Query 042094
Match_columns 485
No_of_seqs 283 out of 1779
Neff 9.8
Searched_HMMs 46136
Date Fri Mar 29 02:49:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042094.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042094hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08284 RVP_2: Retroviral asp 99.9 2E-26 4.3E-31 190.2 13.7 117 325-443 16-133 (135)
2 cd05479 RP_DDI RP_DDI; retrope 99.9 1.6E-22 3.6E-27 165.7 14.1 111 328-439 14-124 (124)
3 cd05484 retropepsin_like_LTR_2 99.8 2.7E-18 6E-23 133.0 10.9 90 332-423 2-91 (91)
4 PF09668 Asp_protease: Asparty 99.7 1.7E-16 3.7E-21 126.7 12.2 101 329-431 23-124 (124)
5 cd05480 NRIP_C NRIP_C; putativ 99.6 1.7E-14 3.6E-19 107.5 10.0 99 334-433 2-102 (103)
6 PF00077 RVP: Retroviral aspar 99.6 1.3E-14 2.9E-19 114.8 9.7 96 330-431 5-100 (100)
7 PF12384 Peptidase_A2B: Ty3 tr 99.6 4.3E-14 9.4E-19 114.9 11.5 100 329-428 33-132 (177)
8 TIGR02281 clan_AA_DTGA clan AA 99.5 2.3E-13 4.9E-18 110.6 14.1 105 328-434 9-116 (121)
9 PF13650 Asp_protease_2: Aspar 99.5 1.3E-13 2.9E-18 106.9 10.8 87 333-421 1-90 (90)
10 PF02160 Peptidase_A3: Caulifl 99.4 1.2E-12 2.6E-17 112.6 10.8 112 332-446 8-123 (201)
11 cd05483 retropepsin_like_bacte 99.4 1.8E-12 4E-17 101.7 11.1 92 330-423 2-96 (96)
12 TIGR03698 clan_AA_DTGF clan AA 99.4 2.1E-12 4.6E-17 102.4 11.4 93 339-437 14-107 (107)
13 cd06095 RP_RTVL_H_like Retrope 99.4 3.6E-12 7.8E-17 97.2 9.5 85 333-423 1-86 (86)
14 KOG0012 DNA damage inducible p 99.4 2.4E-12 5.1E-17 118.0 8.9 116 329-446 234-350 (380)
15 cd00303 retropepsin_like Retro 99.3 1.9E-11 4.1E-16 93.9 11.0 90 334-423 2-92 (92)
16 PF13975 gag-asp_proteas: gag- 99.3 1.9E-11 4.1E-16 89.5 8.4 64 327-390 5-69 (72)
17 cd05481 retropepsin_like_LTR_1 99.2 6.6E-11 1.4E-15 91.1 9.5 84 335-420 3-90 (93)
18 cd06094 RP_Saci_like RP_Saci_l 99.0 1.6E-09 3.4E-14 80.2 7.4 79 341-426 9-88 (89)
19 COG3577 Predicted aspartyl pro 99.0 5E-09 1.1E-13 89.3 10.0 100 329-430 104-206 (215)
20 PF03732 Retrotrans_gag: Retro 98.6 2.5E-08 5.5E-13 78.0 4.2 67 113-179 1-96 (96)
21 COG5550 Predicted aspartyl pro 98.5 1.1E-06 2.3E-11 68.9 9.6 91 342-438 27-118 (125)
22 cd05482 HIV_retropepsin_like R 98.5 8.6E-07 1.9E-11 66.6 8.4 86 334-423 2-87 (87)
23 PF00098 zf-CCHC: Zinc knuckle 98.4 1.6E-07 3.5E-12 47.8 1.2 17 272-288 2-18 (18)
24 PF03564 DUF1759: Protein of u 98.3 2E-06 4.3E-11 72.9 6.7 77 85-163 1-81 (145)
25 PF05585 DUF1758: Putative pep 98.2 3.9E-06 8.4E-11 72.6 7.3 71 340-411 11-83 (164)
26 PF12382 Peptidase_A2E: Retrot 98.0 1.8E-05 3.9E-10 58.8 5.9 76 342-418 48-123 (137)
27 PF13696 zf-CCHC_2: Zinc knuck 97.0 0.00025 5.5E-09 41.5 0.9 19 271-289 9-27 (32)
