.||+++.- ....+.-+++||.|-++.
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~-~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVHK-EARAQFVLHEGDRIEILS 60 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcCH-HHcCccccCCCCEEEEEE
Confidence 44444 5666555 3 46888888655 666666677899998863 234456789999998874
No 147
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=88.86 E-value=0.61 Score=32.55 Aligned_cols=26 Identities=19% Similarity=0.415 Sum_probs=22.3
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFD 397 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~ 397 (410)
.++.+..|+++||++.++.+|++...
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 46889999999999999999998873
No 148
>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=88.83 E-value=2 Score=42.59 Aligned_cols=91 Identities=16% Similarity=0.321 Sum_probs=57.6
Q ss_pred eEEEEEeEec--CEeEEEeecCCCcccccCHH-HH---HHcCCcccccc----c------eeeEeeCCCcceeeeEEEEE
Q 015264 195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKS-CA---ERCGLLRLLDD----R------YRGVAHGVGQSEILGRIHVA 258 (410)
Q Consensus 195 ~~ly~~v~In--g~~v~alVDTGA~~s~is~~-~a---~~lgl~~~~~~----~------~~~~~~g~g~~~~~g~i~~~ 258 (410)
...|+++.|+ ++++++++|||+..+.+... |. ..|+.....+. . ...+..|.|. ..|.+...
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 4678899998 58899999999998877543 32 13443222210 0 1122344443 67989888
Q ss_pred eEEEcCEEEE-EEEEEecC--------CCCceeeechh
Q 015264 259 PIKIGNVFYP-CSFVVLDS--------PNMEFLFGLDM 287 (410)
Q Consensus 259 ~l~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~ 287 (410)
.|.||+..++ ..|-++.. ...|+||||-+
T Consensus 88 ~v~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~ 125 (329)
T cd05485 88 TVSVGGVSVKGQTFAEAINEPGLTFVAAKFDGILGMGY 125 (329)
T ss_pred cEEECCEEECCEEEEEEEecCCccccccccceEEEcCC
Confidence 9999986653 44544421 24699999875
No 149
>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=88.78 E-value=2.1 Score=32.79 Aligned_cols=55 Identities=22% Similarity=0.216 Sum_probs=42.1
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC----CcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 12 IISLDVDPHETVENVKALLEVETQV----PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gi----p~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
...++++...||.+|.+.+..+++- ......+..||+... .+.-|++||.|.+..
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 3567888889999999999987642 234566778999887 345689999999874
No 150
>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=88.59 E-value=1.8 Score=42.52 Aligned_cols=88 Identities=13% Similarity=0.303 Sum_probs=54.4
Q ss_pred EEEeEec--CEeEEEeecCCCcccccCH-HHHH-HcCCcccccc----------ceeeEeeCCCcceeeeEEEEEeEEEc
Q 015264 198 YVDMEVN--GIPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKIG 263 (410)
Q Consensus 198 y~~v~In--g~~v~alVDTGA~~s~is~-~~a~-~lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~l~ig 263 (410)
|+++.|+ ++++++++|||+...-+.. .|.. .|......+. ....+..|-| ...|.+-...|.||
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 7788897 6789999999999887743 3321 2332111111 1112334444 36788888899999
Q ss_pred CEEEE-EEEEEec--------CCCCceeeechh
Q 015264 264 NVFYP-CSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 264 ~~~~~-~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
+..++ ..|.+.. ....|.||||-+
T Consensus 80 ~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 112 (316)
T cd05486 80 GITVQNQQFAESVSEPGSTFQDSEFDGILGLAY 112 (316)
T ss_pred CEEEcCEEEEEeeccCcccccccccceEeccCc
Confidence 85543 4444321 235799999975
No 151
>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=88.45 E-value=2.1 Score=42.18 Aligned_cols=95 Identities=15% Similarity=0.200 Sum_probs=56.2
Q ss_pred EeEecCEe-------EEEeecCCCcccccCHHHHHHcCCccccccc----eeeEeeCCCcceeeeEEEEEeEEEcC--EE
Q 015264 200 DMEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDDR----YRGVAHGVGQSEILGRIHVAPIKIGN--VF 266 (410)
Q Consensus 200 ~v~Ing~~-------v~alVDTGA~~s~is~~~a~~lgl~~~~~~~----~~~~~~g~g~~~~~g~i~~~~l~ig~--~~ 266 (410)
.++|||.. ..++||||.+.+.+..++++++.. .++.. ...+....| | ..+.|.. ..
T Consensus 196 ~i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~~~~~i~~--~~~C~~~~~~P~i~f~f~-----g----~~~~l~~~~yi 264 (317)
T cd06098 196 DVLIGGKSTGFCAGGCAAIADSGTSLLAGPTTIVTQINS--AVDCNSLSSMPNVSFTIG-----G----KTFELTPEQYI 264 (317)
T ss_pred eEEECCEEeeecCCCcEEEEecCCcceeCCHHHHHhhhc--cCCccccccCCcEEEEEC-----C----EEEEEChHHeE
Confidence 46778765 358999999999999999887652 12211 000111111 1 1222211 11
Q ss_pred --------EEEEEEEe--c---CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 267 --------YPCSFVVL--D---SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 267 --------~~~~~~Vl--~---~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
..|-+.+. + ..+...|||-.||+.+-.++|+.+++|-|.
T Consensus 265 ~~~~~~~~~~C~~~~~~~~~~~~~~~~~IlGd~Flr~~y~VfD~~~~~iGfA 316 (317)
T cd06098 265 LKVGEGAAAQCISGFTALDVPPPRGPLWILGDVFMGAYHTVFDYGNLRVGFA 316 (317)
T ss_pred EeecCCCCCEEeceEEECCCCCCCCCeEEechHHhcccEEEEeCCCCEEeec
Confidence 12433222 1 112357999999999999999999988763
No 152
>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=88.28 E-value=2.7 Score=43.78 Aligned_cols=73 Identities=19% Similarity=0.295 Sum_probs=56.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC------CcCCeEEE-eCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQV------PLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gi------p~~~q~Li-~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
+|+|... .+...+-++.+..|.+|--.|-...+- .+....|. -+|.+|+.+.||.+.||.||+++++.+...
T Consensus 4 RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~~~ 82 (452)
T TIGR02958 4 RVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPASA 82 (452)
T ss_pred EEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeCCC
Confidence 5777764 444778889999999999888887753 12234554 588899999999999999999999987543
Q ss_pred C
Q 015264 75 S 75 (410)
Q Consensus 75 ~ 75 (410)
.
T Consensus 83 ~ 83 (452)
T TIGR02958 83 T 83 (452)
T ss_pred C
Confidence 3
No 153
>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=88.14 E-value=1.4 Score=42.78 Aligned_cols=98 Identities=14% Similarity=0.251 Sum_probs=59.4
Q ss_pred eEecCE------eEEEeecCCCcccccCHHHHHHc----CCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEE--
Q 015264 201 MEVNGI------PLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-- 268 (410)
Q Consensus 201 v~Ing~------~v~alVDTGA~~s~is~~~a~~l----gl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~-- 268 (410)
+.|++. ...++||||+....++.+...++ +..... ......+... .......+.+++..+.
T Consensus 187 i~i~~~~~~~~~~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~----~~~~~~c~~~---~~~p~l~f~~~~~~~~i~ 259 (317)
T PF00026_consen 187 ISIGGESVFSSSGQQAILDTGTSYIYLPRSIFDAIIKALGGSYSD----GVYSVPCNST---DSLPDLTFTFGGVTFTIP 259 (317)
T ss_dssp EEETTEEEEEEEEEEEEEETTBSSEEEEHHHHHHHHHHHTTEEEC----SEEEEETTGG---GGSEEEEEEETTEEEEEE
T ss_pred ccccccccccccceeeecccccccccccchhhHHHHhhhcccccc----eeEEEecccc---cccceEEEeeCCEEEEec
Confidence 455555 36899999999999999887764 221111 0000111100 0112234444443332
Q ss_pred ---------------EEEEEec----CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 ---------------CSFVVLD----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 ---------------~~~~Vl~----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+.. ......+||..||+++=..+|+.++++-|.
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 2233332 456789999999999999999999998874
No 154
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=88.11 E-value=0.69 Score=31.08 Aligned_cols=24 Identities=25% Similarity=0.646 Sum_probs=13.1
Q ss_pred HHHHHhcCHHHHHHHhhcCHHHHH
Q 015264 96 FQQHIRNDANLMTQLFQSDPELAQ 119 (410)
Q Consensus 96 ~~~~~~~nP~~l~~l~~~nP~L~~ 119 (410)
+++.+.+||+.++.+++.||+++.
T Consensus 16 ~l~~~~~nP~~~~~~~~~nP~~~~ 39 (41)
T smart00727 16 LLQDMQQNPDMLAQMLQENPQLLQ 39 (41)
T ss_pred HHHHHHHCHHHHHHHHHhCHHhHh
Confidence 344445566666665555666554
No 155
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=88.01 E-value=2.2 Score=31.78 Aligned_cols=66 Identities=14% Similarity=0.240 Sum_probs=53.5
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHh---CCCcCCeEEE-eCCeecCCCCcccccCCCCCCeEEEEecCC
Q 015264 9 DEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSNAA 74 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~---gip~~~q~Li-~~Gk~L~d~~tL~~~gI~~g~~i~l~~~~~ 74 (410)
+|+...++......+--..++--+++ |-|++...|- -+|.+|+-++.+++||+.+|-+++|.-+.+
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 57888888888877777766665554 4788888886 679999999999999999999999986654
No 156
>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=87.92 E-value=1.4 Score=42.35 Aligned_cols=78 Identities=17% Similarity=0.279 Sum_probs=47.0
Q ss_pred eEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCC--CCceeee
Q 015264 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSP--NMEFLFG 284 (410)
Q Consensus 207 ~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~--~~d~iLG 284 (410)
...++||||++.+.++.+.++++-- .+. +.... . ..|...++|+.. ++.. .+..|||
T Consensus 198 ~~~~iiDSGTs~~~lP~~~~~~l~~--~l~----g~~~~----~----------~~~~~~~~C~~~-~P~i~f~~~~ilG 256 (278)
T cd06097 198 GFSAIADTGTTLILLPDAIVEAYYS--QVP----GAYYD----S----------EYGGWVFPCDTT-LPDLSFAVFSILG 256 (278)
T ss_pred CceEEeecCCchhcCCHHHHHHHHH--hCc----CCccc----C----------CCCEEEEECCCC-CCCEEEEEEEEEc
Confidence 4679999999999999888776521 000 00000 0 001122233211 1100 0057999
Q ss_pred chhhhhcceEEEccCCEEEEC
Q 015264 285 LDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 285 ~D~L~~~~~~ID~~~~~l~i~ 305 (410)
-.||+++-.++|+.+++|-|.
T Consensus 257 d~fl~~~y~vfD~~~~~ig~A 277 (278)
T cd06097 257 DVFLKAQYVVFDVGGPKLGFA 277 (278)
T ss_pred chhhCceeEEEcCCCceeeec
Confidence 999999999999999988763
No 157
>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=87.69 E-value=3.3 Score=31.70 Aligned_cols=66 Identities=18% Similarity=0.145 Sum_probs=50.0
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEEe----CC--eecCCCCcccccCCC--CCCeEEEE
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLY----NG--REMNNAEKLSALGVK--DEDLVMMV 70 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li~----~G--k~L~d~~tL~~~gI~--~g~~i~l~ 70 (410)
|+.++|....++|+.++|+.+|-..|+...|+... -.-|.| +| .-|+.+++|.++... ...++++.
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 57789999999999999999999999999998654 356777 22 336778889888776 34445543
No 158
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=87.22 E-value=2.9 Score=30.98 Aligned_cols=61 Identities=16% Similarity=0.251 Sum_probs=42.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+. ++++...||.+|-.. .++++....+.+||+++.-.. -.+.-+++||.|-+..
T Consensus 1 m~i~v---NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 1 MNIQL---NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH 61 (66)
T ss_pred CEEEE---CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence 44444 5654 466778888877643 578888888889998887432 2233488999998874
No 159
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=87.03 E-value=2.7 Score=31.39 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=42.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+.+ +++...|+.+|-.. .++++....+.+||.++....- +.+ +++||.|-++.
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~ 60 (65)
T PRK05863 1 MIVVV---NEEQV--EVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT 60 (65)
T ss_pred CEEEE---CCEEE--EcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence 44544 56554 45567887776543 5888889999999998875422 235 89999998874
No 160
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=86.90 E-value=2.7 Score=32.37 Aligned_cols=44 Identities=14% Similarity=0.153 Sum_probs=37.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN 46 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~ 46 (410)
+|.++. +|.++.+.++.+.|..+|+.+|...++.+.....|.|.
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 455666 67888899999999999999999999988777888776
No 161
>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=86.89 E-value=6.5 Score=38.65 Aligned_cols=99 Identities=15% Similarity=0.180 Sum_probs=56.8
Q ss_pred eEecCEe-----EEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcc--ee--eeEEEEEeEEEcCEEEE---
Q 015264 201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS--EI--LGRIHVAPIKIGNVFYP--- 268 (410)
Q Consensus 201 v~Ing~~-----v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~--~~--~g~i~~~~l~ig~~~~~--- 268 (410)
++|++.. ..++||||++.+.+..++++.+.- .+.... ...+.. .+ ......+.+.+++..+.
T Consensus 194 i~vg~~~~~~~~~~~ivDSGtt~~~lp~~~~~~l~~--~~~~~~----~~~~~~~~~C~~~~~~P~i~f~f~g~~~~i~~ 267 (320)
T cd05488 194 IGLGDEELELENTGAAIDTGTSLIALPSDLAEMLNA--EIGAKK----SWNGQYTVDCSKVDSLPDLTFNFDGYNFTLGP 267 (320)
T ss_pred EEECCEEeccCCCeEEEcCCcccccCCHHHHHHHHH--HhCCcc----ccCCcEEeeccccccCCCEEEEECCEEEEECH
Confidence 4555543 468999999999999999886431 111000 000100 00 01122334455553332
Q ss_pred ----------EEEEEec-----CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 ----------CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 ----------~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-..+.. ..+...|||-.||+.+-.++|+.+++|.|.
T Consensus 268 ~~y~~~~~g~C~~~~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~iG~a 319 (320)
T cd05488 268 FDYTLEVSGSCISAFTGMDFPEPVGPLAIVGDAFLRKYYSVYDLGNNAVGLA 319 (320)
T ss_pred HHheecCCCeEEEEEEECcCCCCCCCeEEEchHHhhheEEEEeCCCCEEeec
Confidence 3223322 112358999999999999999999988774
No 162
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=86.76 E-value=2.5 Score=33.79 Aligned_cols=61 Identities=16% Similarity=0.300 Sum_probs=42.9
Q ss_pred CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--e--CCe-ecCC-CCcccccCCCCCCeEEEEec
Q 015264 11 QIISLDVDPHETVENVKALLEVETQVPLQQQQLL--Y--NGR-EMNN-AEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~--~Gk-~L~d-~~tL~~~gI~~g~~i~l~~~ 72 (410)
..++...+..+||..++..+...+.| ..+-||. | ++. .|.+ +.||++.||.+|.+|.+-.+
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~r 80 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEER 80 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE-
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEee
Confidence 35677889999999999999999999 6678886 2 232 3655 47999999999998888643
No 163
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=86.25 E-value=1.7 Score=31.80 Aligned_cols=37 Identities=22% Similarity=0.307 Sum_probs=31.1
Q ss_pred HHHHHHHHhc-CC-CHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 373 EAKVAKLVEL-GF-GREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 373 e~~i~~l~~m-Gf-~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
-..||.|-+. |. +.++.-..|+.||.|++.|++-|++
T Consensus 6 rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 6 RKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 3467777663 54 9999999999999999999999985
No 164
>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=86.19 E-value=2.6 Score=33.56 Aligned_cols=44 Identities=14% Similarity=0.215 Sum_probs=37.7
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC---CeEEEe
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ---QQQLLY 45 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~---~q~Li~ 45 (410)
.++++...|+++.+.+.++..+.+|++.|..++|+... ...|.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 35678888999999999999999999999999998873 556655
No 165
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=85.82 E-value=1.4 Score=44.16 Aligned_cols=34 Identities=18% Similarity=0.294 Sum_probs=26.5
Q ss_pred CCChHHHHHHHHhcCCCHHHHHH---HHHHhCCCHHH
Q 015264 369 GADFEAKVAKLVELGFGREAVIQ---ALKLFDGNEEQ 402 (410)
Q Consensus 369 ~~~~e~~i~~l~~mGf~r~~~~~---aL~~~~~n~~~ 402 (410)
.-..++.|++++.|||.||+|+. =|..+|-++|.
T Consensus 318 ~~p~ddvidKv~~MGf~rDqV~a~v~rl~E~GQ~vD~ 354 (358)
T PF07223_consen 318 RHPYDDVIDKVASMGFRRDQVRATVRRLTENGQPVDL 354 (358)
T ss_pred cCcHHHHHHHHHHcCCcHHHHHHHHHHHHhcCCcccc
Confidence 34568999999999999999865 45666766663
No 166
>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=85.82 E-value=4 Score=32.47 Aligned_cols=44 Identities=7% Similarity=0.178 Sum_probs=34.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (410)
+|.|.. +|.++.+.|+++.+..+|..+|..++++. ...+|-|..