28 PF14893 PNMA: PNMA 96.6 0.008 1.7E-07 57.2 8.2 109 79-187 163-284 (331)
29 PF14787 zf-CCHC_5: GAG-polypr 96.4 0.0012 2.5E-08 39.4 0.8 21 270-290 2-22 (36)
30 COG4067 Uncharacterized protei 96.3 0.013 2.8E-07 48.0 6.5 93 339-433 37-154 (162)
31 PF13917 zf-CCHC_3: Zinc knuck 96.1 0.0022 4.7E-08 40.5 0.9 19 270-288 4-22 (42)
32 smart00343 ZnF_C2HC zinc finge 96.1 0.0025 5.5E-08 36.0 1.0 17 272-288 1-17 (26)
33 PF05618 Zn_protease: Putative 95.4 0.068 1.5E-06 44.3 7.2 92 339-434 14-131 (138)
34 cd05476 pepsin_A_like_plant Ch 95.4 0.098 2.1E-06 49.1 9.3 86 342-442 177-263 (265)
35 cd06096 Plasmepsin_5 Plasmepsi 94.7 0.11 2.4E-06 50.4 7.7 93 341-442 231-323 (326)
36 COG5082 AIR1 Arginine methyltr 94.2 0.018 4E-07 49.4 0.8 22 266-287 56-77 (190)
37 cd05477 gastricsin Gastricsins 93.5 0.59 1.3E-05 45.1 10.2 94 342-441 202-317 (318)
38 cd06098 phytepsin Phytepsin, a 93.4 0.47 1E-05 45.8 9.3 95 342-440 211-316 (317)
39 cd05485 Cathepsin_D_like Cathe 93.3 0.3 6.6E-06 47.4 7.7 93 342-440 211-328 (329)
40 cd05478 pepsin_A Pepsin A, asp 93.2 0.7 1.5E-05 44.6 10.1 100 335-440 194-316 (317)
41 COG5222 Uncharacterized conser 92.9 0.048 1E-06 49.6 1.4 19 271-289 177-195 (427)
42 COG5082 AIR1 Arginine methyltr 92.9 0.045 9.7E-07 47.0 1.1 19 271-289 98-117 (190)
43 cd05486 Cathespin_E Cathepsin 92.4 0.45 9.8E-06 45.9 7.5 91 343-440 200-315 (316)
44 PF00026 Asp: Eukaryotic aspar 92.4 0.25 5.4E-06 47.6 5.7 94 341-440 199-315 (317)
45 cd05474 SAP_like SAPs, pepsin- 92.2 0.49 1.1E-05 45.0 7.5 95 341-440 178-293 (295)
46 PTZ00368 universal minicircle 91.9 0.078 1.7E-06 44.8 1.4 16 272-287 105-120 (148)
47 PF14392 zf-CCHC_4: Zinc knuck 91.9 0.054 1.2E-06 36.0 0.2 19 269-287 30-48 (49)
48 cd06097 Aspergillopepsin_like 91.8 0.23 5E-06 46.9 4.6 79 341-440 198-277 (278)
49 KOG0109 RNA-binding protein LA 91.6 0.1 2.2E-06 47.7 1.7 22 272-293 162-183 (346)
50 PF02023 SCAN: SCAN domain; I 91.5 0.47 1E-05 36.5 5.2 39 167-205 48-86 (95)
51 PF15288 zf-CCHC_6: Zinc knuck 91.2 0.13 2.9E-06 31.9 1.5 20 271-290 2-23 (40)
52 cd05472 cnd41_like Chloroplast 91.2 1.4 3E-05 42.1 9.3 27 414-441 270-296 (299)
53 cd05488 Proteinase_A_fungi Fun 90.0 1.9 4E-05 41.7 9.2 93 342-440 206-319 (320)
54 cd05471 pepsin_like Pepsin-lik 90.0 0.35 7.6E-06 45.6 4.0 82 340-440 201-282 (283)
55 PTZ00147 plasmepsin-1; Provisi 89.5 1.4 3.1E-05 44.6 8.1 97 342-442 333-449 (453)
56 cd05490 Cathepsin_D2 Cathepsin 88.9 1.2 2.6E-05 43.1 7.0 93 342-440 207-324 (325)
57 PTZ00013 plasmepsin 4 (PM4); P 88.3 2.2 4.8E-05 43.2 8.5 95 342-441 332-447 (450)
58 cd05474 SAP_like SAPs, pepsin- 87.5 3.3 7.1E-05 39.4 8.9 72 332-420 4-79 (295)