T Consensus 4 kVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykD 47 (86)
T cd06408 4 RVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKD 47 (86)
T ss_pred EEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEc
Confidence 344444 68899999999999999999999999985 455555543
No 167
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=85.82 E-value=1.9 Score=30.07 Aligned_cols=40 Identities=18% Similarity=0.128 Sum_probs=32.2
Q ss_pred CChHHHHHHHHh--cCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 370 ADFEAKVAKLVE--LGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 370 ~~~e~~i~~l~~--mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
..+|+-|.+.-. -|-+|+-.++.|+.++=|++.|++-|++
T Consensus 7 ~vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLs 48 (53)
T PF11547_consen 7 QVPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLS 48 (53)
T ss_dssp GS-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhc
Confidence 356888888755 4999999999999999999999999875
No 168
>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=85.81 E-value=3 Score=41.90 Aligned_cols=88 Identities=17% Similarity=0.246 Sum_probs=53.2
Q ss_pred EEEEEeEec--CEeEEEeecCCCcccccCHHHHHHcCCcccccc----------ceeeEeeCCCcceeeeEEEEEeEEEc
Q 015264 196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKIG 263 (410)
Q Consensus 196 ~ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~----------~~~~~~~g~g~~~~~g~i~~~~l~ig 263 (410)
-.|+++.|+ ++++.+++|||++..-+....+ +......+. ....+..|-| .+.|.+-...|.||
T Consensus 3 ~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~~--~~~~~~f~~~~SsT~~~~~~~~~i~Yg~G--s~~G~~~~D~v~ig 78 (364)
T cd05473 3 GYYIEMLIGTPPQKLNILVDTGSSNFAVAAAPH--PFIHTYFHRELSSTYRDLGKGVTVPYTQG--SWEGELGTDLVSIP 78 (364)
T ss_pred ceEEEEEecCCCceEEEEEecCCcceEEEcCCC--ccccccCCchhCcCcccCCceEEEEECcc--eEEEEEEEEEEEEC
Confidence 358899997 6889999999998887754321 111111110 1112344545 35799999999998
Q ss_pred C---EEEEEEEEEec--------CCCCceeeechh
Q 015264 264 N---VFYPCSFVVLD--------SPNMEFLFGLDM 287 (410)
Q Consensus 264 ~---~~~~~~~~Vl~--------~~~~d~iLG~D~ 287 (410)
+ ..+...+.... ....|+||||-|
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~ 113 (364)
T cd05473 79 KGPNVTFRANIAAITESENFFLNGSNWEGILGLAY 113 (364)
T ss_pred CCCccceEEeeEEEeccccceecccccceeeeecc
Confidence 4 23333332221 124699999975
No 169
>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=85.78 E-value=2.6 Score=40.98 Aligned_cols=79 Identities=20% Similarity=0.290 Sum_probs=53.3
Q ss_pred EEEEeEec--CEeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCE-EE-EEEEE
Q 015264 197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV-FY-PCSFV 272 (410)
Q Consensus 197 ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~-~~-~~~~~ 272 (410)
.|+++.|+ .+++++++|||++..-+.- ..| ..+ .+..|-|. .+.|......|.||+. .+ ...|-
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-------CLY-QVSYGDGS-YTTGDLATDTLTLGSSDVVPGFAFG 69 (299)
T ss_pred eEEEEecCCCCcceEEEecCCCCcccccC---CCC-------Cee-eeEeCCCc-eEEEEEEEEEEEeCCCCccCCEEEE
Confidence 47888898 5789999999998887732 122 112 23444343 4568888889999986 44 35565
Q ss_pred EecCC-----CCceeeechh
Q 015264 273 VLDSP-----NMEFLFGLDM 287 (410)
Q Consensus 273 Vl~~~-----~~d~iLG~D~ 287 (410)
+.... ..|.||||-+
T Consensus 70 ~~~~~~~~~~~~~GilGLg~ 89 (299)
T cd05472 70 CGHDNEGLFGGAAGLLGLGR 89 (299)
T ss_pred CCccCCCccCCCCEEEECCC
Confidence 55421 5799999964
No 170
>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=85.49 E-value=3.9 Score=38.75 Aligned_cols=90 Identities=16% Similarity=0.280 Sum_probs=57.0
Q ss_pred EEEeEecCE--eEEEeecCCCcccccCHHHHHHcCCccc--------------cccceeeEeeCCCcceeeeEEEEEeEE
Q 015264 198 YVDMEVNGI--PLKAFVDSGAQSTIISKSCAERCGLLRL--------------LDDRYRGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 198 y~~v~Ing~--~v~alVDTGA~~s~is~~~a~~lgl~~~--------------~~~~~~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
|+++.|+.- ++.++||||+..+.+....+..|..... ..........+.| ...|.+....|.
T Consensus 2 ~~~i~iGtp~q~~~l~~DTGS~~~wv~~~~c~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~Y~~g--~~~g~~~~D~v~ 79 (283)
T cd05471 2 YGEITIGTPPQKFSVIFDTGSSLLWVPSSNCTSCSCQKHPRFKYDSSKSSTYKDTGCTFSITYGDG--SVTGGLGTDTVT 79 (283)
T ss_pred EEEEEECCCCcEEEEEEeCCCCCEEEecCCCCccccccCCCCccCccCCceeecCCCEEEEEECCC--eEEEEEEEeEEE
Confidence 678888765 7999999999998886665555543111 1111112233333 456777788999
Q ss_pred EcCEEE-EEEEEEec-------CCCCceeeechhhh
Q 015264 262 IGNVFY-PCSFVVLD-------SPNMEFLFGLDMLR 289 (410)
Q Consensus 262 ig~~~~-~~~~~Vl~-------~~~~d~iLG~D~L~ 289 (410)
+++... ...|.++. ....++||||.+=.
T Consensus 80 ~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~~ 115 (283)
T cd05471 80 IGGLTIPNQTFGCATSESGDFSSSGFDGILGLGFPS 115 (283)
T ss_pred ECCEEEeceEEEEEeccCCcccccccceEeecCCcc
Confidence 998653 34454443 24689999987644
No 171
>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=84.92 E-value=2 Score=33.91 Aligned_cols=59 Identities=22% Similarity=0.315 Sum_probs=42.5
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.+...++-...+..||.+++.+.++.-+...++.....|..+++|-+-+|+-..+|.+.
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 34556777888999999999999999999999888888999999999999988888775
No 172
>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=84.67 E-value=2.1 Score=41.17 Aligned_cols=88 Identities=17% Similarity=0.188 Sum_probs=51.7
Q ss_pred eEecCEe-----EEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcC--EE------E
Q 015264 201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN--VF------Y 267 (410)
Q Consensus 201 v~Ing~~-----v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~--~~------~ 267 (410)
+.|||+. ..++||||++.+.+..+.. + + .+...-.| +.. .+.+.|-. .. .
T Consensus 166 i~vg~~~~~~~~~~~ivDTGTt~t~lp~~~y----~----p-~i~~~f~~-~~~-------~~~~~l~~~~y~~~~~~~~ 228 (273)
T cd05475 166 LLFNGQPTGGKGLEVVFDSGSSYTYFNAQAY----F----K-PLTLKFGK-GWR-------TRLLEIPPENYLIISEKGN 228 (273)
T ss_pred EEECCEECcCCCceEEEECCCceEEcCCccc----c----c-cEEEEECC-CCc-------eeEEEeCCCceEEEcCCCC
Confidence 4567663 4689999999999998754 1 1 11111111 100 01222221 11 1
Q ss_pred EEEEEEecCC----CCceeeechhhhhcceEEEccCCEEEECC
Q 015264 268 PCSFVVLDSP----NMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 268 ~~~~~Vl~~~----~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
.| +..+... ....|||-.||+.+-...|+.+++|-|..
T Consensus 229 ~C-l~~~~~~~~~~~~~~ilG~~~l~~~~~vfD~~~~riGfa~ 270 (273)
T cd05475 229 VC-LGILNGSEIGLGNTNIIGDISMQGLMVIYDNEKQQIGWVR 270 (273)
T ss_pred EE-EEEecCCCcCCCceEEECceEEEeeEEEEECcCCEeCccc
Confidence 24 3334322 12479999999999999999999887753
No 173
>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=84.37 E-value=8.1 Score=37.44 Aligned_cols=27 Identities=7% Similarity=0.079 Sum_probs=24.2
Q ss_pred ceeeechhhhhcceEEEccCCEEEECC
Q 015264 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
-.|||-.||+.+-.+.|+.+++|-|..
T Consensus 270 ~~ilG~~fl~~~~vvfD~~~~~igfa~ 296 (299)
T cd05472 270 LSIIGNVQQQTFRVVYDVAGGRIGFAP 296 (299)
T ss_pred CEEEchHHccceEEEEECCCCEEeEec
Confidence 479999999999999999999998853
No 174
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=84.20 E-value=6.9 Score=28.79 Aligned_cols=60 Identities=20% Similarity=0.220 Sum_probs=39.2
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+. ++++...|+.+|.+.+. ++ ....+.+||+.+.... -.+.-+++||.|.++.
T Consensus 1 m~i~v---Ng~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 1 MDIQL---NQQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQ 60 (65)
T ss_pred CEEEE---CCEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEe
Confidence 45444 4554 56677889998887653 33 3456779999875322 2223488999999874
No 175
>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=84.12 E-value=3.3 Score=40.87 Aligned_cols=92 Identities=15% Similarity=0.212 Sum_probs=57.2
Q ss_pred EEEEEeEec--CEeEEEeecCCCcccccCHHHHHHcCCc--cccc----cc----------------------eeeEeeC
Q 015264 196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLL--RLLD----DR----------------------YRGVAHG 245 (410)
Q Consensus 196 ~ly~~v~In--g~~v~alVDTGA~~s~is~~~a~~lgl~--~~~~----~~----------------------~~~~~~g 245 (410)
..|+++.|+ .+++.++||||+...-+...-+..|+.. ...+ .. ...+..|
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 458899998 5889999999999988865544556532 1111 00 1122333
Q ss_pred CCcceeeeEEEEEeEEEcCEEEE--------EEEEEec-------CCCCceeeechhh
Q 015264 246 VGQSEILGRIHVAPIKIGNVFYP--------CSFVVLD-------SPNMEFLFGLDML 288 (410)
Q Consensus 246 ~g~~~~~g~i~~~~l~ig~~~~~--------~~~~Vl~-------~~~~d~iLG~D~L 288 (410)
-| ..+.|......|.||+...+ ..|-+.. ....|+||||-+=
T Consensus 83 ~g-s~~~G~~~~D~v~lg~~~~~~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~ 139 (326)
T cd06096 83 EG-SSISGFYFSDFVSFESYLNSNSEKESFKKIFGCHTHETNLFLTQQATGILGLSLT 139 (326)
T ss_pred CC-CceeeEEEEEEEEeccCCCCccccccccEEeccCccccCcccccccceEEEccCC
Confidence 33 35688898889999875432 1232221 1246999999873
No 176
>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=83.60 E-value=6.6 Score=38.49 Aligned_cols=25 Identities=16% Similarity=0.284 Sum_probs=22.5
Q ss_pred ceeeechhhhhcceEEEccCCEEEE
Q 015264 280 EFLFGLDMLRKHQCIIDLKENVLRV 304 (410)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i 304 (410)
..|||-.||+.+-.++|+.+++|-|
T Consensus 290 ~~ILGd~flr~~y~vfD~~~~~IGf 314 (316)
T cd05486 290 LWILGDVFIRQYYSVFDRGNNRVGF 314 (316)
T ss_pred eEEEchHHhcceEEEEeCCCCEeec
Confidence 4799999999999999999998866
No 177
>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=83.26 E-value=1.8 Score=41.06 Aligned_cols=82 Identities=18% Similarity=0.135 Sum_probs=49.0
Q ss_pred EeEEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCEEEEEEEEEecCCCCceeeec
Q 015264 206 IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGL 285 (410)
Q Consensus 206 ~~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~~~~~~~~Vl~~~~~d~iLG~ 285 (410)
....++||||...+.++.+..+.+-- .+...... ......... ..... .-...|.. ..|||.
T Consensus 201 ~~~~~iiDsGt~~~~lp~~~~~~l~~--~~~~~~~~-------~~~~~~~~~--~~~~~-~p~i~f~f------~~ilG~ 262 (283)
T cd05471 201 GGGGAIVDSGTSLIYLPSSVYDAILK--ALGAAVSS-------SDGGYGVDC--SPCDT-LPDITFTF------LWILGD 262 (283)
T ss_pred CCcEEEEecCCCCEeCCHHHHHHHHH--HhCCcccc-------cCCcEEEeC--cccCc-CCCEEEEE------EEEccH
Confidence 35789999999999999999888632 11101100 000000000 00000 00111111 799999
Q ss_pred hhhhhcceEEEccCCEEEEC
Q 015264 286 DMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 286 D~L~~~~~~ID~~~~~l~i~ 305 (410)
.||+.+-...|+.+..|.|.
T Consensus 263 ~fl~~~y~vfD~~~~~igfa 282 (283)
T cd05471 263 VFLRNYYTVFDLDNNRIGFA 282 (283)
T ss_pred hhhhheEEEEeCCCCEEeec
Confidence 99999999999999888774
No 178
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=82.76 E-value=8.2 Score=28.75 Aligned_cols=61 Identities=16% Similarity=0.205 Sum_probs=41.5
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+. ++++...||.+|... .+.+.....+-.||+++.-+ .-+++-+++||.|.++.
T Consensus 1 m~i~v---Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 1 MQILF---NDQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQ 61 (66)
T ss_pred CEEEE---CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEE
Confidence 55555 4554 456778899988865 45555667788999988632 13334589999998874
No 179
>PLN03146 aspartyl protease family protein; Provisional
Probab=82.38 E-value=4.1 Score=42.12 Aligned_cols=27 Identities=15% Similarity=0.054 Sum_probs=24.4
Q ss_pred ceeeechhhhhcceEEEccCCEEEECC
Q 015264 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
..|||..+++.+.+..|+.+++|-|..
T Consensus 399 ~~IlG~~~q~~~~vvyDl~~~~igFa~ 425 (431)
T PLN03146 399 IAIFGNLAQMNFLVGYDLESKTVSFKP 425 (431)
T ss_pred ceEECeeeEeeEEEEEECCCCEEeeec
Confidence 479999999999999999999998864
No 180
>smart00455 RBD Raf-like Ras-binding domain.
Probab=81.39 E-value=10 Score=28.85 Aligned_cols=51 Identities=18% Similarity=0.150 Sum_probs=43.2
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC--eecCCC
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG--REMNNA 53 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G--k~L~d~ 53 (410)
+.|-.++|+...+.+.+..|+.|+-..+.++.|+.++...++..| +.|+-+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ldl~ 54 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLDLN 54 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcceecC
Confidence 356677899999999999999999999999999999999998854 455533
No 181
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=79.53 E-value=6.8 Score=31.00 Aligned_cols=56 Identities=13% Similarity=0.192 Sum_probs=40.6
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+. .+++...||.+|-.. .++++....+-+||.++.- ..-+++-+++||.|.++.
T Consensus 24 NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~ 79 (84)
T PRK06083 24 NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQ 79 (84)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEE
Confidence 5554 355677888877654 4788877888899998853 234556789999998874
No 182
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=79.27 E-value=1.6 Score=29.61 Aligned_cols=24 Identities=38% Similarity=0.522 Sum_probs=19.4
Q ss_pred CCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 384 FGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 384 f~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
|+++-..+||+.++||...|+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 345667889999999999999877
No 183
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=79.19 E-value=5.2 Score=29.88 Aligned_cols=38 Identities=16% Similarity=0.080 Sum_probs=31.9
Q ss_pred CChHHHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 370 ADFEAKVAKLVEL-GFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 370 ~~~e~~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
...++.|..|... |-..+=+..+|..++||.++|+.-.
T Consensus 10 ~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F 48 (63)
T smart00804 10 PEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNF 48 (63)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 3457788888664 9999999999999999999998654
No 184
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=79.01 E-value=13 Score=28.62 Aligned_cols=54 Identities=19% Similarity=0.198 Sum_probs=40.2
Q ss_pred EEEEeCCC-CCHHHHHHHHHHHhC-C-C-cCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 13 ISLDVDPH-ETVENVKALLEVETQ-V-P-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 13 ~~iev~~~-~TV~~LK~~I~~~~g-i-p-~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
..++++.+ .||.+|++.+....+ + . .....+..||+...+ +.-|++||.|.+..
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~P 75 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIP 75 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeC
Confidence 56788876 899999999988864 1 1 123466688888774 45789999999874
No 185
>PRK07440 hypothetical protein; Provisional
Probab=78.98 E-value=9.8 Score=28.85 Aligned_cols=61 Identities=13% Similarity=0.176 Sum_probs=43.1
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
++|+. +|+. +++....||.+|-. ..++++....+-+||.++.-+ .-.++-+++||.|-++.
T Consensus 5 m~i~v-NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~-~w~~~~L~~gD~IEIv~ 65 (70)
T PRK07440 5 ITLQV-NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQ-FWEQTQVQPGDRLEIVT 65 (70)
T ss_pred eEEEE-CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 34444 5665 56677889888764 457788888888999988732 23445689999998874
No 186
>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=78.68 E-value=6.9 Score=28.99 Aligned_cols=56 Identities=16% Similarity=0.235 Sum_probs=40.9
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+. ++++...||.+|.+.+ +++++...+..||+.+..+. -++.-|++||.|.+..
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVT 60 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEE
Confidence 4554 4566788999888765 46778888889999886542 2334589999998874
No 187
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=78.58 E-value=4.8 Score=34.05 Aligned_cols=39 Identities=18% Similarity=0.030 Sum_probs=34.7
Q ss_pred CCChHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 369 GADFEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 369 ~~~~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
+..+.+.+.-+.+-|.+.++|++||..+| |+..|+..|.
T Consensus 111 s~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 111 SEPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred CCCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 34567889999999999999999999998 9999998874
No 188
>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=78.35 E-value=7.2 Score=30.06 Aligned_cols=45 Identities=13% Similarity=0.229 Sum_probs=36.0
Q ss_pred EEEEEeCCCCEEE-EEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC
Q 015264 2 RITVMTADEQIIS-LDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (410)
Q Consensus 2 ~I~vk~~~g~~~~-iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (410)
+|.++. +|..+. +.+..+.+..+|+..|+..++.+....+|.|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 3 RVKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 344555 455555 899999999999999999999998888888853
No 189
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=78.14 E-value=12 Score=28.15 Aligned_cols=56 Identities=16% Similarity=0.169 Sum_probs=39.1
Q ss_pred CCCEEEEEeCCC-CCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 9 DEQIISLDVDPH-ETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 9 ~g~~~~iev~~~-~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+.+ +++.. .||.+|-+ ..++++...-+-+||+++.-+ .-+++-+++||.|.++.
T Consensus 6 NG~~~--~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~ 62 (67)
T PRK07696 6 NGNQI--EVPESVKTVAELLT----HLELDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT 62 (67)
T ss_pred CCEEE--EcCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence 56654 45554 57777664 457788878888999988743 23445689999998874
No 190
>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=78.12 E-value=8.5 Score=29.41 Aligned_cols=45 Identities=16% Similarity=0.168 Sum_probs=35.3
Q ss_pred EEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHhCCCcCCeEEEeCC
Q 015264 2 RITVMTADEQIISLDVD-PHETVENVKALLEVETQVPLQQQQLLYNG 47 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~-~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (410)
+|+++. +|....+.+. .+.|..+|+.+|...++.+.....|.|..
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 456666 4677788888 99999999999999999886566666644
No 191
>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=78.01 E-value=6.9 Score=30.01 Aligned_cols=45 Identities=18% Similarity=0.124 Sum_probs=39.8
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (410)
+.|-.++|+...+.|.+..|+.|+-..+.++-|+.++...|++.|
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 456778999999999999999999999999999999988777654
No 192
>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=77.68 E-value=31 Score=33.87 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=23.5
Q ss_pred ceeeechhhhhcceEEEccCCEEEEC
Q 015264 280 EFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
..|||-.||+.+-.++|+.+.+|-|.
T Consensus 299 ~~ilG~~flr~~y~vfD~~~~~IGfA 324 (326)
T cd05487 299 LWVLGATFIRKFYTEFDRQNNRIGFA 324 (326)
T ss_pred eEEEehHHhhccEEEEeCCCCEEeee
Confidence 57999999999999999999988774
No 193
>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=77.00 E-value=0.78 Score=44.82 Aligned_cols=43 Identities=26% Similarity=0.512 Sum_probs=0.0
Q ss_pred CCCHHHHHHHHHH----------HhCCCcCCeE-----EEeCCeecCCCCcccccCCC
Q 015264 20 HETVENVKALLEV----------ETQVPLQQQQ-----LLYNGREMNNAEKLSALGVK 62 (410)
Q Consensus 20 ~~TV~~LK~~I~~----------~~gip~~~q~-----Li~~Gk~L~d~~tL~~~gI~ 62 (410)
+.+|.++|..++. +.++|.+.++ |.|+.|.+.|.+||.+..-.
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 8999999998 99999999888888776433
No 194
>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=76.96 E-value=5.5 Score=31.04 Aligned_cols=36 Identities=25% Similarity=0.321 Sum_probs=32.5
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC
Q 015264 12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG 47 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G 47 (410)
++.+.+.+..+..+|..+|++++..+++..+|.|.-
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 466789999999999999999999999999999853
No 195
>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=76.80 E-value=33 Score=33.63 Aligned_cols=94 Identities=13% Similarity=0.172 Sum_probs=52.2
Q ss_pred EEEeecCCCcccccCHHHHHHcCCccccccceeeEeeCCCcceee--eEEEEEeEEEcCEEEE-----------------
Q 015264 208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP----------------- 268 (410)
Q Consensus 208 v~alVDTGA~~s~is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~--g~i~~~~l~ig~~~~~----------------- 268 (410)
..++||||.+.+.++.+.++.+.- .+.... ...|.-...+. .......+.+|+..+.
T Consensus 207 ~~aiiDSGTt~~~~p~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~y~~~~~~~~~~~ 282 (325)
T cd05490 207 CEAIVDTGTSLITGPVEEVRALQK--AIGAVP--LIQGEYMIDCEKIPTLPVISFSLGGKVYPLTGEDYILKVSQRGTTI 282 (325)
T ss_pred CEEEECCCCccccCCHHHHHHHHH--HhCCcc--ccCCCEEecccccccCCCEEEEECCEEEEEChHHeEEeccCCCCCE
Confidence 579999999999999988876521 000000 00010000000 0112233444443322
Q ss_pred EEEEEec-----CCCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 ~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+.. ..+...|||-.||+.+-.++|+.+++|-|.
T Consensus 283 C~~~~~~~~~~~~~~~~~ilGd~flr~~y~vfD~~~~~IGfA 324 (325)
T cd05490 283 CLSGFMGLDIPPPAGPLWILGDVFIGRYYTVFDRDNDRVGFA 324 (325)
T ss_pred EeeEEEECCCCCCCCceEEEChHhheeeEEEEEcCCcEeecc
Confidence 3222221 123357999999999999999999988763
No 196
>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=76.51 E-value=14 Score=28.96 Aligned_cols=57 Identities=19% Similarity=0.275 Sum_probs=40.6
Q ss_pred CEEEEEeCCCCCHHHHHHHHHHHhCC------C-----cCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 11 QIISLDVDPHETVENVKALLEVETQV------P-----LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~gi------p-----~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
....++++ ..||.+|.+.+..+..- . -....+..||+....+.. .-|++||.|.+..
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 89999999999887631 0 023556678887765432 5689999999874
No 197
>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=76.39 E-value=2.6 Score=31.02 Aligned_cols=23 Identities=35% Similarity=0.652 Sum_probs=14.0
Q ss_pred HHhcCHHH--HHHHhhcCHHHHHHh
Q 015264 99 HIRNDANL--MTQLFQSDPELAQVL 121 (410)
Q Consensus 99 ~~~~nP~~--l~~l~~~nP~L~~ai 121 (410)
.+.++|.+ |+++.++||++-..+
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 34566765 677778888765543
No 198
>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=76.03 E-value=21 Score=32.11 Aligned_cols=71 Identities=15% Similarity=0.161 Sum_probs=51.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEEe---CC---eecCCCCcccccCCC-CCCeEEEEec
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLY---NG---REMNNAEKLSALGVK-DEDLVMMVSN 72 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li~---~G---k~L~d~~tL~~~gI~-~g~~i~l~~~ 72 (410)
.|.|...+|....+.+++.+|++++...|+.+.|++.. ..-|.+ ++ ..|+...+|.+...+ ....+++.++
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 46788889999999999999999999999999999652 234443 12 346666777777665 3455666544
No 199
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=75.94 E-value=5.2 Score=40.30 Aligned_cols=66 Identities=15% Similarity=0.296 Sum_probs=52.4
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC-CcCCeEEE--eCCeecCCC-CcccccCCCCCCeE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQV-PLQQQQLL--YNGREMNNA-EKLSALGVKDEDLV 67 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gi-p~~~q~Li--~~Gk~L~d~-~tL~~~gI~~g~~i 67 (410)
.|-||..+|+.....++.+-||.|++..|...-.- +...+.|+ |--|.|.|+ .||++.|+.+-.+|
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 47789999999888999999999999999876543 33456665 667999875 89999999865443
No 200
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=75.64 E-value=20 Score=27.17 Aligned_cols=63 Identities=16% Similarity=0.229 Sum_probs=44.8
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|.+++.. +|+. ++++...|+.||-+ ..+++++...+.+||.++.... -.+.-+++||.|-+++
T Consensus 1 ~~m~i~~-ng~~--~e~~~~~tv~dLL~----~l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~ 63 (68)
T COG2104 1 MPMTIQL-NGKE--VEIAEGTTVADLLA----QLGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVR 63 (68)
T ss_pred CcEEEEE-CCEE--EEcCCCCcHHHHHH----HhCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEE
Confidence 4566666 4654 56777789998864 4578888888889999886432 2445678889888874
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=75.29 E-value=14 Score=29.11 Aligned_cols=35 Identities=20% Similarity=0.220 Sum_probs=29.6
Q ss_pred EEEEEeCCCCEEEEEeCC--CCCHHHHHHHHHHHhCCC
Q 015264 2 RITVMTADEQIISLDVDP--HETVENVKALLEVETQVP 37 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~--~~TV~~LK~~I~~~~gip 37 (410)
+|+++. +|.+..+.+++ +.+..+|++.|...++++
T Consensus 2 ~vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 2 NLKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred EEEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 455555 68888888988 779999999999999999
No 202
>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=75.03 E-value=12 Score=35.98 Aligned_cols=83 Identities=17% Similarity=0.254 Sum_probs=50.6
Q ss_pred EEEEeEec--CEeEEEeecCCCcccccCH-HHHHHcCCccccccceeeEeeCCCcceeeeEEEEEeEEEcCE----EE-E
Q 015264 197 LYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV----FY-P 268 (410)
Q Consensus 197 ly~~v~In--g~~v~alVDTGA~~s~is~-~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~i~~~~l~ig~~----~~-~ 268 (410)
.|+++.|+ .+++.+++|||++.+-+.- ..+..|+. .+ .+..|-| ..+.|.+-...|.++.. .. .
T Consensus 3 Y~~~i~iGtP~q~~~v~~DTGS~~~Wv~c~~~c~~c~c------~~-~i~Ygd~-~~~~G~~~~D~v~~~~~~~~~~~~~ 74 (273)
T cd05475 3 YYVTINIGNPPKPYFLDIDTGSDLTWLQCDAPCTGCQC------DY-EIEYADG-GSSMGVLVTDIFSLKLTNGSRAKPR 74 (273)
T ss_pred eEEEEEcCCCCeeEEEEEccCCCceEEeCCCCCCCCcC------cc-EeEeCCC-CceEEEEEEEEEEEeecCCCcccCC
Confidence 58899998 7789999999999998842 11233422 22 2334422 35678887778888531 11 2
Q ss_pred EEEEEe---------cCCCCceeeechh
Q 015264 269 CSFVVL---------DSPNMEFLFGLDM 287 (410)
Q Consensus 269 ~~~~Vl---------~~~~~d~iLG~D~ 287 (410)
..|-.. .....|.||||-+
T Consensus 75 ~~Fgc~~~~~~~~~~~~~~~dGIlGLg~ 102 (273)
T cd05475 75 IAFGCGYDQQGPLLNPPPPTDGILGLGR 102 (273)
T ss_pred EEEEeeeccCCcccCCCccCCEEEECCC
Confidence 233322 1235799999954
No 203
>PTZ00147 plasmepsin-1; Provisional
Probab=74.97 E-value=17 Score=38.02 Aligned_cols=94 Identities=15% Similarity=0.224 Sum_probs=53.8
Q ss_pred eEEEeecCCCcccccCHHHHHHcCCccccccc---e-eeEeeCCCcceeeeEEEEEeEEEcCEEE---------------
Q 015264 207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDR---Y-RGVAHGVGQSEILGRIHVAPIKIGNVFY--------------- 267 (410)
Q Consensus 207 ~v~alVDTGA~~s~is~~~a~~lgl~~~~~~~---~-~~~~~g~g~~~~~g~i~~~~l~ig~~~~--------------- 267 (410)
...++||||.+.+.+..+.+..+-- .++.. . .....-+.. .......+.+++..+
T Consensus 332 ~~~aIiDSGTsli~lP~~~~~ai~~--~l~~~~~~~~~~y~~~C~~----~~lP~~~f~f~g~~~~L~p~~yi~~~~~~~ 405 (453)
T PTZ00147 332 KANVIVDSGTSVITVPTEFLNKFVE--SLDVFKVPFLPLYVTTCNN----TKLPTLEFRSPNKVYTLEPEYYLQPIEDIG 405 (453)
T ss_pred ceeEEECCCCchhcCCHHHHHHHHH--HhCCeecCCCCeEEEeCCC----CCCCeEEEEECCEEEEECHHHheeccccCC
Confidence 4679999999999999998875321 01000 0 000000000 011122233333222
Q ss_pred --EEEEEEec--CCCCceeeechhhhhcceEEEccCCEEEECC
Q 015264 268 --PCSFVVLD--SPNMEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 268 --~~~~~Vl~--~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
.|-+.+.. ......|||-.||+++-.++|+.+.+|.|..
T Consensus 406 ~~~C~~~i~~~~~~~~~~ILGd~FLr~~YtVFD~~n~rIGfA~ 448 (453)
T PTZ00147 406 SALCMLNIIPIDLEKNTFILGDPFMRKYFTVFDYDNHTVGFAL 448 (453)
T ss_pred CcEEEEEEEECCCCCCCEEECHHHhccEEEEEECCCCEEEEEE
Confidence 14333433 2233579999999999999999999999864
No 204
>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=73.82 E-value=28 Score=26.43 Aligned_cols=57 Identities=12% Similarity=0.094 Sum_probs=42.3
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe--CCeecCCCCccccc
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMNNAEKLSAL 59 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~d~~tL~~~ 59 (410)
+.|-.++|+...+.+.+..|+.|+-..+.++.|+.++...++. ..+.|.-++..+.+
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeee
Confidence 4567788999999999999999999999999999998877664 34566666555544
No 205
>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=71.86 E-value=11 Score=28.33 Aligned_cols=58 Identities=17% Similarity=0.131 Sum_probs=45.2
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCC--CcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 12 IISLDVDPHETVENVKALLEVETQV--PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gi--p~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
...+.+....||.+|.+.+..+..- ......+..||+.+.+ .-.+.-+++||.|.++.
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 5667889999999999999887631 2256788899999888 24455678999999874
No 206
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.36 E-value=8.5 Score=37.96 Aligned_cols=56 Identities=18% Similarity=0.256 Sum_probs=45.8
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCcCCeEEEe---CCeecC-----CCCcccccCCCCCCeEEEEe
Q 015264 16 DVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMN-----NAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 16 ev~~~~TV~~LK~~I~~~~gip~~~q~Li~---~Gk~L~-----d~~tL~~~gI~~g~~i~l~~ 71 (410)
-|.-.-||-|||.++..+.|+.+.+.+|+| .||.-. -+..|-.|+|++||.+.+-.
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 355577999999999999999999999997 566432 24689999999999988753
No 207
>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=71.03 E-value=37 Score=33.14 Aligned_cols=34 Identities=29% Similarity=0.502 Sum_probs=27.2
Q ss_pred EEEEEeEecCEe--EEEeecCCCcc---------cccCHHHHHHc
Q 015264 196 MLYVDMEVNGIP--LKAFVDSGAQS---------TIISKSCAERC 229 (410)
Q Consensus 196 ~ly~~v~Ing~~--v~alVDTGA~~---------s~is~~~a~~l 229 (410)
..-+.+.++|+. +++|+|||.+. .+++.+.++++
T Consensus 157 ~~~v~i~~~~~~~~~~allDTGN~L~DPitg~PV~Vve~~~~~~~ 201 (293)
T PF03419_consen 157 LYPVTIEIGGKKIELKALLDTGNQLRDPITGRPVIVVEYEALEKL 201 (293)
T ss_pred EEEEEEEECCEEEEEEEEEECCCcccCCCCCCcEEEEEHHHHHhh
Confidence 455678889985 79999999875 47888888887
No 208
>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=70.96 E-value=16 Score=26.97 Aligned_cols=56 Identities=16% Similarity=0.215 Sum_probs=40.0
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+|+. ++++...||.+|.+.+ +++++...+.+||+.+..+. -.++-|++||.|-+..
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVT 59 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEE
Confidence 5655 4566788999888754 56777778889999885332 2335689999998874
No 209
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=70.90 E-value=1.1 Score=31.25 Aligned_cols=26 Identities=27% Similarity=0.515 Sum_probs=17.1
Q ss_pred HHHHHHHH-hcCCCHHHHHHHHHHhCC
Q 015264 373 EAKVAKLV-ELGFGREAVIQALKLFDG 398 (410)
Q Consensus 373 e~~i~~l~-~mGf~r~~~~~aL~~~~~ 398 (410)
++.|..|- .|||+|++...||+....
T Consensus 3 e~vv~~Ls~tMGY~kdeI~eaL~~~~~ 29 (46)
T PF08587_consen 3 EDVVSKLSKTMGYDKDEIYEALESSEP 29 (46)
T ss_dssp HCCHHHHHCTT---HHHHHHHCCSSS-
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHcCCC
Confidence 44577774 499999999999998554
No 210
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=70.85 E-value=5.1 Score=33.95 Aligned_cols=62 Identities=11% Similarity=0.197 Sum_probs=44.9
Q ss_pred CEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccC---CCCCCeEEEEec
Q 015264 11 QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG---VKDEDLVMMVSN 72 (410)
Q Consensus 11 ~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~g---I~~g~~i~l~~~ 72 (410)
+...+=|+.+.||++|...|..+.++++++.-|+.++.++....+++++- =.++..|++.-+
T Consensus 41 K~KfllVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 41 KVHFLALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred ceEEEEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 33333699999999999999999999999865556776666667776542 123556777644
No 211
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=70.79 E-value=5.9 Score=26.59 Aligned_cols=26 Identities=19% Similarity=0.146 Sum_probs=21.8
Q ss_pred CCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 383 GFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 383 Gf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
.-.|..-...|+.|+||+-+|+|.++
T Consensus 14 ~~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 14 HQKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CCChHHHHHHHHHcCCcHHHHHHHhC
Confidence 34577788899999999999999864
No 212
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=69.85 E-value=7.3 Score=37.48 Aligned_cols=38 Identities=26% Similarity=0.292 Sum_probs=31.4
Q ss_pred HHHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 373 EAKVAKLVEL-GFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 373 e~~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
+..+..+++. |++|++|.++|+.|++++..|+=.+++|
T Consensus 234 dRa~RIv~~aT~~~~~~A~~~L~~~~~~vK~AIvm~~~~ 272 (298)
T COG2103 234 DRAVRIVMEATGCSAEEAEALLEEAGGNVKLAIVMLLTG 272 (298)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCccHhHHHHHHhC
Confidence 5566777775 9999999999999999999998777664
No 213
>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=68.98 E-value=18 Score=36.44 Aligned_cols=25 Identities=16% Similarity=0.320 Sum_probs=23.1
Q ss_pred eeeechhhhhcceEEEccCCEEEEC
Q 015264 281 FLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 281 ~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
.|||--+|+.+....|+.+++|-|.
T Consensus 335 ~IlG~~~~~~~~vvyD~~~~riGfa 359 (362)
T cd05489 335 VVIGGHQMEDNLLVFDLEKSRLGFS 359 (362)
T ss_pred EEEeeheecceEEEEECCCCEeecc
Confidence 5899999999999999999999885
No 214
>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=68.34 E-value=14 Score=39.16 Aligned_cols=64 Identities=22% Similarity=0.291 Sum_probs=42.9
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHh--CCC------cCCeEEE--eC--Ce-ecCCC-------------CcccccCCCC
Q 015264 10 EQIISLDVDPHETVENVKALLEVET--QVP------LQQQQLL--YN--GR-EMNNA-------------EKLSALGVKD 63 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~--gip------~~~q~Li--~~--Gk-~L~d~-------------~tL~~~gI~~ 63 (410)
+..+.+.|=..+||.++|++|-... +.| +++.-|- .+ |+ +|+|. .||..|||.+
T Consensus 201 ~~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~d 280 (539)
T PF08337_consen 201 SEEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPD 280 (539)
T ss_dssp STCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--T
T ss_pred CceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCC
Confidence 3447888889999999999997663 333 3444443 22 33 56652 3799999999
Q ss_pred CCeEEEEecC
Q 015264 64 EDLVMMVSNA 73 (410)
Q Consensus 64 g~~i~l~~~~ 73 (410)
|++|-++.+.
T Consensus 281 ga~vaLv~k~ 290 (539)
T PF08337_consen 281 GATVALVPKQ 290 (539)
T ss_dssp TEEEEEEES-
T ss_pred CceEEEeecc
Confidence 9999999775
No 215
>PTZ00165 aspartyl protease; Provisional
Probab=67.48 E-value=27 Score=36.75 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=25.1
Q ss_pred CceeeechhhhhcceEEEccCCEEEECC
Q 015264 279 MEFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
...|||-.||+++-.++|+.+++|-|..
T Consensus 418 ~~~ILGd~Flr~yy~VFD~~n~rIGfA~ 445 (482)
T PTZ00165 418 PLFVLGNNFIRKYYSIFDRDHMMVGLVP 445 (482)
T ss_pred ceEEEchhhheeEEEEEeCCCCEEEEEe
Confidence 4579999999999999999999999964
No 216
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=66.92 E-value=26 Score=36.50 Aligned_cols=37 Identities=19% Similarity=0.422 Sum_probs=28.4
Q ss_pred EEEEEecC--CCCceeeechhhhhcceEEEccCCEEEEC
Q 015264 269 CSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKENVLRVG 305 (410)
Q Consensus 269 ~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~~l~i~ 305 (410)
|-+.+... .+...|||-.||+.+-.+.|+.+.+|-|.