59 PF14223 UBN2: gag-polypeptide 86.7 2.7 5.9E-05 33.8 6.7 87 123-209 3-115 (119)
60 cd05487 renin_like Renin stimu 86.4 2.5 5.5E-05 40.9 7.5 92 343-441 209-325 (326)
61 PF00026 Asp: Eukaryotic aspar 86.0 2.1 4.5E-05 41.1 6.7 86 332-420 3-113 (317)
62 PF03539 Spuma_A9PTase: Spumav 86.0 3.8 8.2E-05 33.7 6.8 82 337-426 1-84 (163)
63 PTZ00368 universal minicircle 85.4 0.45 9.7E-06 40.2 1.5 19 271-289 28-46 (148)
64 cd05470 pepsin_retropepsin_lik 84.2 4.2 9.2E-05 31.9 6.6 27 334-360 2-30 (109)
65 KOG4400 E3 ubiquitin ligase in 83.9 0.45 9.8E-06 44.4 0.9 18 271-288 144-161 (261)
66 PLN03146 aspartyl protease fam 83.5 2.2 4.8E-05 43.1 5.8 28 414-442 399-426 (431)
67 PTZ00147 plasmepsin-1; Provisi 83.3 5.4 0.00012 40.5 8.4 89 330-421 139-252 (453)
68 PRK04406 hypothetical protein; 83.1 6.6 0.00014 28.6 6.5 44 2-45 5-55 (75)
69 PTZ00013 plasmepsin 4 (PM4); P 83.1 4.8 0.0001 40.8 7.9 88 331-421 139-251 (450)
70 PTZ00165 aspartyl protease; Pr 82.5 7.3 0.00016 39.9 9.0 28 414-442 419-446 (482)
71 cd05475 nucellin_like Nucellin 81.5 2.8 6.1E-05 39.4 5.4 85 342-441 178-270 (273)
72 cd05476 pepsin_A_like_plant Ch 81.1 6.1 0.00013 36.9 7.5 75 332-421 3-88 (265)
73 PRK02793 phi X174 lysis protei 81.0 9.5 0.00021 27.6 6.6 45 1-45 1-52 (72)
74 cd05473 beta_secretase_like Be 77.9 6.6 0.00014 38.7 6.9 27 415-442 319-345 (364)
75 cd06097 Aspergillopepsin_like 75.3 11 0.00024 35.4 7.5 87 333-421 3-114 (278)
76 cd07936 SCAN SCAN oligomerizat 73.8 7.5 0.00016 29.2 4.6 39 165-203 45-83 (85)
77 cd05472 cnd41_like Chloroplast 73.0 11 0.00025 35.7 7.0 78 332-421 3-89 (299)
78 KOG0107 Alternative splicing f 72.8 1.9 4.2E-05 36.6 1.3 18 271-288 101-118 (195)
79 PRK00736 hypothetical protein; 70.8 27 0.00059 24.9 6.7 45 3-47 7-51 (68)
80 cd05477 gastricsin Gastricsins 70.5 20 0.00043 34.5 8.1 88 331-421 4-115 (318)
81 KOG3116 Predicted C3H1-type Zn 70.3 1.2 2.6E-05 36.3 -0.4 22 271-292 28-49 (177)
82 cd05487 renin_like Renin stimu 70.2 18 0.00039 34.9 7.7 89 330-421 8-121 (326)
83 PF14541 TAXi_C: Xylanase inhi 67.5 28 0.0006 29.6 7.5 29 411-440 132-160 (161)
84 PF09006 Surfac_D-trimer: Lung 66.4 13 0.00029 23.9 3.8 25 3-27 1-25 (46)
85 cd05489 xylanase_inhibitor_I_l 65.1 39 0.00085 33.2 8.9 25 415-440 335-359 (362)
86 cd05478 pepsin_A Pepsin A, asp 63.8 26 0.00057 33.6 7.4 89 330-421 10-122 (317)
87 PF04102 SlyX: SlyX; InterPro 63.7 21 0.00045 25.5 5.0 45 3-47 6-50 (69)
88 KOG0119 Splicing factor 1/bran 62.1 3.9 8.4E-05 40.6 1.2 19 271-289 286-304 (554)
89 PRK02119 hypothetical protein; 62.0 49 0.0011 24.0 6.6 43 3-45 4-53 (73)
90 PRK00295 hypothetical protein; 61.4 56 0.0012 23.3 6.8 45 3-47 7-51 (68)