T Consensus 408 C~~~i~~~~~~~~~~ILGd~FLr~~Y~VFD~~n~rIGfA 446 (450)
T PTZ00013 408 CMITMLPVDIDDNTFILGDPFMRKYFTVFDYDKESVGFA 446 (450)
T ss_pred eEEEEEECCCCCCCEEECHHHhccEEEEEECCCCEEEEE
Confidence 54455432 23358999999999999999999999885
No 217
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=66.36 E-value=28 Score=31.09 Aligned_cols=27 Identities=30% Similarity=0.395 Sum_probs=16.4
Q ss_pred HHHhhCCCCCHHHHHHHHHHHHHHhHH
Q 015264 151 MALLYADPFDVEAQKKIEAAIRQKGID 177 (410)
Q Consensus 151 l~~l~~dP~~~E~Q~~i~E~ir~~~i~ 177 (410)
...+.+||||+++-+-+.+.+.+..++
T Consensus 88 ~~Li~Ad~FDeaAvra~~~kma~~~~e 114 (162)
T PRK12751 88 HKLITADKFDEAAVRAQAEKMSQNQIE 114 (162)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 345667777777666655555555554
No 218
>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=65.81 E-value=17 Score=36.53 Aligned_cols=97 Identities=14% Similarity=0.153 Sum_probs=58.1
Q ss_pred ceeEEEEEeEe---cC---EeE-EEeecCCCcccccCHHHH-HHc--CCccccc-cceeeEeeCCCcceeeeEEEEEeEE
Q 015264 193 RVVMLYVDMEV---NG---IPL-KAFVDSGAQSTIISKSCA-ERC--GLLRLLD-DRYRGVAHGVGQSEILGRIHVAPIK 261 (410)
Q Consensus 193 ~~~~ly~~v~I---ng---~~v-~alVDTGA~~s~is~~~a-~~l--gl~~~~~-~~~~~~~~g~g~~~~~g~i~~~~l~ 261 (410)
.++|+||.|+| +. +-| .+|||||+.---|-.... .-+ .|..... -.....+...+....-|-|+.+.|+
T Consensus 20 ~~N~p~VsVtVC~PGts~CqTIdnvlVDTGS~GLRi~~sAl~~~l~~~Lp~~t~~g~~laEC~~F~sgytWGsVr~AdV~ 99 (370)
T PF11925_consen 20 VINIPTVSVTVCAPGTSNCQTIDNVLVDTGSYGLRIFASALPSSLAGSLPQQTGGGAPLAECAQFASGYTWGSVRTADVT 99 (370)
T ss_pred cccceeeEEEEeCCCCCCceeeCcEEEeccchhhhHHHhhhchhhhccCCcccCCCcchhhhhhccCcccccceEEEEEE
Confidence 34899999998 11 222 579999998654433322 222 3321111 1111122233345788999999999
Q ss_pred EcCEE-EEEEEEEec----------------------CCCCceeeechhhh
Q 015264 262 IGNVF-YPCSFVVLD----------------------SPNMEFLFGLDMLR 289 (410)
Q Consensus 262 ig~~~-~~~~~~Vl~----------------------~~~~d~iLG~D~L~ 289 (410)
||++. -.+++.|+. ..+.+.|||+.-+.
T Consensus 100 igge~A~~iPiQvI~D~~~~~~P~sC~~~g~~~~t~~~lgaNGILGIg~~~ 150 (370)
T PF11925_consen 100 IGGETASSIPIQVIGDSAAPSVPSSCSNSGASMNTVADLGANGILGIGPFP 150 (370)
T ss_pred EcCeeccccCEEEEcCCCCCCCCchhhcCCCCCCCcccccCceEEeecCCc
Confidence 99863 356666663 23468999997664
No 219
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=64.39 E-value=4.6 Score=28.75 Aligned_cols=34 Identities=18% Similarity=0.114 Sum_probs=26.5
Q ss_pred HHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 374 AKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 374 ~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
+-|.+|.. -|-..+=+..+|..++||.++|..-.
T Consensus 2 ~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F 36 (51)
T PF03943_consen 2 EMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNF 36 (51)
T ss_dssp HHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 56777766 48888889999999999999998754
No 220
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=63.68 E-value=23 Score=35.25 Aligned_cols=61 Identities=15% Similarity=0.157 Sum_probs=44.3
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|+|+| +|+. ++++...||.+|-.. .+++++...+.+||+++.-+ .-.++-|++||.|-++.
T Consensus 1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~-~w~~t~LkeGD~IEII~ 61 (326)
T PRK11840 1 MRIRL---NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRS-EYGQVALEEGDELEIVH 61 (326)
T ss_pred CEEEE---CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHH-HcCccccCCCCEEEEEE
Confidence 45444 5654 556777888877653 58888889999999998633 23455699999999985
No 221
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=63.28 E-value=8.3 Score=28.38 Aligned_cols=21 Identities=24% Similarity=0.441 Sum_probs=18.5
Q ss_pred HHHHHhcCCCHHHHHHHHHHh
Q 015264 376 VAKLVELGFGREAVIQALKLF 396 (410)
Q Consensus 376 i~~l~~mGf~r~~~~~aL~~~ 396 (410)
-+.||+|||+..+|.+-+|.|
T Consensus 6 k~dLi~lGf~~~tA~~IIrqA 26 (59)
T PF11372_consen 6 KKDLIELGFSESTARDIIRQA 26 (59)
T ss_pred HHHHHHcCCCHHHHHHHHHHH
Confidence 467999999999999998876
No 222
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=62.73 E-value=26 Score=35.57 Aligned_cols=70 Identities=11% Similarity=0.149 Sum_probs=53.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHh--CCCcCCeEEEeC----Cee--cCCCCcccccCCCCCCeEEEEe
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEVET--QVPLQQQQLLYN----GRE--MNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~--gip~~~q~Li~~----Gk~--L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
|.+.+|...|. ..+++.++++++-|-.+|-.-+ +..|++..+.-+ |-. +..++|+.++|++.|++|+|.-
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 67888887676 5789999999999988877665 456777776632 332 3357899999999999999984
No 223
>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=62.38 E-value=36 Score=27.32 Aligned_cols=43 Identities=9% Similarity=0.126 Sum_probs=33.4
Q ss_pred EEEEeCCCCEEEEEeC-----CCCCHHHHHHHHHHHhCCCc-CCeEEEeC
Q 015264 3 ITVMTADEQIISLDVD-----PHETVENVKALLEVETQVPL-QQQQLLYN 46 (410)
Q Consensus 3 I~vk~~~g~~~~iev~-----~~~TV~~LK~~I~~~~gip~-~~q~Li~~ 46 (410)
|+|+. +|....+.++ ++.+..+|+.+|...+.+++ ....|.|.
T Consensus 3 vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~ 51 (91)
T cd06398 3 VKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYT 51 (91)
T ss_pred EEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEE
Confidence 45555 5666667766 47999999999999999988 56677774
No 224
>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=62.27 E-value=8.8 Score=30.37 Aligned_cols=57 Identities=18% Similarity=0.318 Sum_probs=39.8
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCee--------cC------CCCcccccCCCCCCeEEEEec
Q 015264 15 LDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE--------MN------NAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~--------L~------d~~tL~~~gI~~g~~i~l~~~ 72 (410)
|++++++|+.+|-+.+.....+....--|...|+. |. -+++|.++ +.+|+.|+|...
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~VtD~ 71 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVTDP 71 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEEET
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEECC
Confidence 57999999999999999885443333333344333 22 25889999 999999999643
No 225
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=62.26 E-value=17 Score=24.12 Aligned_cols=31 Identities=23% Similarity=0.475 Sum_probs=15.6
Q ss_pred CHHHHHHHhhcCHHHHHHhc--cCCHHHHHHHHHH
Q 015264 103 DANLMTQLFQSDPELAQVLL--GNDLNKLQDLLRE 135 (410)
Q Consensus 103 nP~~l~~l~~~nP~L~~ai~--~~~~~~~~~~l~~ 135 (410)
||++...+. ||.++.++. ..||+.++.++..
T Consensus 1 dP~~~~~l~--~P~~~~~l~~~~~nP~~~~~~~~~ 33 (41)
T smart00727 1 DPEMALRLQ--NPQVQSLLQDMQQNPDMLAQMLQE 33 (41)
T ss_pred CHHHHHHHc--CHHHHHHHHHHHHCHHHHHHHHHh
Confidence 344444332 566666552 1366666665543
No 226
>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=61.85 E-value=24 Score=35.33 Aligned_cols=27 Identities=7% Similarity=0.114 Sum_probs=24.6
Q ss_pred ceeeechhhhhcceEEEccCCEEEECC
Q 015264 280 EFLFGLDMLRKHQCIIDLKENVLRVGG 306 (410)
Q Consensus 280 d~iLG~D~L~~~~~~ID~~~~~l~i~~ 306 (410)
-.|||--||+.+-.+.|+.+++|-|..
T Consensus 318 ~~ILG~~flr~~yvvfD~~~~rIGfa~ 344 (364)
T cd05473 318 GTVIGAVIMEGFYVVFDRANKRVGFAV 344 (364)
T ss_pred ceEEeeeeEcceEEEEECCCCEEeeEe
Confidence 379999999999999999999999964
No 227
>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=61.77 E-value=33 Score=26.92 Aligned_cols=43 Identities=14% Similarity=0.032 Sum_probs=36.0
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY 45 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~ 45 (410)
+.+|+. +|.+..+.++...|...|+++|...+.+|+...-|.|
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 456666 5777778888889999999999999999998877777
No 228
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=60.93 E-value=10 Score=34.95 Aligned_cols=28 Identities=29% Similarity=0.351 Sum_probs=24.6
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCCC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDGN 399 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~n 399 (410)
.++.+..|+++||++.+|.+|++..-.+
T Consensus 144 ~~ea~~AL~~LGy~~~ea~~al~~v~~~ 171 (196)
T PRK13901 144 FKELEQSIVNMGFDRKLVNSAIKEIMLL 171 (196)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhcc
Confidence 5789999999999999999999887543
No 229
>PRK01777 hypothetical protein; Validated
Probab=60.80 E-value=59 Score=26.28 Aligned_cols=62 Identities=18% Similarity=0.124 Sum_probs=40.8
Q ss_pred CEEEEEeCC---CCEEEEEeCCCCCHHHHHHHHHHHhCCCcC--C-----eEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTAD---EQIISLDVDPHETVENVKALLEVETQVPLQ--Q-----QQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~---g~~~~iev~~~~TV~~LK~~I~~~~gip~~--~-----q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|.|.... .....++++...||.++-... |++.. + ..+.-+|+....+ .-+++||.|-+.
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d-----~~L~dGDRVeIy 74 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLT-----DVLRDGDRVEIY 74 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCC-----CcCCCCCEEEEe
Confidence 566766432 233677899999999877554 55544 2 2455677766543 357899999886
Q ss_pred e
Q 015264 71 S 71 (410)
Q Consensus 71 ~ 71 (410)
+
T Consensus 75 r 75 (95)
T PRK01777 75 R 75 (95)
T ss_pred c
Confidence 4
No 230
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=60.39 E-value=19 Score=30.44 Aligned_cols=54 Identities=20% Similarity=0.392 Sum_probs=37.6
Q ss_pred EeCC-CCCHHHHHHHHHHHh----CCCc------CCeEEEe----------------CC-eec---CCCCcccccCCCCC
Q 015264 16 DVDP-HETVENVKALLEVET----QVPL------QQQQLLY----------------NG-REM---NNAEKLSALGVKDE 64 (410)
Q Consensus 16 ev~~-~~TV~~LK~~I~~~~----gip~------~~q~Li~----------------~G-k~L---~d~~tL~~~gI~~g 64 (410)
.|+. +.||.+|++.+.... |++| +..+|++ .. .+| +++.||.++||.+.
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 999999999887764 4554 3445543 11 456 56788889998888
Q ss_pred CeEEE
Q 015264 65 DLVMM 69 (410)
Q Consensus 65 ~~i~l 69 (410)
.-|-+
T Consensus 101 TEiSf 105 (122)
T PF10209_consen 101 TEISF 105 (122)
T ss_pred ceeee
Confidence 77754
No 231
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=60.29 E-value=25 Score=33.88 Aligned_cols=69 Identities=13% Similarity=0.265 Sum_probs=53.8
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEEE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l~ 70 (410)
.|-||..+|+++...+.+..|+.+++..|....+...+-..|. |--+.+.+ .++|..+++-+-.+|.+.
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 4778899999999999999999999999999998766443332 33344542 379999999988888764
No 232
>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=59.90 E-value=33 Score=27.87 Aligned_cols=40 Identities=13% Similarity=0.062 Sum_probs=33.4
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY 45 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~ 45 (410)
++..+|++..+.|+.+.|..+|+.++.+.++++.. +.|-|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 34557888889999999999999999999998876 55554
No 233
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=59.35 E-value=26 Score=32.47 Aligned_cols=26 Identities=35% Similarity=0.517 Sum_probs=23.9
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHHh
Q 015264 371 DFEAKVAKLVELGFGREAVIQALKLF 396 (410)
Q Consensus 371 ~~e~~i~~l~~mGf~r~~~~~aL~~~ 396 (410)
..++.+..|+++||++.+|..|+++.
T Consensus 154 ~~~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 154 VFRDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 45789999999999999999999998
No 234
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=59.28 E-value=16 Score=36.06 Aligned_cols=37 Identities=27% Similarity=0.214 Sum_probs=33.3
Q ss_pred hHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 372 FEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 372 ~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
.-+.|.+|-+ -|++=..+.+||..||||...|-+||-
T Consensus 46 ~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~ 83 (340)
T KOG1071|consen 46 SKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLH 83 (340)
T ss_pred cHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHH
Confidence 3568999966 699999999999999999999999983
No 235
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=58.83 E-value=20 Score=39.13 Aligned_cols=42 Identities=19% Similarity=0.283 Sum_probs=37.7
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeec
Q 015264 9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM 50 (410)
Q Consensus 9 ~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L 50 (410)
+...+.+-++++.|+..|++.|...+|+|...|.|+|.|...
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~~ 364 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGLS 364 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCcc
Confidence 467788889999999999999999999999999999987643
No 236
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=58.71 E-value=16 Score=33.40 Aligned_cols=27 Identities=30% Similarity=0.414 Sum_probs=23.9
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDG 398 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~ 398 (410)
.++.+..|.++||++.+|..|+++...
T Consensus 147 ~~e~~~aL~~LGy~~~e~~~ai~~~~~ 173 (191)
T TIGR00084 147 RDELFEALVSLGYKPQEIQQALKKIKN 173 (191)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhh
Confidence 478899999999999999999998743
No 237
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=57.83 E-value=12 Score=34.18 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=23.7
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFD 397 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~ 397 (410)
.++.+..|+++||++.+|.+|++...
T Consensus 142 ~~ea~~AL~~LGy~~~ea~~a~~~~~ 167 (183)
T PRK14601 142 KSEALAALLTLGFKQEKIIKVLASCQ 167 (183)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHhcc
Confidence 47899999999999999999999874
No 238
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.72 E-value=22 Score=32.49 Aligned_cols=26 Identities=23% Similarity=0.415 Sum_probs=23.7
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFD 397 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~ 397 (410)
.++.+..|+++||++.+|..|++...
T Consensus 143 ~~e~~~AL~~LGy~~~ea~~av~~~~ 168 (188)
T PRK14606 143 YHESLEALVSLGYPEKQAREAVKHVY 168 (188)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 57899999999999999999999884
No 239
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=56.63 E-value=25 Score=30.58 Aligned_cols=51 Identities=25% Similarity=0.258 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHhCCccc---cc-eeEEEEEeEecCEeEEEeecCCCcccc
Q 015264 162 EAQKKIEAAIRQKGIDENWAAALEHNPEAF---AR-VVMLYVDMEVNGIPLKAFVDSGAQSTI 220 (410)
Q Consensus 162 E~Q~~i~E~ir~~~i~~n~~~A~e~~Pe~f---~~-~~~ly~~v~Ing~~v~alVDTGA~~s~ 220 (410)
-+|-|..|.|- ++. ...-.+|+- +. ...|||+++++. +-++|||.|.-+-+
T Consensus 41 ~aq~k~~~~~~------aln-~~~~~~eGk~~LVPLTsSlYVPGkl~d-~~k~lVDIGTGYyV 95 (153)
T KOG3048|consen 41 GAQTKYEESIA------ALN-DVQAANEGKKLLVPLTSSLYVPGKLSD-NSKFLVDIGTGYYV 95 (153)
T ss_pred HHHHHHHHHHH------HHh-hcccCCCCCeEEEecccceeccceecc-ccceeEeccCceEE
Confidence 35667777776 565 555566654 33 568999999998 88999999987765
No 240
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=56.38 E-value=19 Score=33.30 Aligned_cols=29 Identities=28% Similarity=0.406 Sum_probs=24.2
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHHhCCC
Q 015264 371 DFEAKVAKLVELGFGREAVIQALKLFDGN 399 (410)
Q Consensus 371 ~~e~~i~~l~~mGf~r~~~~~aL~~~~~n 399 (410)
..++.+..|++|||++.|+.+|+....-+
T Consensus 155 ~~~~~v~AL~~LGy~~~e~~~av~~v~~~ 183 (201)
T COG0632 155 ALEEAVEALVALGYKEKEIKKAVKKVLKE 183 (201)
T ss_pred hhhHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 34556999999999999999999887653
No 241
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=54.73 E-value=50 Score=25.89 Aligned_cols=53 Identities=26% Similarity=0.297 Sum_probs=40.7
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE-eCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li-~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+..+.++++...||.++- +.+|+|..+..++ -||+...-+ |-+++||.|.+..
T Consensus 22 ~~~~~~~~~~~~tvkd~I----EsLGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVI----ESLGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHH----HHcCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence 445777888998887765 4579999998776 589876543 6788999999864
No 242
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=54.57 E-value=46 Score=30.93 Aligned_cols=56 Identities=20% Similarity=0.178 Sum_probs=34.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHhCCCcC---CeEEE--eCCee---cCCCCcccccCCCCCCeEEE
Q 015264 12 IISLDVDPHETVENVKALLEVETQVPLQ---QQQLL--YNGRE---MNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 12 ~~~iev~~~~TV~~LK~~I~~~~gip~~---~q~Li--~~Gk~---L~d~~tL~~~gI~~g~~i~l 69 (410)
.+.+-|+.+.||.||...+..+.+++.+ ..||+ +++|. +..+.+|+.+ .+...+.+
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 4777899999999999999999998765 56664 67865 5567788877 44444444
No 243
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=54.55 E-value=93 Score=27.21 Aligned_cols=28 Identities=32% Similarity=0.361 Sum_probs=24.6
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCHH
Q 015264 374 AKVAKLVELGFGREAVIQALKLFDGNEE 401 (410)
Q Consensus 374 ~~i~~l~~mGf~r~~~~~aL~~~~~n~~ 401 (410)
.+--+|+.||.++.++..-+++-|=|++
T Consensus 117 ~kYfKMl~~GvP~~aVk~KM~~eGlDp~ 144 (148)
T PF10152_consen 117 AKYFKMLKMGVPREAVKQKMQAEGLDPS 144 (148)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHcCCCHH
Confidence 5667788999999999999999998875
No 244
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=54.43 E-value=14 Score=33.67 Aligned_cols=27 Identities=19% Similarity=0.414 Sum_probs=24.2
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDG 398 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~ 398 (410)
.++.+..|+++||++.+|..|+++...