91 cd05488 Proteinase_A_fungi Fun 60.7 39 0.00084 32.5 7.9 89 330-421 10-122 (320)
92 cd05486 Cathespin_E Cathepsin 60.0 33 0.00071 32.9 7.3 86 333-421 3-112 (316)
93 PRK04325 hypothetical protein; 58.5 33 0.00072 24.9 5.3 42 4-45 12-53 (74)
94 COG2916 Hns DNA-binding protei 57.9 46 0.00099 27.0 6.4 42 2-43 16-57 (128)
95 PF13961 DUF4219: Domain of un 57.7 13 0.00028 21.0 2.4 21 85-105 1-21 (27)
96 PRK00846 hypothetical protein; 57.1 69 0.0015 23.5 6.6 43 5-47 17-59 (77)
97 smart00431 SCAN leucine rich r 56.5 23 0.00049 28.1 4.4 39 166-204 46-84 (113)
98 COG2900 SlyX Uncharacterized p 56.4 58 0.0012 23.4 5.9 45 3-47 3-54 (72)
99 PTZ00165 aspartyl protease; Pr 55.6 59 0.0013 33.4 8.5 32 330-361 120-153 (482)
100 COG2383 Uncharacterized conser 55.5 3.9 8.4E-05 31.1 0.0 20 415-434 50-69 (109)
101 KOG0341 DEAD-box protein abstr 55.0 5.5 0.00012 38.5 0.9 18 271-288 571-588 (610)
102 PF11471 Sugarporin_N: Maltopo 53.9 20 0.00044 24.8 3.3 25 6-30 30-54 (60)
103 PF12353 eIF3g: Eukaryotic tra 52.2 7.8 0.00017 31.7 1.3 21 269-290 105-125 (128)
104 KOG4400 E3 ubiquitin ligase in 52.0 7.4 0.00016 36.3 1.3 22 269-290 163-184 (261)
105 KOG2673 Uncharacterized conser 51.9 7.3 0.00016 38.4 1.2 19 271-289 129-147 (485)
106 KOG2044 5'-3' exonuclease HKE1 49.6 6.1 0.00013 41.7 0.3 18 270-287 260-277 (931)
107 PRK10328 DNA binding protein, 47.1 1.3E+02 0.0027 24.9 7.5 37 1-37 21-57 (134)
108 PF06637 PV-1: PV-1 protein (P 45.6 73 0.0016 30.9 6.6 28 5-32 353-380 (442)
109 KOG2560 RNA splicing factor - 44.9 5 0.00011 39.4 -1.1 19 268-286 110-128 (529)
110 PF06156 DUF972: Protein of un 44.8 64 0.0014 25.4 5.3 46 3-48 10-55 (107)
111 PF04508 Pox_A_type_inc: Viral 44.6 24 0.00053 19.1 2.0 17 3-19 3-19 (23)
112 PF02761 Cbl_N2: CBL proto-onc 42.0 18 0.00039 27.0 1.7 38 119-156 5-42 (85)
113 PF14227 UBN2_2: gag-polypepti 40.2 1.8E+02 0.004 22.9 8.5 87 122-208 3-112 (119)
114 PF05515 Viral_NABP: Viral nuc 39.2 27 0.00058 28.0 2.4 24 265-288 57-80 (124)
115 PF05377 FlaC_arch: Flagella a 39.2 1.1E+02 0.0024 20.8 4.9 44 3-46 2-45 (55)
116 smart00647 IBR In Between Ring 37.0 18 0.00039 25.0 1.1 16 271-286 49-64 (64)
117 PRK13729 conjugal transfer pil 36.5 1.6E+02 0.0036 29.8 7.8 15 4-18 79-93 (475)
118 PF00170 bZIP_1: bZIP transcri 34.1 1.1E+02 0.0024 21.3 4.7 33 3-35 28-60 (64)
119 cd06098 phytepsin Phytepsin, a 33.3 47 0.001 31.9 3.6 89 330-421 10-123 (317)
120 PF01485 IBR: IBR domain; Int 33.2 15 0.00033 25.4 0.1 16 271-286 49-64 (64)
121 PRK13169 DNA replication intia 32.6 1.3E+02 0.0029 23.8 5.3 45 3-47 10-54 (110)
122 PRK10947 global DNA-binding tr 32.4 1.1E+02 0.0024 25.2 5.0 40 1-40 21-60 (135)
123 KOG1339 Aspartyl protease [Pos 30.5 2E+02 0.0044 28.6 7.7 97 342-441 269-391 (398)
124 PF12329 TMF_DNA_bd: TATA elem 30.5 1.2E+02 0.0025 22.1 4.4 19 3-21 35-53 (74)
125 cd05475 nucellin_like Nucellin 29.7 55 0.0012 30.6 3.3 47 332-384 4-53 (273)
126 cd05490 Cathepsin_D2 Cathepsin 29.2 58 0.0012 31.4 3.5 89 330-421 6-120 (325)
127 PF11880 DUF3400: Domain of un 29.0 7.3 0.00016 24.8 -1.8 23 401-425 9-31 (45)
128 cd06096 Plasmepsin_5 Plasmepsi 28.9 62 0.0014 31.2 3.7 28 331-358 4-33 (326)
129 PF14543 TAXi_N: Xylanase inhi 27.8 70 0.0015 27.3 3.4 23 333-355 3-27 (164)
130 cd05485 Cathepsin_D_like Cathe 27.6 64 0.0014 31.2 3.5 89 330-421 11-125 (329)
131 PF14244 UBN2_3: gag-polypepti 26.5 1.6E+02 0.0034 24.7 5.3 27 79-105 7-33 (152)
132 PF05531 NPV_P10: Nucleopolyhe 26.4 1.8E+02 0.0038 21.2 4.6 21 3-23 13-33 (75)
133 cd05473 beta_secretase_like Be 25.9 68 0.0015 31.5 3.4 88 331-421 4-113 (364)
134 smart00338 BRLZ basic region l 25.6 1.7E+02 0.0037 20.3 4.5 33 3-35 28-60 (65)
135 PF13821 DUF4187: Domain of un 25.2 38 0.00082 23.0 1.0 22 267-288 24-49 (55)
136 PF12124 Nsp3_PL2pro: Coronavi 23.5 40 0.00088 22.2 0.8 28 417-444 27-54 (66)
137 PF15205 PLAC9: Placenta-speci 23.2 2.2E+02 0.0047 20.1 4.3 34 4-37 21-54 (74)
138 COG1644 RPB10 DNA-directed RNA 23.1 38 0.00082 23.4 0.6 9 271-279 5-13 (63)
139 cd05471 pepsin_like Pepsin-lik 22.9 78 0.0017 29.4 3.1 88 333-423 3-115 (283)
140 PHA03125 dUTPase; Provisional 22.0 1.3E+02 0.0027 29.1 4.0 75 405-480 279-361 (376)
141 PF07889 DUF1664: Protein of u 20.7 2E+02 0.0043 23.5 4.4 34 4-37 64-97 (126)
142 PRK00846 hypothetical protein; 20.5 1.8E+02 0.004 21.3 3.8 19 4-22 9-27 (77)
143 PF04102 SlyX: SlyX; InterPro 20.3 1.4E+02 0.0031 21.2 3.3 33 5-37 1-33 (69)
144 KOG3497 DNA-directed RNA polym 20.3 41 0.00088 23.0 0.4 9 271-279 5-13 (69)
145 PF06103 DUF948: Bacterial pro 20.3 2.4E+02 0.0051 21.1 4.7 17 3-19 28-44 (90)
146 KOG3794 CBF1-interacting corep 20.3 48 0.001 32.2 1.0 21 269-289 123-145 (453)
No 1
>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=99.94 E-value=2e-26 Score=190.24 Aligned_cols=117 Identities=30% Similarity=0.593 Sum_probs=105.2
Q ss_pred CCCCCeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccc-ccceEEEEccCCeeeecceEeeeEEeecceEEEE
Q 042094 325 ATPQNTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTT-TTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHL 403 (485)
Q Consensus 325 ~~~~~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~-~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~ 403 (485)
...+.++...+.|++.++.+|||||||||||+.++|.+++++..+ ..++.|..+ |..+.+.+.|..|.+.++|+.+..