T Consensus 145 ~~e~~~aL~~LGy~~~ea~~al~~v~~ 171 (186)
T PRK14600 145 NDDALAALISLGYEKTKAFNAIQKIKP 171 (186)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 578999999999999999999998753
No 245
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=54.19 E-value=35 Score=31.47 Aligned_cols=26 Identities=27% Similarity=0.342 Sum_probs=23.5
Q ss_pred ChHHHHHHHHhcCCCHHHHHHHHHHh
Q 015264 371 DFEAKVAKLVELGFGREAVIQALKLF 396 (410)
Q Consensus 371 ~~e~~i~~l~~mGf~r~~~~~aL~~~ 396 (410)
..++.+..|+++||++.+|..|++..
T Consensus 151 ~~~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 151 AAEDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 35789999999999999999999986
No 246
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=53.34 E-value=4.8 Score=31.33 Aligned_cols=34 Identities=21% Similarity=0.199 Sum_probs=25.1
Q ss_pred HHHHHhcCC-CHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 376 VAKLVELGF-GREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 376 i~~l~~mGf-~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
|+..+.=.. +..+.+.||-.++.|++.|+.||++
T Consensus 35 vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~ 69 (79)
T PF08938_consen 35 VREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLS 69 (79)
T ss_dssp HHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHH
T ss_pred HHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 344443334 7888999999999999999999985
No 247
>KOG2239 consensus Transcription factor containing NAC and TS-N domains [Transcription]
Probab=52.98 E-value=18 Score=33.08 Aligned_cols=36 Identities=17% Similarity=0.114 Sum_probs=31.0
Q ss_pred hHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 372 FEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 372 ~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
.+.+|.-+|. .+.+|..|++||+..+||+=-|+--|
T Consensus 171 e~kDIeLVmsQanvSR~kAVkALk~~~~DiVnAIM~L 207 (209)
T KOG2239|consen 171 EAKDIELVMSQANVSRAKAVKALKNNNNDIVNAIMEL 207 (209)
T ss_pred chhhHHHHHHHhhhhHHHHHHHHHhccchHHHHHHHh
Confidence 3567988888 59999999999999999998887655
No 248
>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=52.50 E-value=25 Score=28.99 Aligned_cols=56 Identities=16% Similarity=0.144 Sum_probs=39.8
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCcCC-eEEEeCCeecCCCCcccccC---CCCCCeEEEEe
Q 015264 16 DVDPHETVENVKALLEVETQVPLQQ-QQLLYNGREMNNAEKLSALG---VKDEDLVMMVS 71 (410)
Q Consensus 16 ev~~~~TV~~LK~~I~~~~gip~~~-q~Li~~Gk~L~d~~tL~~~g---I~~g~~i~l~~ 71 (410)
=|+.+.||.+|...|.....+++++ +-|+.++..+..+.|+++.- =.++..|++.-
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 3789999999999999999998865 56667887777778876541 12455677764
No 249
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=52.28 E-value=28 Score=27.57 Aligned_cols=52 Identities=19% Similarity=0.254 Sum_probs=28.9
Q ss_pred CCCCHHHHHHHHH-HHhCCCcC----CeEEEeCCee----cCCCCcccccCCCCCCeEEEE
Q 015264 19 PHETVENVKALLE-VETQVPLQ----QQQLLYNGRE----MNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 19 ~~~TV~~LK~~I~-~~~gip~~----~q~Li~~Gk~----L~d~~tL~~~gI~~g~~i~l~ 70 (410)
..+|+.+|-..|- .++|+..- .-+++|..-. -..+++|+++||++|++|.+.
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp TT-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hhCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 4679999988764 45665432 2344454332 112579999999999999886
No 250
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=51.64 E-value=30 Score=31.85 Aligned_cols=26 Identities=15% Similarity=0.226 Sum_probs=23.4
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFD 397 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~ 397 (410)
.++.+..|+++||++.+|..|++...
T Consensus 149 ~~e~~~aL~~LGy~~~ea~~ai~~i~ 174 (195)
T PRK14604 149 DRELSEILISLGYSAAEAAAAIAALP 174 (195)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 47899999999999999999998873
No 251
>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=49.50 E-value=47 Score=25.93 Aligned_cols=64 Identities=19% Similarity=0.329 Sum_probs=41.1
Q ss_pred EEEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEe--CCeecCCCCcccccCCCCCCeEEEEe
Q 015264 3 ITVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 3 I~vk~~~-g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
+.|+..+ ...+-|-. .++.+|+.+....++++.+..+|.. .|..++|+.-+..+ .++..+++..
T Consensus 5 ~kv~~~~r~~k~Gv~A---~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~nT~lm~L~ 71 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVAA---SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL--PDNTVLMLLE 71 (78)
T ss_dssp EEEEETTSSCEEEEEE---SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS--SSSEEEEEEE
T ss_pred EEEecCCCCceEeEEc---CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC--CCCCEEEEEC
Confidence 3455544 33344443 5799999999999999977776664 78888877554443 3455555544
No 252
>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=49.42 E-value=53 Score=26.08 Aligned_cols=67 Identities=22% Similarity=0.240 Sum_probs=48.4
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEE-e-----CCeecCCCC----cccccCCCCCCeEEE
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLL-Y-----NGREMNNAE----KLSALGVKDEDLVMM 69 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li-~-----~Gk~L~d~~----tL~~~gI~~g~~i~l 69 (410)
|.|-..+|....+.|+..+|+.++-.++..+..+..+ ..-|+ + =.|.++|.. -|+.+++..+..+++
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 4555678999999999999999999999999887654 34554 1 246677754 456677755555554
No 253
>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=49.35 E-value=1.2e+02 Score=23.34 Aligned_cols=48 Identities=17% Similarity=0.110 Sum_probs=36.2
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCC--cCCeEEE--eCC----eecCCC-Cccc
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVP--LQQQQLL--YNG----REMNNA-EKLS 57 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip--~~~q~Li--~~G----k~L~d~-~tL~ 57 (410)
+...+|.|+.++|..++-..+..++++. +....|+ +.+ +.|.|+ ..|.
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 5566665 333 456654 4543
No 254
>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=48.93 E-value=1.2e+02 Score=23.32 Aligned_cols=49 Identities=14% Similarity=0.214 Sum_probs=40.6
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCC--eecCCC
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG--REMNNA 53 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~G--k~L~d~ 53 (410)
|-.+||+...+.+.+..||.|.-..+.++-|+.++...++.-| |.|.-+
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~ 54 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLD 54 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccC
Confidence 4467899999999999999999999999999999988887655 455433
No 255
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=48.46 E-value=19 Score=28.33 Aligned_cols=25 Identities=32% Similarity=0.488 Sum_probs=16.1
Q ss_pred HHHHhcCHHHHHHHhhcCHHHHHHh
Q 015264 97 QQHIRNDANLMTQLFQSDPELAQVL 121 (410)
Q Consensus 97 ~~~~~~nP~~l~~l~~~nP~L~~ai 121 (410)
......||+..++|..+||+|+-|+
T Consensus 39 K~l~~~~p~~ar~lL~~nPqLa~Al 63 (84)
T PF14327_consen 39 KQLAQQNPEQARQLLQQNPQLAYAL 63 (84)
T ss_dssp HHHHC----HHHHHHHS-THHHHHH
T ss_pred HHHHHhCHHHHHHHHHHCcHHHHHH
Confidence 3445579999999999999999987
No 256
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=48.01 E-value=29 Score=34.06 Aligned_cols=38 Identities=29% Similarity=0.395 Sum_probs=28.0
Q ss_pred HHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 373 EAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 373 e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
+..+..+++ .|.++++|.++|.+++|++-.|+-.+++|
T Consensus 236 ~ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~a~~~~~~~ 274 (299)
T PRK05441 236 DRAVRIVMEATGVSREEAEAALEAADGSVKLAIVMILTG 274 (299)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 444555666 48888888888888888888888766543
No 257
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=47.28 E-value=57 Score=25.17 Aligned_cols=63 Identities=17% Similarity=0.248 Sum_probs=40.4
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCCCCcccccCCCCCCeEEEE
Q 015264 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 4 ~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.|+..+ +....-|- -.++++|+.+....++++....+|. -.|..++|+.-+..+ .++..+++.
T Consensus 4 kV~~~~-r~~k~GV~-A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tL--p~nt~l~~L 68 (74)
T smart00266 4 KVRDHD-RNVRKGVA-ASSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTL--PDNTELMAL 68 (74)
T ss_pred EEecCC-CCeeEEEE-cCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcC--CCCcEEEEE
Confidence 444432 23334443 3479999999999999997666664 489999887655544 344444443
No 258
>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=46.89 E-value=30 Score=28.87 Aligned_cols=56 Identities=16% Similarity=0.135 Sum_probs=40.2
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCcCC-eEEEeCCeecCCCCccccc----CCCCCCeEEEEe
Q 015264 15 LDVDPHETVENVKALLEVETQVPLQQ-QQLLYNGREMNNAEKLSAL----GVKDEDLVMMVS 71 (410)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~gip~~~-q~Li~~Gk~L~d~~tL~~~----gI~~g~~i~l~~ 71 (410)
+-|+.+.||.+|...|.....+.+++ .-|+.|+.....+.+++++ +-. +..|+|.-
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 45899999999999999999998876 4455566555566666543 433 55677754
No 259
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=46.44 E-value=65 Score=28.85 Aligned_cols=25 Identities=24% Similarity=0.365 Sum_probs=11.1
Q ss_pred HhhCCCCCHHHHHHHHHHHHHHhHH
Q 015264 153 LLYADPFDVEAQKKIEAAIRQKGID 177 (410)
Q Consensus 153 ~l~~dP~~~E~Q~~i~E~ir~~~i~ 177 (410)
.+.+|+||..+-|-..|.|-++.++
T Consensus 84 LI~ad~FDEaavra~a~kma~~~~e 108 (166)
T PRK10363 84 LVTAENFDENAVRAQAEKMAQEQVA 108 (166)
T ss_pred HHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 4445555544444444444333333
No 260
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=44.35 E-value=90 Score=31.73 Aligned_cols=92 Identities=15% Similarity=0.257 Sum_probs=55.1
Q ss_pred eEEEEEeEecCEe--EEEeecCCCcccccCHHHHH-HcCCc-cc-ccc-----------ce-----------------ee
Q 015264 195 VMLYVDMEVNGIP--LKAFVDSGAQSTIISKSCAE-RCGLL-RL-LDD-----------RY-----------------RG 241 (410)
Q Consensus 195 ~~ly~~v~Ing~~--v~alVDTGA~~s~is~~~a~-~lgl~-~~-~~~-----------~~-----------------~~ 241 (410)
.-.|+++.|+-=+ +.+++|||++..-+.-..+. .|... .. .+. .. ..
T Consensus 45 ~~Y~~~i~IGTPpq~f~v~~DTGS~~lWV~c~~c~~~C~~~~~~~f~p~~SSt~~~~~c~~~~c~~~~~~~~~~~~C~y~ 124 (398)
T KOG1339|consen 45 GEYYGNISIGTPPQSFTVVLDTGSDLLWVPCAPCSSACYSQHNPIFDPSASSTYKSVGCSSPRCKSLPQSCSPNSSCPYS 124 (398)
T ss_pred cccEEEEecCCCCeeeEEEEeCCCCceeeccccccccccccCCCccCccccccccccCCCCccccccccCcccCCcCceE
Confidence 3678889987654 88999999999988775555 45431 11 111 00 12
Q ss_pred EeeCCCcceeeeEEEEEeEEEcC--------EEEEEEEEEe---cC-CCCceeeechh
Q 015264 242 VAHGVGQSEILGRIHVAPIKIGN--------VFYPCSFVVL---DS-PNMEFLFGLDM 287 (410)
Q Consensus 242 ~~~g~g~~~~~g~i~~~~l~ig~--------~~~~~~~~Vl---~~-~~~d~iLG~D~ 287 (410)
+..|-| ....|..-...|.+++ ..|-|...-. .. ...|+||||-|
T Consensus 125 i~Ygd~-~~~~G~l~~Dtv~~~~~~~~~~~~~~FGc~~~~~g~~~~~~~~dGIlGLg~ 181 (398)
T KOG1339|consen 125 IQYGDG-SSTSGYLATDTVTFGGTTSLPVPNQTFGCGTNNPGSFGLFAAFDGILGLGR 181 (398)
T ss_pred EEeCCC-CceeEEEEEEEEEEccccccccccEEEEeeecCccccccccccceEeecCC
Confidence 223332 3677888777888887 2232222211 01 45899999974
No 261
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=43.97 E-value=37 Score=33.21 Aligned_cols=41 Identities=17% Similarity=0.046 Sum_probs=30.8
Q ss_pred CChHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhhCC
Q 015264 370 ADFEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLFGG 410 (410)
Q Consensus 370 ~~~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~~g 410 (410)
.-.+..+..+++ .|.++++|.++|..|+|++-.|+-.+++|
T Consensus 228 kl~~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~Ai~~~~~~ 269 (291)
T TIGR00274 228 KLKARAVRIVRQATDCNKELAEQTLLAADQNVKLAIVMILST 269 (291)
T ss_pred HHHHHHHHHHHHHhCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 334566666666 48899999999999999888888766543
No 262
>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=43.51 E-value=22 Score=33.87 Aligned_cols=59 Identities=15% Similarity=0.334 Sum_probs=40.1
Q ss_pred EEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC----Ce--ecCCCCcccccCCCCCCeEEEEecC
Q 015264 15 LDVDPHETVENVKALLEVETQVPLQQQQLLYN----GR--EMNNAEKLSALGVKDEDLVMMVSNA 73 (410)
Q Consensus 15 iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~----Gk--~L~d~~tL~~~gI~~g~~i~l~~~~ 73 (410)
+-|+.+.+|.+|-..|....|+|++.--++|. ++ .++...|+....|.+||+|.+-+..
T Consensus 89 ~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ~~~ 153 (249)
T PF12436_consen 89 VYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQRAP 153 (249)
T ss_dssp EEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEEE--
T ss_pred EEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEEEecc
Confidence 46889999999999999999999986655553 33 3667799999999999999886543
No 263
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=43.23 E-value=1.7e+02 Score=26.21 Aligned_cols=27 Identities=30% Similarity=0.486 Sum_probs=16.2
Q ss_pred HHHhhCCCCCHHHHHHHHHHHHHHhHH
Q 015264 151 MALLYADPFDVEAQKKIEAAIRQKGID 177 (410)
Q Consensus 151 l~~l~~dP~~~E~Q~~i~E~ir~~~i~ 177 (410)
...+.+||||+++-+.+.+.+.+..++
T Consensus 95 ~~Ll~a~~FDeaavral~~~~~~~~~e 121 (170)
T PRK12750 95 QALVLADDFDEAAANDLAKQMVEKQVE 121 (170)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 345667888887766655444444333
No 264
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=42.78 E-value=72 Score=25.97 Aligned_cols=23 Identities=39% Similarity=0.559 Sum_probs=18.6
Q ss_pred EEEeCCeecCCCCcccccCCCCC
Q 015264 42 QLLYNGREMNNAEKLSALGVKDE 64 (410)
Q Consensus 42 ~Li~~Gk~L~d~~tL~~~gI~~g 64 (410)
.|.|.||.|..+++|++|==++.
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNE 25 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNE 25 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCc
Confidence 57899999999999999933333
No 265
>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=42.55 E-value=94 Score=23.92 Aligned_cols=51 Identities=16% Similarity=0.226 Sum_probs=37.8
Q ss_pred EEEEeCCCC----EEEEEeCCCCCHHHHHHHHHHHhCC--CcCCeEEE----eCC--eecCCC
Q 015264 3 ITVMTADEQ----IISLDVDPHETVENVKALLEVETQV--PLQQQQLL----YNG--REMNNA 53 (410)
Q Consensus 3 I~vk~~~g~----~~~iev~~~~TV~~LK~~I~~~~gi--p~~~q~Li----~~G--k~L~d~ 53 (410)
|.|-..++. ..+|.|+.++|+.++-..+..++++ .+....|+ ..| +.|.++
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 445555565 7889999999999999999999998 44566773 223 567654
No 266
>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=41.10 E-value=33 Score=26.07 Aligned_cols=44 Identities=16% Similarity=0.334 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 21 ETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.|+++|....+.++|++ ....+.-+|-.++|=. =|.+||.|+++
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 3334445565554422 25678888763
No 267
>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=41.07 E-value=1.6e+02 Score=24.54 Aligned_cols=53 Identities=21% Similarity=0.249 Sum_probs=37.9
Q ss_pred CEEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhCCC-----cCCeEEE---eCC--eecCCC
Q 015264 1 MRITVMTADEQI--ISLDVDPHETVENVKALLEVETQVP-----LQQQQLL---YNG--REMNNA 53 (410)
Q Consensus 1 M~I~vk~~~g~~--~~iev~~~~TV~~LK~~I~~~~gip-----~~~q~Li---~~G--k~L~d~ 53 (410)
|+.+....+++. ..|.|+.++|+.++.+.+-.++.+. +...-|+ -+| +.|+|+
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 667777766654 4578999999999999999999854 3455554 245 566654
No 268
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=40.87 E-value=1.6e+02 Score=22.51 Aligned_cols=52 Identities=17% Similarity=0.143 Sum_probs=32.8
Q ss_pred EEeCC-CCCHHHHHHHHHHHhC-----CCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 15 LDVDP-HETVENVKALLEVETQ-----VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 15 iev~~-~~TV~~LK~~I~~~~g-----ip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
++++. ..||.+|++.+..+.. ......++..|++...+ +.-|++||.|-+..
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 4799999999988762 11223344456654332 23589999998863
No 269
>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=40.79 E-value=26 Score=34.28 Aligned_cols=35 Identities=17% Similarity=0.380 Sum_probs=27.4
Q ss_pred EEEEEeEecCEe--EEEeecCCCc---------ccccCHHHHHHcC
Q 015264 196 MLYVDMEVNGIP--LKAFVDSGAQ---------STIISKSCAERCG 230 (410)
Q Consensus 196 ~ly~~v~Ing~~--v~alVDTGA~---------~s~is~~~a~~lg 230 (410)
..-+.++++|+. +++|+|||.+ +.++..+.++++-
T Consensus 158 ~~~v~i~~~g~~~~~~alvDTGN~L~DPlT~~PV~Ive~~~~~~~l 203 (288)
T TIGR02854 158 IYELEICLDGKKVTIKGFLDTGNQLRDPLTKLPVIVVEYDSLKSIL 203 (288)
T ss_pred EEEEEEEECCEEEEEEEEEecCCcccCCCCCCCEEEEEHHHhhhhC
Confidence 555678889984 7999999987 4677888887773
No 270
>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=40.17 E-value=67 Score=25.61 Aligned_cols=42 Identities=21% Similarity=0.388 Sum_probs=35.9
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeE-EEeCCeecC
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQ-LLYNGREMN 51 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~-Li~~Gk~L~ 51 (410)
.+.+++.|+++.|=.++|+.|+..+|+++...+ +.+.|+.-.