T Consensus 16 ~~~~~vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~~-g~~~~~~~~~~~~~~~i~g~~~~~ 94 (135)
T PF08284_consen 16 EESPDVITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSAP-GGSINCEGVCPDVPLSIQGHEFVV 94 (135)
T ss_pred cCCCCeEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEecc-cccccccceeeeEEEEECCeEEEe
Confidence 345678999999999999999999999999999999999999865 467777754 556777888999999999999999
Q ss_pred EEEEcCCCCCCeeechhHHhhcCCeEEEccCcEEEEEECC
Q 042094 404 DFFLLPVSGCDIVLGAEWLRSLGAILWDFSKLTMQFTWKG 443 (485)
Q Consensus 404 ~~~V~~~~~~dvILG~dwL~~~~~i~id~~~~~~~~~~~~ 443 (485)
+|+|+++.++|+|||||||.+|+| .|||.+++|+|..+.
T Consensus 95 dl~vl~l~~~DvILGm~WL~~~~~-~IDw~~k~v~f~~p~ 133 (135)
T PF08284_consen 95 DLLVLDLGGYDVILGMDWLKKHNP-VIDWATKTVTFNSPS 133 (135)
T ss_pred eeEEecccceeeEeccchHHhCCC-EEEccCCEEEEeCCC
Confidence 999999999999999999999999 799999999998753
No 2
>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=99.89 E-value=1.6e-22 Score=165.69 Aligned_cols=111 Identities=14% Similarity=0.217 Sum_probs=97.3
Q ss_pred CCeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEE
Q 042094 328 QNTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFL 407 (485)
Q Consensus 328 ~~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V 407 (485)
...+++.+.|||+++.+||||||++|||+.++|+++|++.....++.+..+++....+.+.+..+.+.+++..+.++|.|
T Consensus 14 ~~~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~~~~~l~i~~~~~~~~~~V 93 (124)
T cd05479 14 VPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRIHLAQVKIGNLFLPCSFTV 93 (124)
T ss_pred eeEEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEEEEEEEEECCEEeeeEEEE
Confidence 35789999999999999999999999999999999999865555566655654445667878889999999999999999
Q ss_pred cCCCCCCeeechhHHhhcCCeEEEccCcEEEE
Q 042094 408 LPVSGCDIVLGAEWLRSLGAILWDFSKLTMQF 439 (485)
Q Consensus 408 ~~~~~~dvILG~dwL~~~~~i~id~~~~~~~~ 439 (485)
++..++|+|||||||.++++ .|||.+++|+|
T Consensus 94 l~~~~~d~ILG~d~L~~~~~-~ID~~~~~i~~ 124 (124)
T cd05479 94 LEDDDVDFLIGLDMLKRHQC-VIDLKENVLRI 124 (124)
T ss_pred ECCCCcCEEecHHHHHhCCe-EEECCCCEEEC
Confidence 99999999999999999996 89999999874
No 3
>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=99.77 E-value=2.7e-18 Score=133.01 Aligned_cols=90 Identities=19% Similarity=0.282 Sum_probs=83.6
Q ss_pred EEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCC
Q 042094 332 RLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVS 411 (485)
Q Consensus 332 ~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~ 411 (485)
++.+.|||+++.+||||||++|||+++.+.+++++........+.++||+.+.+.|.+ .+.+.+++..+.++|+|++..