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 458887544
No 271
>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=39.06 E-value=1.9e+02 Score=26.34 Aligned_cols=64 Identities=14% Similarity=0.137 Sum_probs=38.0
Q ss_pred hHHHHHHHhhCCCCC-----HHHHHHHHHHHHHHhHHHHHHHHHHhCCccccceeEEEEEeEecCEeEEEeecCCC
Q 015264 146 RQEEEMALLYADPFD-----VEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGA 216 (410)
Q Consensus 146 ~~~~el~~l~~dP~~-----~E~Q~~i~E~ir~~~i~~n~~~A~e~~Pe~f~~~~~ly~~v~Ing~~v~alVDTGA 216 (410)
+..+.|..+.+||.. -+++.+|.++.....-+.+++..+..- ||.-+ =|.+.+..+++.|-+.-
T Consensus 101 ~~~e~L~~ii~~~~~s~~~k~~A~~~~~~l~~~~~kE~~iE~llkak--Gf~da-----vv~~~~~~v~VvV~~~~ 169 (196)
T PF12685_consen 101 KQIETLKEIINNENASEEEKKEAQDKLLELTEKMEKEMEIENLLKAK--GFEDA-----VVFIEDDSVDVVVKADK 169 (196)
T ss_dssp HHHHHHHHHHT-TTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--S-SEE-----EEE-SSSEEEEEEE-S-
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCce-----EEEeeCCEEEEEEeCCC
Confidence 455667788899876 456777888888777777777766321 33221 24556667777776644
No 272
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=38.63 E-value=72 Score=26.31 Aligned_cols=45 Identities=13% Similarity=0.167 Sum_probs=31.8
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCc---CCeEEEeCC
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPL---QQQQLLYNG 47 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~---~~q~Li~~G 47 (410)
|+|-..+|.+..|.|....+-.++|..+-.++|++. +.-..+.+|
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~~~~~~~~~v~d~ 50 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPEHPRNYCFYVLDG 50 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS--CCCEEEEEE-S
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCccccccceEEEecc
Confidence 567777899999999999999999999999999887 333444555
No 273
>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=37.57 E-value=77 Score=24.74 Aligned_cols=54 Identities=19% Similarity=0.340 Sum_probs=36.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCCCCcccccCCCCCCeEEEE
Q 015264 14 SLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
..-|- -.++++|+.+....++++....+|+ -.|..++|+.-+..+ .++..+++.
T Consensus 15 k~GV~-A~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tL--p~nT~l~~l 70 (78)
T cd01615 15 KKGVA-ASSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTL--PDNTVLMLL 70 (78)
T ss_pred eEEEE-cCCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcC--CCCcEEEEE
Confidence 34443 3479999999999999976665554 479999887655544 344444444
No 274
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=37.41 E-value=2.1e+02 Score=25.14 Aligned_cols=69 Identities=19% Similarity=0.226 Sum_probs=37.3
Q ss_pred CEEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHh----CCCcCCe----EEEe-CCeecCCCCcccccCCCCCCeEEEE
Q 015264 1 MRITVMTADEQIISLDVD-PHETVENVKALLEVET----QVPLQQQ----QLLY-NGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~-~~~TV~~LK~~I~~~~----gip~~~q----~Li~-~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|||+|.. +...+.|-+. .+.||.+|-++-..++ +..++.. .|.| .|-+|+.+..|.+. +.+.+.|+.+
T Consensus 1 mkvtV~f-g~~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dggiLd~DD~l~dV-~dd~d~liAv 78 (145)
T PF12053_consen 1 MKVTVCF-GRTRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGGILDPDDVLCDV-VDDRDQLIAV 78 (145)
T ss_dssp -EEEEEE-TTEEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS-EE-TTS-HHHH-S-TTEEEEEE
T ss_pred CeEEEEe-CCeEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCceeccccceeEe-ccChhhhhee
Confidence 8999999 3333556665 5689999876554432 3444433 3332 56688877788776 5677788777
Q ss_pred e
Q 015264 71 S 71 (410)
Q Consensus 71 ~ 71 (410)
.
T Consensus 79 y 79 (145)
T PF12053_consen 79 Y 79 (145)
T ss_dssp E
T ss_pred e
Confidence 4
No 275
>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=36.70 E-value=69 Score=30.52 Aligned_cols=35 Identities=9% Similarity=0.120 Sum_probs=28.0
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL 44 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li 44 (410)
+..|.++++..+|..+|-+.|+...+++|+.+||+
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 276
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=36.43 E-value=62 Score=33.29 Aligned_cols=74 Identities=14% Similarity=0.236 Sum_probs=61.2
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEE--eCCeecCC---CCcccccCCCCCCeEEEEecCCC
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMVSNAAS 75 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~d---~~tL~~~gI~~g~~i~l~~~~~~ 75 (410)
+|.||.++|..|+=..+.+.-+..++..|...-++.....-|- |--|+..+ ++||.++.+-+...|+|+.+..+
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 5788999999998889999999999999998877777776663 77888765 37999999999998888865443
No 277
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.11 E-value=72 Score=29.25 Aligned_cols=27 Identities=19% Similarity=0.314 Sum_probs=24.2
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDG 398 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~ 398 (410)
.++.+..|+++||++.+|.+|++..+.
T Consensus 148 ~~e~~~aL~~LGy~~~~a~~ai~~~~~ 174 (194)
T PRK14605 148 NSDILATLTALGYSSSEAAKAISSLGD 174 (194)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhc
Confidence 478899999999999999999999853
No 278
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=35.69 E-value=76 Score=31.52 Aligned_cols=37 Identities=27% Similarity=0.263 Sum_probs=32.7
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
.++.++-|.+-|.+.++|..+++.++|++.+|.+++-
T Consensus 174 ~~~~~~~L~~~~~~~~~a~~~~~l~~G~p~~A~~~~~ 210 (319)
T PRK08769 174 AHEALAWLLAQGVSERAAQEALDAARGHPGLAAQWLR 210 (319)
T ss_pred HHHHHHHHHHcCCChHHHHHHHHHcCCCHHHHHHHhc
Confidence 4677788888899999999999999999999998874
No 279
>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=35.55 E-value=61 Score=28.54 Aligned_cols=54 Identities=15% Similarity=0.300 Sum_probs=37.5
Q ss_pred EEEEeCCCCEEEEEeCC-CCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCC
Q 015264 3 ITVMTADEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDE 64 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~-~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g 64 (410)
++|+. |. +-+++.. ...++.+++.+.+.+.++-+ ++.|+-++...|++|| ++-|
T Consensus 70 L~V~v--Gr-i~lele~~~~~ie~I~~iCee~lpf~y~----i~~G~f~r~~~TvtDY-~KyG 124 (153)
T PF02505_consen 70 LTVKV--GR-IILELEDEEDVIEKIREICEEVLPFGYD----IKEGKFIRTKPTVTDY-AKYG 124 (153)
T ss_pred EEEEE--eE-EEEEecCcHHHHHHHHHHHHHhCCCceE----eeeeEEeccCCchhhh-hhcC
Confidence 44444 54 4467877 77888888888777644332 3469999999999998 4544
No 280
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=35.47 E-value=57 Score=32.00 Aligned_cols=37 Identities=16% Similarity=0.186 Sum_probs=25.9
Q ss_pred HHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 373 EAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 373 e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
+..+..+++ .|.+.++|.++|.+++|++-.|+-.+++
T Consensus 232 ~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~ai~~~~~ 269 (296)
T PRK12570 232 ARAVRIVMQATGCSEDEAKELLKESDNDVKLAILMILT 269 (296)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHhCCccHHHHHHHHh
Confidence 455555555 4888888888888888888777765554
No 281
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=35.15 E-value=46 Score=27.42 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=34.1
Q ss_pred ChHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 371 DFEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 371 ~~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
-..++++-||. |-.++..|.+-||...||+-.|..-|++
T Consensus 79 IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s 118 (119)
T KOG3450|consen 79 IKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS 118 (119)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence 34678888876 8999999999999999999999988875
No 282
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=34.58 E-value=57 Score=34.49 Aligned_cols=34 Identities=18% Similarity=0.117 Sum_probs=16.7
Q ss_pred HHhhCCCCCHH-------HHHHHHHHHHHHhHHHHHHHHHH
Q 015264 152 ALLYADPFDVE-------AQKKIEAAIRQKGIDENWAAALE 185 (410)
Q Consensus 152 ~~l~~dP~~~E-------~Q~~i~E~ir~~~i~~n~~~A~e 185 (410)
..++++|+++= +-+|=.|--.=+|--+|-+.-|-
T Consensus 115 ~n~lN~p~~vl~n~~vfFnKkrEaek~eveNtlkNt~iLlk 155 (574)
T PF07462_consen 115 QNLLNNPTSVLKNFTVFFNKKREAEKKEVENTLKNTEILLK 155 (574)
T ss_pred HHhhcCcHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHH
Confidence 34678997721 23332233333444456666553
No 283
>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=34.54 E-value=64 Score=28.27 Aligned_cols=54 Identities=13% Similarity=0.262 Sum_probs=37.2
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCC
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDE 64 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g 64 (410)
++|+. |. +-+++.....++++++.+.+.+-.+-+ +..|+-++...|++|| ++-|
T Consensus 69 L~V~V--Gr-I~le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~f~r~~~TvtDY-~KyG 122 (150)
T TIGR03260 69 LRVQV--GR-IILELEDEDIVEEIEEICKEMLPFGYE----VRVGKFLRTKPTVTDY-IKYG 122 (150)
T ss_pred EEEEE--eE-EEEEecCHHHHHHHHHHHHhhCCCceE----eeeeeEeecCCchhhh-hhhC
Confidence 44444 54 346777888888888888877654432 3568899999999998 4443
No 284
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=34.44 E-value=44 Score=23.75 Aligned_cols=20 Identities=15% Similarity=0.328 Sum_probs=17.4
Q ss_pred HHHHHHHHhcCCCHHHHHHH
Q 015264 373 EAKVAKLVELGFGREAVIQA 392 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~a 392 (410)
-+.|++||+-|.+..+||..
T Consensus 17 vE~Iq~LMaqGmSsgEAI~~ 36 (51)
T PF03701_consen 17 VERIQELMAQGMSSGEAIAI 36 (51)
T ss_pred HHHHHHHHHhcccHHHHHHH
Confidence 36899999999999999873
No 285
>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=34.41 E-value=1.6e+02 Score=22.76 Aligned_cols=44 Identities=18% Similarity=0.228 Sum_probs=34.7
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCc--CCeEEE--e-CC--eecCCC
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPL--QQQQLL--Y-NG--REMNNA 53 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~--~~q~Li--~-~G--k~L~d~ 53 (410)
+...+|.|+.++|..++-..+..++++.. ....|+ + +| +.|.++
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~ 65 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDD 65 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCC
Confidence 66788999999999999999999999875 456665 3 45 566653
No 286
>smart00144 PI3K_rbd PI3-kinase family, Ras-binding domain. Certain members of the PI3K family possess Ras-binding domains in their N-termini. These regions show some similarity (although not highly significant similarity) to Ras-binding RA domains (unpublished observation).
Probab=34.31 E-value=2.2e+02 Score=23.34 Aligned_cols=68 Identities=24% Similarity=0.254 Sum_probs=44.1
Q ss_pred EEEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHh------CCCcC-CeEEEeCCee--cCCCCcccccC-----CCCCCeE
Q 015264 3 ITVMTAD-EQIISLDVDPHETVENVKALLEVET------QVPLQ-QQQLLYNGRE--MNNAEKLSALG-----VKDEDLV 67 (410)
Q Consensus 3 I~vk~~~-g~~~~iev~~~~TV~~LK~~I~~~~------gip~~-~q~Li~~Gk~--L~d~~tL~~~g-----I~~g~~i 67 (410)
|.|...+ ...+++.++++.|+.+|.+.+-.+. .-+++ +..|--.|+. |..+..|.+|. ++.|..+
T Consensus 20 v~i~~~~~~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~ 99 (108)
T smart00144 20 IVVHLEKDQQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREP 99 (108)
T ss_pred EEEEEccCceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCc
Confidence 4444443 4558899999999999998776651 12233 5667667753 55566666663 5566666
Q ss_pred EEE
Q 015264 68 MMV 70 (410)
Q Consensus 68 ~l~ 70 (410)
+|+
T Consensus 100 ~L~ 102 (108)
T smart00144 100 HLV 102 (108)
T ss_pred eEE
Confidence 665
No 287
>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=34.15 E-value=2.5e+02 Score=24.39 Aligned_cols=54 Identities=19% Similarity=0.435 Sum_probs=36.3
Q ss_pred hHHHHHHHhhCCCCCHHHHHHHHHHHHHHhHHHHHHHHHHhCCccccceeEEEEEeEecCE
Q 015264 146 RQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGI 206 (410)
Q Consensus 146 ~~~~el~~l~~dP~~~E~Q~~i~E~ir~~~i~~n~~~A~e~~Pe~f~~~~~ly~~v~Ing~ 206 (410)
+--.++..+..++.+++.+.+|.++|+ ++..+...-|+ +..+.-+|-..+-.|.
T Consensus 80 ~Fl~eL~kl~~~~~~~~Vk~kil~li~------~W~~~f~~~~~-l~~i~~~y~~L~~~G~ 133 (144)
T cd03568 80 DFTQELKKLINDRVHPTVKEKLREVVK------QWADEFKNDPS-LSLMSDLYKKLKNEGP 133 (144)
T ss_pred HHHHHHHHHhcccCCHHHHHHHHHHHH------HHHHHhCCCcc-cHHHHHHHHHHHHcCC
Confidence 455678888899889999999999999 66666655554 2333333433333333
No 288
>PLN03146 aspartyl protease family protein; Provisional
Probab=34.12 E-value=1.1e+02 Score=31.62 Aligned_cols=27 Identities=15% Similarity=0.393 Sum_probs=22.4
Q ss_pred EEEEEeEecC--EeEEEeecCCCcccccC
Q 015264 196 MLYVDMEVNG--IPLKAFVDSGAQSTIIS 222 (410)
Q Consensus 196 ~ly~~v~Ing--~~v~alVDTGA~~s~is 222 (410)
-.|+++.|+. +++.+++|||++.+-+.
T Consensus 84 ~Y~v~i~iGTPpq~~~vi~DTGS~l~Wv~ 112 (431)
T PLN03146 84 EYLMNISIGTPPVPILAIADTGSDLIWTQ 112 (431)
T ss_pred cEEEEEEcCCCCceEEEEECCCCCcceEc
Confidence 5788999984 57888999999988874
No 289
>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=33.22 E-value=2.2e+02 Score=21.78 Aligned_cols=36 Identities=22% Similarity=0.243 Sum_probs=28.9
Q ss_pred HHHHHHhhCCCCCHHHHHHHHHHHHHHhHHHHHHHHH
Q 015264 148 EEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAAL 184 (410)
Q Consensus 148 ~~el~~l~~dP~~~E~Q~~i~E~ir~~~i~~n~~~A~ 184 (410)
+..+..+ .+|.||+.-.+++..|.|=++-.|+++++
T Consensus 22 ~~a~~~l-~~~~nP~~La~~Q~~~~qYs~~~n~qSs~ 57 (72)
T TIGR02105 22 NDSLAAL-DLPNDPELMAELQFALNQYSAYYNIESTI 57 (72)
T ss_pred HHHHHcc-CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555 78899999999999999988888887765
No 290
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=32.93 E-value=45 Score=29.40 Aligned_cols=25 Identities=28% Similarity=0.567 Sum_probs=19.8
Q ss_pred EEEEeEecC--EeEEEeecCCCccccc
Q 015264 197 LYVDMEVNG--IPLKAFVDSGAQSTII 221 (410)
Q Consensus 197 ly~~v~Ing--~~v~alVDTGA~~s~i 221 (410)
.|++++|+. +++.++||||++.+-+
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 378888877 5799999999987775
No 291
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=32.83 E-value=90 Score=31.14 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=30.0
Q ss_pred HHHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHhhhC
Q 015264 373 EAKVAKLVEL-GFGREAVIQALKLFDGNEEQAAGFLFG 409 (410)
Q Consensus 373 e~~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~l~~ 409 (410)
++..+-|.+- |.+.+++..+++-++|++.+|.+++-+
T Consensus 170 ~~~~~~L~~~~~~~~~~a~~~~~la~G~~~~Al~l~~~ 207 (334)
T PRK07993 170 QYALTWLSREVTMSQDALLAALRLSAGAPGAALALLQP 207 (334)
T ss_pred HHHHHHHHHccCCCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence 4444556664 999999999999999999999988743
No 292
>PF09145 Ubiq-assoc: Ubiquitin-associated; InterPro: IPR015228 Ubiquitin-associated domains contain approximately 40 residues and bind ubiquitin noncovalently. They adopt a secondary structure consisting of three alpha-helices, and have been identified in various modular proteins involved in protein trafficking, clathrin assembly/disassembly, DNA repair, proteasomal degradation, and cell cycle regulation []. ; PDB: 1PGY_A.
Probab=32.76 E-value=25 Score=24.22 Aligned_cols=19 Identities=26% Similarity=0.506 Sum_probs=12.7
Q ss_pred HHHHHHHHhcCCCHHHHHH
Q 015264 373 EAKVAKLVELGFGREAVIQ 391 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~ 391 (410)
+--|++||++|.+-++|..
T Consensus 7 DMEiAkLMSLGLsid~A~~ 25 (46)
T PF09145_consen 7 DMEIAKLMSLGLSIDKAND 25 (46)
T ss_dssp HHHHHHHHHH---SHHHHH
T ss_pred HHHHHHHHHccCCHHHHHH
Confidence 4459999999999888764
No 293
>PRK01905 DNA-binding protein Fis; Provisional
Probab=32.49 E-value=39 Score=25.98 Aligned_cols=24 Identities=21% Similarity=0.307 Sum_probs=21.1
Q ss_pred CCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 384 FGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 384 f~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
|.++-.+++|+.++||...|+..|
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L 60 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL 60 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH
Confidence 567788899999999999999876
No 294
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.03 E-value=35 Score=24.62 Aligned_cols=32 Identities=16% Similarity=0.262 Sum_probs=23.1
Q ss_pred HHHHHHHHhcCCCHHHHHH----HHHHhCCCHHHHH
Q 015264 373 EAKVAKLVELGFGREAVIQ----ALKLFDGNEEQAA 404 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~----aL~~~~~n~~~A~ 404 (410)
-+.|++||+-|.|.-+||+ .||.-..|..++.
T Consensus 17 VE~Iq~lMaeGmSsGEAIa~VA~elRe~hk~~~~~~ 52 (60)
T COG3140 17 VERIQELMAEGMSSGEAIALVAQELRENHKGENRIV 52 (60)
T ss_pred HHHHHHHHHccccchhHHHHHHHHHHHHhccccccc
Confidence 4689999999999888775 5666555544443
No 295
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=32.00 E-value=59 Score=31.45 Aligned_cols=33 Identities=27% Similarity=0.230 Sum_probs=29.2
Q ss_pred HHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHh
Q 015264 374 AKVAKLVEL-GFGREAVIQALKLFDGNEEQAAGF 406 (410)
Q Consensus 374 ~~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~ 406 (410)
-|+.-+|-+ |++-++|.+.|..++|+..+|++.
T Consensus 262 vK~AIvm~~~~~~a~~A~~~L~~~~g~lr~Al~~ 295 (298)
T COG2103 262 VKLAIVMLLTGLSAEEAKRLLERAGGFLRQALSE 295 (298)
T ss_pred cHhHHHHHHhCCCHHHHHHHHHHccChHHHHHhh
Confidence 467778886 899999999999999999999874
No 296
>PRK14011 prefoldin subunit alpha; Provisional
Probab=31.91 E-value=3.3e+02 Score=23.79 Aligned_cols=33 Identities=15% Similarity=0.269 Sum_probs=24.3
Q ss_pred CCccccce-eEEEEEeEecCEeEEEeecCCCcccc
Q 015264 187 NPEAFARV-VMLYVDMEVNGIPLKAFVDSGAQSTI 220 (410)
Q Consensus 187 ~Pe~f~~~-~~ly~~v~Ing~~v~alVDTGA~~s~ 220 (410)
-.|.++.+ ..+||+++|.+ +-++|||-|+.+.+
T Consensus 49 ~~eiLVPLg~s~yV~g~i~d-~dkVlVdIGtGy~V 82 (144)
T PRK14011 49 SEEILIPLGPGAFLKAKIVD-PDKAILGVGSDIYL 82 (144)
T ss_pred CCeEEEEcCCCcEEeEEecC-CCeEEEEccCCeEE
Confidence 45556653 45999999984 34789999998876
No 297
>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=31.34 E-value=1.2e+02 Score=23.77 Aligned_cols=49 Identities=12% Similarity=0.133 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHhCCCcCCeEE--EeCCeecCCCCcccccCCCCCCeEEEEe
Q 015264 21 ETVENVKALLEVETQVPLQQQQL--LYNGREMNNAEKLSALGVKDEDLVMMVS 71 (410)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L--i~~Gk~L~d~~tL~~~gI~~g~~i~l~~ 71 (410)
.++++|+.+....++++....+| .-.|..++++.-+..+ .++..+++..
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 47999999999999998655554 5689999887655544 4555555553
No 298
>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=30.97 E-value=2e+02 Score=23.36 Aligned_cols=65 Identities=20% Similarity=0.247 Sum_probs=43.5
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCc-CCeEEE-e-CC--eecCC-CCc-------ccccCCCCCCeEEE
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLL-Y-NG--REMNN-AEK-------LSALGVKDEDLVMM 69 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~-~~q~Li-~-~G--k~L~d-~~t-------L~~~gI~~g~~i~l 69 (410)
|=..++...++.++.+.||.++-..+..++.++. ...+|+ + +| |+|.. +++ |...|-.+.|-|+.
T Consensus 7 IFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~l~RvL~p~ErPl~IqkrlL~q~GY~~~D~l~~ 84 (97)
T cd01775 7 VFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHDLSRVLRPTEKPLLIQKRLLLQVGYEERDRIED 84 (97)
T ss_pred EEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECCeeeecCCcCCcHHHHHHHHHHcCCCCCCcHHH
Confidence 3344677788999999999999999999998877 344443 3 33 56653 232 45556555555443
No 299
>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=30.57 E-value=1.2e+02 Score=24.41 Aligned_cols=54 Identities=22% Similarity=0.265 Sum_probs=33.4
Q ss_pred EeCCCCCHHHHHHHHHHHhCCCcCCeEEEe-CCe------ecCCC---Ccc--cccCCCCCCeEEEEe
Q 015264 16 DVDPHETVENVKALLEVETQVPLQQQQLLY-NGR------EMNNA---EKL--SALGVKDEDLVMMVS 71 (410)
Q Consensus 16 ev~~~~TV~~LK~~I~~~~gip~~~q~Li~-~Gk------~L~d~---~tL--~~~gI~~g~~i~l~~ 71 (410)
+++...||.+|-..+...+ +...-+|+. +|+ +|-|+ ..| .++-+++||.|.+.+
T Consensus 24 ~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P 89 (94)
T cd01764 24 DGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFIS 89 (94)
T ss_pred cCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEEC
Confidence 3445779999999998876 333334433 221 22232 233 356799999999874
No 300
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=30.31 E-value=88 Score=30.60 Aligned_cols=52 Identities=25% Similarity=0.468 Sum_probs=36.1
Q ss_pred HHhcCHHHHHHHhhcCHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhCCCCCHHHHHHHHHHHH
Q 015264 99 HIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIR 172 (410)
Q Consensus 99 ~~~~nP~~l~~l~~~nP~L~~ai~~~~~~~~~~~l~~~~~~~~~~~~~~~~el~~l~~dP~~~E~Q~~i~E~ir 172 (410)
.+.++|+++.- -.|.+|.++||..+|.++|.+++ ..++.|||.-|. |+|.+|
T Consensus 297 PyKNdPEIlAM-----Tnlv~aYQ~NdI~eFE~Il~~~~--------------~~IM~DpFIReh---~EdLl~ 348 (440)
T KOG1464|consen 297 PYKNDPEILAM-----TNLVAAYQNNDIIEFERILKSNR--------------SNIMDDPFIREH---IEDLLR 348 (440)
T ss_pred CCCCCHHHHHH-----HHHHHHHhcccHHHHHHHHHhhh--------------ccccccHHHHHH---HHHHHH
Confidence 45678887551 24667788899999999998874 136789887553 555555
No 301
>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=29.99 E-value=40 Score=26.21 Aligned_cols=39 Identities=18% Similarity=0.358 Sum_probs=24.1
Q ss_pred HHHHHhCCCcCCeEEEe---CCeecCCCCcccccCCCCCCeEEEE
Q 015264 29 LLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 29 ~I~~~~gip~~~q~Li~---~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.|.+++.+.|+-..|.- .+..|+-+++|.+|||++ |+..
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE---LYA~ 43 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE---LYAW 43 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE---EEEE
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH---HHhh
Confidence 47888899998888873 567888999999999985 5554
No 302
>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=29.97 E-value=1.7e+02 Score=28.96 Aligned_cols=20 Identities=30% Similarity=0.335 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHHHHHHHh
Q 015264 156 ADPFDVEAQKKIEAAIRQKG 175 (410)
Q Consensus 156 ~dP~~~E~Q~~i~E~ir~~~ 175 (410)
..-++||.||+++|-.+++.
T Consensus 299 ~~~lspeeQrK~eeKe~kk~ 318 (321)
T PF07946_consen 299 LSKLSPEEQRKYEEKERKKE 318 (321)
T ss_pred HhcCCHHHHHHHHHHHHHHh
Confidence 45578999999999988764
No 303
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=29.55 E-value=75 Score=31.18 Aligned_cols=33 Identities=24% Similarity=0.209 Sum_probs=27.7
Q ss_pred HHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 375 KVAKLVEL-GFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 375 ~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
++.-+|-+ |++.++|.+.|.+++|++..|++.+
T Consensus 265 k~a~~~~~~~~~~~~a~~~l~~~~g~~~~~~~~~ 298 (299)
T PRK05441 265 KLAIVMILTGLDAAEAKALLARHGGFLRKALAEL 298 (299)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHhhc
Confidence 45666664 7999999999999999999998754
No 304
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=28.94 E-value=4.2e+02 Score=23.62 Aligned_cols=73 Identities=15% Similarity=0.194 Sum_probs=46.4
Q ss_pred cCHHHHHHHhhcCHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhCCCCCHHHHHHHHHHHHHHhHHHHHH
Q 015264 102 NDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWA 181 (410)
Q Consensus 102 ~nP~~l~~l~~~nP~L~~ai~~~~~~~~~~~l~~~~~~~~~~~~~~~~el~~l~~dP~~~E~Q~~i~E~ir~~~i~~n~~ 181 (410)
.||++|-.++.-+-++.++ +|-+.++++=..+ + ++..+..+++...+.+-...|+-..|-++-..+++.+|+.
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-Q---ERIAQCKQQLGEAFESKKYDEALKKILRLRYWYELRKNVH 165 (168)
T ss_pred cCHHHHHHHHHHHHHHHhc---cCcHHHHHHHHHH-H---HHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHh
Confidence 3777777776544444333 3444454444333 2 2233455678777777778899999998888888888765
No 305
>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=28.86 E-value=1.3e+02 Score=23.54 Aligned_cols=55 Identities=15% Similarity=0.184 Sum_probs=35.6
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 13 ISLDVDPHETVENVKALLEVETQVPLQ-QQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
...-|- -.++++|+.+....++++.. ...|.-.|..++|+.-+..+ .++..+++.
T Consensus 14 ~k~GV~-A~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tL--p~nt~l~vL 69 (79)
T cd06538 14 LRKGIM-ADSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQAL--ADNTVFMVL 69 (79)
T ss_pred eeEeEE-cCCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhC--CCCcEEEEE
Confidence 334443 34799999999999999642 24455689999887655554 344444444
No 306
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=28.43 E-value=2.9e+02 Score=27.76 Aligned_cols=53 Identities=17% Similarity=0.106 Sum_probs=32.4
Q ss_pred HhHHHHH-HHHHHhCCccccceeEEEEEeEecCEeEEEee-cCCCcccccCHHHHHHc
Q 015264 174 KGIDENW-AAALEHNPEAFARVVMLYVDMEVNGIPLKAFV-DSGAQSTIISKSCAERC 229 (410)
Q Consensus 174 ~~i~~n~-~~A~e~~Pe~f~~~~~ly~~v~Ing~~v~alV-DTGA~~s~is~~~a~~l 229 (410)
+.|-.|+ .+|++|+|+.-.....+.+.+...+..+.+-| |+|- -|+.+...++
T Consensus 389 ~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~D~G~---Gi~~~~~~~i 443 (494)
T TIGR02938 389 RSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSGP---GIPQDLRYKV 443 (494)
T ss_pred HHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEEeCCC---CCCHHHHHHh
Confidence 3344576 88999987763333345555555566655544 9994 4556665554
No 307
>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=28.42 E-value=1.3e+02 Score=24.07 Aligned_cols=41 Identities=15% Similarity=0.234 Sum_probs=35.9
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeE
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQ 42 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~ 42 (410)
.+.|-.++|..+.+++..+++.+++-+.+..+.|+|.+-..
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 45666788999999999999999999999999999987554
No 308
>PRK05114 hypothetical protein; Provisional
Probab=27.94 E-value=64 Score=23.56 Aligned_cols=19 Identities=16% Similarity=0.359 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCCHHHHHH
Q 015264 373 EAKVAKLVELGFGREAVIQ 391 (410)
Q Consensus 373 e~~i~~l~~mGf~r~~~~~ 391 (410)
-+.|++||+-|.+..+||.
T Consensus 17 VErIq~LMaqGmSsgEAI~ 35 (59)
T PRK05114 17 VERIQELMAQGMSSGEAIA 35 (59)
T ss_pred HHHHHHHHHccccHHHHHH
Confidence 4689999999999999886
No 309
>TIGR03090 SASP_tlp small, acid-soluble spore protein tlp. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. Although previously designated tlp (thioredoxin-like protein), the B. subtilis protein was shown to be a minor small acid-soluble spore protein SASP, unique to spores. The motif E[VIL]XDE near the C-terminus probably represents at a germination protease cleavage site.
Probab=27.92 E-value=78 Score=24.08 Aligned_cols=15 Identities=20% Similarity=0.501 Sum_probs=9.0
Q ss_pred cCCHHHHHHHHHHHH
Q 015264 123 GNDLNKLQDLLRERS 137 (410)
Q Consensus 123 ~~~~~~~~~~l~~~~ 137 (410)
++|.+++++++....
T Consensus 7 sDNVEkLQ~mi~nTi 21 (70)
T TIGR03090 7 SDNVEKLQQMIDNTI 21 (70)
T ss_pred cchHHHHHHHHHHHH
Confidence 456666666666553
No 310
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=27.76 E-value=51 Score=26.61 Aligned_cols=24 Identities=21% Similarity=0.216 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 384 FGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 384 f~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
|.+.-...+|+.++||...|+..|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 567778899999999999999876
No 311
>PF06234 TmoB: Toluene-4-monooxygenase system protein B (TmoB); InterPro: IPR009355 This family consists of several Toluene-4-monooxygenase system protein B (TmoB) sequences. Pseudomonas mendocina KR1 metabolises toluene as a carbon source. The initial step of the pathway is hydroxylation of toluene to form p-cresol by a multicomponent toluene-4-monooxygenase (T4MO) system [].; PDB: 3N1Y_C 3RNG_C 3RNA_C 3RN9_C 3RNC_C 3N1X_C 3RNE_C 3RNF_C 3N1Z_C 3N20_C ....
Probab=27.58 E-value=1.8e+02 Score=23.10 Aligned_cols=58 Identities=16% Similarity=0.226 Sum_probs=41.2
Q ss_pred EEEEeCCCCCHHHHHHHHHHHh-C--CCc---CCeEEEeCC--eecCCCCcccccCCCCCCeEEEE
Q 015264 13 ISLDVDPHETVENVKALLEVET-Q--VPL---QQQQLLYNG--REMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~-g--ip~---~~q~Li~~G--k~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.-+.|+.++|+.++-++++... | +++ ...++.++| +.+..+.|+++.||++-+.|-+.
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~ 82 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVR 82 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEE
Confidence 4467999999999999998764 3 333 246777898 88999999999999998888764
No 312
>PRK10455 periplasmic protein; Reviewed
Probab=27.51 E-value=2.6e+02 Score=24.87 Aligned_cols=7 Identities=43% Similarity=0.653 Sum_probs=3.0
Q ss_pred hCCCCCH
Q 015264 155 YADPFDV 161 (410)
Q Consensus 155 ~~dP~~~ 161 (410)
.+|+||.
T Consensus 92 ~ad~FDe 98 (161)
T PRK10455 92 ASDTFDK 98 (161)
T ss_pred ccCccCH
Confidence 3444443
No 313
>PHA00431 internal virion protein C
Probab=27.40 E-value=3.5e+02 Score=29.33 Aligned_cols=83 Identities=23% Similarity=0.338 Sum_probs=52.7
Q ss_pred CChHHHHHHHhc-------CHHHHHHHhh---------cCHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhHHHHHH-H
Q 015264 91 VNPAAFQQHIRN-------DANLMTQLFQ---------SDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMA-L 153 (410)
Q Consensus 91 ~~p~~~~~~~~~-------nP~~l~~l~~---------~nP~L~~ai~~~~~~~~~~~l~~~~~~~~~~~~~~~~el~-~ 153 (410)
..|++.++.+.+ ||-.|+.|+. -.-+++..|.+++. +-|+.|.+.+.++-+ +.-..++ .
T Consensus 80 LTPEQrReAi~nGTLLYQDDPYAMeALr~KtGRnaAy~VDdev~~Ki~nGeF-rtRqemEEyRhsrL~---e~aksyAE~ 155 (746)
T PHA00431 80 LTPEQRREAIKNGTLLYQDDPYAMEALRFKTGRNAAYLVDDEVAQKIKNGEF-RTRQEMEEYRHSRLQ---ESAKSYAEQ 155 (746)
T ss_pred cCHHHHHHHHhcCceeecCCHHHHHHHHHHhccchhhhccHHHHHHHhccCc-ccHHHHHHHHHHHHH---HHHHHHHHH
Confidence 467777776643 8999998865 45566777754333 455666554333222 2222332 3
Q ss_pred hhCCCCCHHHHHHHHHHHHHHhHH
Q 015264 154 LYADPFDVEAQKKIEAAIRQKGID 177 (410)
Q Consensus 154 l~~dP~~~E~Q~~i~E~ir~~~i~ 177 (410)
.-=||.|++.|+=.---|-++||.
T Consensus 156 ~GInp~D~~fq~GFnsdIteRNia 179 (746)
T PHA00431 156 FGINPTDEEYQRGFNSDITERNIA 179 (746)
T ss_pred hCCCCCCHHHHhhcccchHhhhHH
Confidence 447999999999888777777775
No 314
>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=27.26 E-value=1.4e+02 Score=23.45 Aligned_cols=63 Identities=10% Similarity=0.100 Sum_probs=39.3
Q ss_pred EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCC--eEE--EeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQ--QQL--LYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 4 ~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~--q~L--i~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
.|+..+ .....-|- -.++++|+.+....+.++.+. .+| .-.|..++|+.-+..+ .++..+++.
T Consensus 6 kV~~~~-r~~k~GV~-A~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tL--p~nT~l~~L 72 (80)
T cd06536 6 VVCNVS-RQKQHGVA-ASSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCL--PPNTKFVLL 72 (80)
T ss_pred EEecCC-CCeeEeEE-cCCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhC--CCCcEEEEE
Confidence 444433 22333443 347999999999999998432 444 4589999887655554 345545544
No 315
>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=27.18 E-value=1.7e+02 Score=22.81 Aligned_cols=38 Identities=18% Similarity=0.114 Sum_probs=33.2
Q ss_pred EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeE
Q 015264 5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQ 42 (410)
Q Consensus 5 vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~ 42 (410)
|-..+|....+-|.+++|+.|+-+.....-++.|+.--
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~ 41 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHY 41 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHhe
Confidence 55678999999999999999999999999999887643
No 316
>PRK03830 small acid-soluble spore protein Tlp; Provisional
Probab=26.38 E-value=85 Score=24.09 Aligned_cols=39 Identities=18% Similarity=0.281 Sum_probs=22.2
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhCCCCCHHHHHHHHH
Q 015264 123 GNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEA 169 (410)
Q Consensus 123 ~~~~~~~~~~l~~~~~~~~~~~~~~~~el~~l~~dP~~~E~Q~~i~E 169 (410)
++|.+++++++........+. ..+++.-.+++.++.|+|
T Consensus 8 sDNVEkLQ~mi~nTieNi~eA--------ee~l~~~~~~~~~~~i~e 46 (73)
T PRK03830 8 SDNVEKLQEMIQNTIENIEEA--------EETIAEEDSEKEKQAIEE 46 (73)
T ss_pred cchHHHHHHHHHHHHHHHHHH--------HHHHHHhCCHHHHHHHHH
Confidence 467888888887764322222 234455555666665554
No 317
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=26.35 E-value=2.5e+02 Score=20.23 Aligned_cols=59 Identities=20% Similarity=0.208 Sum_probs=39.4
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecCCCCcccccCCCCCCeEEEE
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~ 70 (410)
|+|.+++|+... ++...|+.|+=..|....+-. -..-..||+...-+. -|++||+|.+.
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~~~--~~~A~Vng~~vdl~~-----~L~~~d~v~ii 59 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLAKR--AVAAKVNGQLVDLDH-----PLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHHC--EEEEEETTEEEETTS-----BB-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHhh--eeEEEEcCEECCCCC-----CcCCCCEEEEE
Confidence 466778898754 778899999999999876411 112236887665554 45667777664
No 318
>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=26.26 E-value=74 Score=23.28 Aligned_cols=22 Identities=5% Similarity=0.222 Sum_probs=18.1
Q ss_pred HHHHHHHhcCHHHHHHHhhcCH
Q 015264 94 AAFQQHIRNDANLMTQLFQSDP 115 (410)
Q Consensus 94 ~~~~~~~~~nP~~l~~l~~~nP 115 (410)
+.+++.+.+||+++++|++.+-
T Consensus 3 Q~iV~YLv~nPevl~kl~~g~a 24 (57)
T PF05952_consen 3 QEIVNYLVQNPEVLEKLKEGEA 24 (57)
T ss_pred HHHHHHHHHChHHHHHHHcCCe
Confidence 4578889999999999988653
No 319
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=26.21 E-value=78 Score=30.99 Aligned_cols=31 Identities=23% Similarity=0.148 Sum_probs=25.8
Q ss_pred HHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHH
Q 015264 375 KVAKLVEL-GFGREAVIQALKLFDGNEEQAAG 405 (410)
Q Consensus 375 ~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~ 405 (410)
+++-||-+ |++.++|.+.|.+++|++..|++
T Consensus 260 k~Ai~~~~~~~~~~~a~~~l~~~~g~~~~~l~ 291 (291)
T TIGR00274 260 KLAIVMILSTLSASEAKVLLDRHGGFLRQALD 291 (291)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHcCCcHHHhhC
Confidence 45556654 89999999999999999999863
No 320
>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=26.09 E-value=2.3e+02 Score=21.78 Aligned_cols=57 Identities=16% Similarity=0.194 Sum_probs=41.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeC-CeecCCCCcccccCCCCCCeEEE
Q 015264 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYN-GREMNNAEKLSALGVKDEDLVMM 69 (410)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~-Gk~L~d~~tL~~~gI~~g~~i~l 69 (410)
..+.|+.+.....+-...++++.+|+..-.++-+ |--+...+|..+.=++.|+.|.|
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrl 75 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRL 75 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeee
Confidence 3468988888888888999999999988887754 65566677877777778887765
No 321
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=25.99 E-value=66 Score=32.18 Aligned_cols=65 Identities=11% Similarity=0.080 Sum_probs=51.1
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHh-CCCcCCeEEEeCC---eecCC--CCcccccCCCCCCe
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVET-QVPLQQQQLLYNG---REMNN--AEKLSALGVKDEDL 66 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~-gip~~~q~Li~~G---k~L~d--~~tL~~~gI~~g~~ 66 (410)
.|.||.++|+......-.+.+|..|-..+..+. |-+-+..+|+.+= |.|.. +.||.++||++-.+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 478899999886666678889999998888776 4666778998765 66653 57999999998765
No 322
>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=25.81 E-value=1.3e+02 Score=23.80 Aligned_cols=58 Identities=9% Similarity=0.079 Sum_probs=39.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHhCCCcCC-eEEEeCCeec-CCCCcccc---cCCCCCCeEEEEec
Q 015264 14 SLDVDPHETVENVKALLEVETQVPLQQ-QQLLYNGREM-NNAEKLSA---LGVKDEDLVMMVSN 72 (410)
Q Consensus 14 ~iev~~~~TV~~LK~~I~~~~gip~~~-q~Li~~Gk~L-~d~~tL~~---~gI~~g~~i~l~~~ 72 (410)
.+-|+.+.|+++|...|..+.++.+++ .-|+.|...+ ..+.++++ +- +++..|++.-.
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Ys 81 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSYC 81 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEEe
Confidence 455899999999999999999998776 4444455423 33455433 33 56777777643
No 323
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=25.78 E-value=52 Score=31.52 Aligned_cols=33 Identities=24% Similarity=0.312 Sum_probs=27.5
Q ss_pred hHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHH
Q 015264 372 FEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAA 404 (410)
Q Consensus 372 ~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~ 404 (410)
.+..+..+++ .|.++++|.++|.+++|++..|+
T Consensus 222 ~~ra~~i~~~~~~~~~~~a~~~l~~~~~~~k~a~ 255 (257)
T cd05007 222 RERAIRIVMEATGVSRDEAEAALEQAGGDVKTAI 255 (257)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHhCCCceeee
Confidence 3556667777 49999999999999999998775
No 324
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=25.66 E-value=2e+02 Score=23.95 Aligned_cols=39 Identities=15% Similarity=0.295 Sum_probs=32.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHHhCCCcCCeEEEeCCeecC
Q 015264 13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN 51 (410)
Q Consensus 13 ~~iev~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~ 51 (410)
..+.|+++.|++-+-..|....+++++++..+|=..-..
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFA 85 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFA 85 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccC
Confidence 456899999999999999999999999888777544443
No 325
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=25.27 E-value=1.9e+02 Score=23.15 Aligned_cols=40 Identities=23% Similarity=0.305 Sum_probs=34.4
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeE-EEeCCee
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQ-LLYNGRE 49 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~-Li~~Gk~ 49 (410)
.+.+.+.|+...|=.++|..|+..+|+++...+ +.+.|+.
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 567999999999999999999999999998765 4566654
No 326
>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=25.03 E-value=2.5e+02 Score=22.71 Aligned_cols=59 Identities=22% Similarity=0.246 Sum_probs=38.2
Q ss_pred EEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHH--hCCCc----CCeEEEeCCe--ecCCCCcccccC
Q 015264 2 RITVMTA-DEQIISLDVDPHETVENVKALLEVE--TQVPL----QQQQLLYNGR--EMNNAEKLSALG 60 (410)
Q Consensus 2 ~I~vk~~-~g~~~~iev~~~~TV~~LK~~I~~~--~gip~----~~q~Li~~Gk--~L~d~~tL~~~g 60 (410)
.|.|... .+..+++.++.+.|+.+|-..+-.+ .+..+ ++..|--.|+ -|..+.+|.+|.
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 3566899999999999999877666 22222 2567777775 356777787773
No 327
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=24.84 E-value=3.5e+02 Score=21.37 Aligned_cols=43 Identities=14% Similarity=0.205 Sum_probs=33.6
Q ss_pred EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEEe
Q 015264 2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLY 45 (410)
Q Consensus 2 ~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li~ 45 (410)
+|++.. +|......++++.|.+.|.+++...+....+ ...+.|
T Consensus 2 ~~K~~y-~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw 45 (83)
T cd06404 2 RVKAAY-NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKW 45 (83)
T ss_pred eEEEEe-cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 344445 6888888999999999999999999987664 345555
No 328
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=24.44 E-value=98 Score=30.36 Aligned_cols=31 Identities=35% Similarity=0.322 Sum_probs=26.8
Q ss_pred HHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHH
Q 015264 375 KVAKLVEL-GFGREAVIQALKLFDGNEEQAAG 405 (410)
Q Consensus 375 ~i~~l~~m-Gf~r~~~~~aL~~~~~n~~~A~~ 405 (410)
++.-||-+ |++.++|.+.|.+++|+...|++
T Consensus 261 k~ai~~~~~~~~~~~a~~~l~~~~~~~~~~l~ 292 (296)
T PRK12570 261 KLAILMILTGMDVEQARAALSHADGFLRKAIE 292 (296)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHcCChHHHHHH
Confidence 46667664 79999999999999999999986
No 329
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=23.96 E-value=1.2e+02 Score=22.00 Aligned_cols=36 Identities=14% Similarity=0.232 Sum_probs=30.1
Q ss_pred hHHHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHhh
Q 015264 372 FEAKVAKLVE-LGFGREAVIQALKLFDGNEEQAAGFL 407 (410)
Q Consensus 372 ~e~~i~~l~~-mGf~r~~~~~aL~~~~~n~~~A~~~l 407 (410)
.+-.|+-... +|.++++..+|-++.|++...=..||
T Consensus 19 e~~ev~ywa~~~gvt~~~L~~AV~~vG~~~~~V~~~L 55 (57)
T PF12244_consen 19 EPYEVRYWAKRFGVTEEQLREAVRAVGNSRAAVRAYL 55 (57)
T ss_pred CHHHHHHHHHHHCcCHHHHHHHHHHHCcCHHHHHHHH
Confidence 3556888876 79999999999999999987766665
No 330
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=23.55 E-value=1.2e+02 Score=21.26 Aligned_cols=28 Identities=14% Similarity=0.061 Sum_probs=22.0
Q ss_pred hcCCCHHHHHHHHHHhCCCHHHHHHhhh
Q 015264 381 ELGFGREAVIQALKLFDGNEEQAAGFLF 408 (410)
Q Consensus 381 ~mGf~r~~~~~aL~~~~~n~~~A~~~l~ 408 (410)
...++..-..+=|||-.||++.|...|-
T Consensus 26 ~~~~~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 26 KEDHDDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp TSS-SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred cCCCCHHHHHHHHHHccCCHHHHHHHHH
Confidence 3456788899999999999999998774
No 331
>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=23.34 E-value=1.8e+02 Score=22.83 Aligned_cols=66 Identities=11% Similarity=0.150 Sum_probs=40.6
Q ss_pred EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCcC-CeEEEeCCeecCCCCcccccCCCCCCeEEEEec
Q 015264 3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN 72 (410)
Q Consensus 3 I~vk~~~g~~~~iev~~~~TV~~LK~~I~~~~gip~~-~q~Li~~Gk~L~d~~tL~~~gI~~g~~i~l~~~ 72 (410)
+.|++.+.. ...-|- -.++++|+.+....++++.. ...|.-.|..++++.-+..+ .++..+++...
T Consensus 5 fkv~~~~r~-~kkGV~-A~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tL--pdnT~lm~L~~ 71 (81)
T cd06537 5 FRVCDHKRT-VRKGLT-AASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELL--EDDTCLMVLEQ 71 (81)
T ss_pred eEEecCCCC-eeEeEE-ccCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhC--CCCCEEEEECC
Confidence 345554322 233332 34689999999999998733 34444689999887655544 45555655543
No 332
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=23.09 E-value=1.8e+02 Score=23.00 Aligned_cols=44 Identities=20% Similarity=0.180 Sum_probs=34.3
Q ss_pred CCE-EEEEeCCCCCHHHHHHHHHHHhCC-CcCCeEEE--eCC--eecCCC
Q 015264 10 EQI-ISLDVDPHETVENVKALLEVETQV-PLQQQQLL--YNG--REMNNA 53 (410)
Q Consensus 10 g~~-~~iev~~~~TV~~LK~~I~~~~gi-p~~~q~Li--~~G--k~L~d~ 53 (410)
|.+ .++-|.+.+|.++|=.+++.++.| .|+...|+ -+| ..|.|+
T Consensus 12 gct~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd 61 (87)
T cd01776 12 GCTGKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPD 61 (87)
T ss_pred CceeeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcc
Confidence 443 678999999999999999999997 56777776 355 356665
No 333
>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=22.35 E-value=5.7e+02 Score=29.13 Aligned_cols=34 Identities=12% Similarity=0.090 Sum_probs=22.3
Q ss_pred HHHHhhcCHHHHHHhccC-CHHHHHHHHHHHHHHH
Q 015264 107 MTQLFQSDPELAQVLLGN-DLNKLQDLLRERSRQR 140 (410)
Q Consensus 107 l~~l~~~nP~L~~ai~~~-~~~~~~~~l~~~~~~~ 140 (410)
.+.|+..--.|.+|+.++ +.+++.++|......+
T Consensus 502 ~~~Lr~AQ~aL~eAL~~gAsdeEI~~Lm~eLR~Am 536 (851)
T TIGR02302 502 ERRLRAAQDALKDALERGASDEEIKQLTDKLRAAM 536 (851)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 455666667788888755 3567777776654443
No 334
>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=22.04 E-value=1e+02 Score=27.95 Aligned_cols=51 Identities=27% Similarity=0.330 Sum_probs=37.2
Q ss_pred HHHHHHhhCCCCCHHHHHHHHHHHHHHhHHHHHHHHHHhCCccccceeEEEEEeEecCEeE
Q 015264 148 EEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPL 208 (410)
Q Consensus 148 ~~el~~l~~dP~~~E~Q~~i~E~ir~~~i~~n~~~A~e~~Pe~f~~~~~ly~~v~Ing~~v 208 (410)
..++.+|++||...-+.+||+..|. |-...++---|+|...-=-| ++++|+
T Consensus 72 e~~ie~L~~d~~IIRnr~KI~Avi~------NA~~~l~i~~esf~~ylW~f----v~~~Pi 122 (179)
T TIGR00624 72 DADVERLLQDDGIIRNRGKIEATIA------NARAALQLEQNDLVEFLWSF----VNHQPQ 122 (179)
T ss_pred HHHHHHHhcCccchhhHHHHHHHHH------HHHHHHHHHHccHHHHHHhc----cCCCCc
Confidence 4668889999999999999999999 76666644445777654444 355553
No 335
>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=21.99 E-value=94 Score=24.87 Aligned_cols=41 Identities=24% Similarity=0.437 Sum_probs=23.5
Q ss_pred HHHHHHHhcCHHHHHHHhhcCHHHHHHhccCCHHHHHHHHH
Q 015264 94 AAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLR 134 (410)
Q Consensus 94 ~~~~~~~~~nP~~l~~l~~~nP~L~~ai~~~~~~~~~~~l~ 134 (410)
+.+++.+++||++.+-|....|+|-+..-..+...|.+.+.
T Consensus 22 ~~l~~~vl~dp~V~~Fl~~h~~eLt~~~i~rsl~kLyEy~~ 62 (94)
T PF07319_consen 22 EQLKQEVLSDPEVQAFLQEHQPELTQEMIERSLSKLYEYVS 62 (94)
T ss_dssp HHHHHHHTT-HHHHHHHHHSTTT--HHHHHHTHHHHHHHHH
T ss_pred HHHHHHHHcCHHHHHHHHHhHHhcCHHHHHHHHHHHHHHHH
Confidence 55777888888877777654477776543344445544443
No 336
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=21.93 E-value=1.2e+02 Score=33.82 Aligned_cols=52 Identities=19% Similarity=0.373 Sum_probs=42.1
Q ss_pred CCCEEEEEeCC-CCCHHHHHHHHHHHhCCCcCCeEEEe-CCeecCCCCcccccC
Q 015264 9 DEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLY-NGREMNNAEKLSALG 60 (410)
Q Consensus 9 ~g~~~~iev~~-~~TV~~LK~~I~~~~gip~~~q~Li~-~Gk~L~d~~tL~~~g 60 (410)
.|+..+++... ..|+.+||..|+.+.|+....+.+.- +|..+.-++.|..|.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~S 56 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEIS 56 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhc
Confidence 47888888764 56999999999999999998888875 566777777776665
No 337
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=21.86 E-value=1.6e+02 Score=26.76 Aligned_cols=27 Identities=26% Similarity=0.359 Sum_probs=24.5
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCC
Q 015264 372 FEAKVAKLVELGFGREAVIQALKLFDG 398 (410)
Q Consensus 372 ~e~~i~~l~~mGf~r~~~~~aL~~~~~ 398 (410)
.++.+..|.++||++.+|.++++..+.
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 578999999999999999999999864
No 338
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=21.73 E-value=68 Score=23.38 Aligned_cols=32 Identities=19% Similarity=0.363 Sum_probs=22.7
Q ss_pred CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHH
Q 015264 1 MRITVMTADEQIISLDVDPHETVENVKALLEV 32 (410)
Q Consensus 1 M~I~vk~~~g~~~~iev~~~~TV~~LK~~I~~ 32 (410)
|.|++.+.+|+.|.++...-..-.-||.+++.
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~ 32 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLED 32 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHC
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhh
Confidence 78999999999999985443344556666764
No 339
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=20.46 E-value=1.8e+02 Score=27.61 Aligned_cols=13 Identities=0% Similarity=0.020 Sum_probs=7.0
Q ss_pred CCCCCCeEEEEec
Q 015264 60 GVKDEDLVMMVSN 72 (410)
Q Consensus 60 gI~~g~~i~l~~~ 72 (410)
++=.|..+.|...
T Consensus 119 ~lf~g~~~il~p~ 131 (258)
T PF02153_consen 119 DLFEGRNWILCPG 131 (258)
T ss_dssp TTTTTSEEEEEEC
T ss_pred cccCCCeEEEeCC
Confidence 3335666666643
No 340
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=20.41 E-value=6.6e+02 Score=28.48 Aligned_cols=34 Identities=15% Similarity=0.160 Sum_probs=22.0
Q ss_pred HHHHhhcCHHHHHHhccC-CHHHHHHHHHHHHHHH
Q 015264 107 MTQLFQSDPELAQVLLGN-DLNKLQDLLRERSRQR 140 (410)
Q Consensus 107 l~~l~~~nP~L~~ai~~~-~~~~~~~~l~~~~~~~ 140 (410)
.+.|+..--.|.+||.++ +.+++.++|..-...+
T Consensus 471 ~~~Lr~AQe~L~eAL~~gAs~eEI~rLm~eLR~A~ 505 (820)
T PF13779_consen 471 ERRLRAAQEALREALERGASDEEIARLMQELREAM 505 (820)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 444555667788888765 4567777776654443
No 341
>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=20.33 E-value=2.3e+02 Score=21.98 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=30.2
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHhCCCcCCeEE
Q 015264 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQL 43 (410)
Q Consensus 10 g~~~~iev~~~~TV~~LK~~I~~~~gip~~~q~L 43 (410)
.+.+.+.|+.+.+=.++|..|+..+++.+...+-
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 3679999999999999999999999998877654
No 342
>PRK08507 prephenate dehydrogenase; Validated
Probab=20.07 E-value=2.4e+02 Score=26.84 Aligned_cols=10 Identities=10% Similarity=0.275 Sum_probs=3.8
Q ss_pred CHHHHHHHHH
Q 015264 125 DLNKLQDLLR 134 (410)
Q Consensus 125 ~~~~~~~~l~ 134 (410)
||+.++.++.
T Consensus 220 ~p~l~~~i~~ 229 (275)
T PRK08507 220 SPAMWSDIFK 229 (275)
T ss_pred CHHHHHHHHH
Confidence 3333333333
Done!