T Consensus 2 ~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~-~~~v~~~~~~~~~~~~v~~~~ 80 (91)
T cd05484 2 TVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI-LVTVKYGGKTKVLTLYVVKNE 80 (91)
T ss_pred EEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE-EEEEEECCEEEEEEEEEEECC
Confidence 5789999999999999999999999999999999875556889999999999998887 789999999999999999988
Q ss_pred CCCeeechhHHh
Q 042094 412 GCDIVLGAEWLR 423 (485)
Q Consensus 412 ~~dvILG~dwL~ 423 (485)
++.|||+|||+
T Consensus 81 -~~~lLG~~wl~ 91 (91)
T cd05484 81 -GLNLLGRDWLD 91 (91)
T ss_pred -CCCccChhhcC
Confidence 99999999984
No 4
>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=99.70 E-value=1.7e-16 Score=126.68 Aligned_cols=101 Identities=18% Similarity=0.274 Sum_probs=78.0
Q ss_pred CeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEE-EEccCCeeeecceEeeeEEeecceEEEEEEEE
Q 042094 329 NTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQV-TVADGGVISSSGKCSHVPVNSQGFQFHLDFFL 407 (485)
Q Consensus 329 ~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v-~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V 407 (485)
..+++.+.|||++++|+|||||.+|+||.++|+++||.......+.- ..+-|. ..+.|+...+++.+++..+++.|.|
T Consensus 23 ~mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~~lid~r~~g~a~GvG~-~~i~G~Ih~~~l~ig~~~~~~s~~V 101 (124)
T PF09668_consen 23 SMLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLMRLIDKRFAGVAKGVGT-QKILGRIHSVQLKIGGLFFPCSFTV 101 (124)
T ss_dssp ---EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGGGGEEGGG-EE--------EEEEEEEEEEEEETTEEEEEEEEE
T ss_pred ceEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCChhhccccccccccCCCc-CceeEEEEEEEEEECCEEEEEEEEE
Confidence 46799999999999999999999999999999999997533222222 222243 4567888889999999999999999
Q ss_pred cCCCCCCeeechhHHhhcCCeEEE
Q 042094 408 LPVSGCDIVLGAEWLRSLGAILWD 431 (485)
Q Consensus 408 ~~~~~~dvILG~dwL~~~~~i~id 431 (485)
++....|+|||.|||.+|.. .||
T Consensus 102 le~~~~d~llGld~L~~~~c-~ID 124 (124)
T PF09668_consen 102 LEDQDVDLLLGLDMLKRHKC-CID 124 (124)
T ss_dssp ETTSSSSEEEEHHHHHHTT--EEE
T ss_pred eCCCCcceeeeHHHHHHhCc-ccC
Confidence 99888999999999999998 687
No 5
>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=99.58 E-value=1.7e-14 Score=107.47 Aligned_cols=99 Identities=9% Similarity=0.111 Sum_probs=83.2
Q ss_pred EEEECCeEEEEEEcCCCCccccCHHHHhhcCCccc-cccce-EEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCC
Q 042094 334 KGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVT-TTTQF-QVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVS 411 (485)
Q Consensus 334 ~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~-~~~~~-~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~ 411 (485)
.+++||++++|+|||||.+|+||+.+|+++||... ....+ -+.-.-|+...+.|+...+++.|++..++..|.|++..
T Consensus 2 nCk~nG~~vkAfVDsGaQ~timS~~caercgL~r~v~~~r~~g~A~gvgt~~kiiGrih~~~ikig~~~~~CSftVld~~ 81 (103)
T cd05480 2 SCQCAGKELRALVDTGCQYNLISAACLDRLGLKERVLKAKAEEEAPSLPTSVKVIGQIERLVLQLGQLTVECSAQVVDDN 81 (103)
T ss_pred ceeECCEEEEEEEecCCchhhcCHHHHHHcChHhhhhhccccccccCCCcceeEeeEEEEEEEEeCCEEeeEEEEEEcCC
Confidence 46799999999999999999999999999999743 22121 22323355556789999999999999999999999998
Q ss_pred CCCeeechhHHhhcCCeEEEcc
Q 042094 412 GCDIVLGAEWLRSLGAILWDFS 433 (485)
Q Consensus 412 ~~dvILG~dwL~~~~~i~id~~ 433 (485)
..|++||.|.|.+|.. .||.+
T Consensus 82 ~~d~llGLdmLkrhqc-~IdL~ 102 (103)
T cd05480 82 EKNFSLGLQTLKSLKC-VINLE 102 (103)
T ss_pred CcceEeeHHHHhhcce-eeecc
Confidence 9999999999999998 79865
No 6
>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=99.57 E-value=1.3e-14 Score=114.80 Aligned_cols=96 Identities=23% Similarity=0.378 Sum_probs=82.7
Q ss_pred eEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcC
Q 042094 330 TMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLP 409 (485)
Q Consensus 330 ~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~ 409 (485)
..++.+.++|..+.|||||||++|+|+++.+..++.. ......+..++|.. ...+. ..+.+.+++..+...|+|++
T Consensus 5 rp~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~--~~~~~~v~~~~g~~-~~~~~-~~~~v~~~~~~~~~~~~v~~ 80 (100)
T PF00077_consen 5 RPYITVKINGKKIKALLDTGADVSIISEKDWKKLGPP--PKTSITVRGAGGSS-SILGS-TTVEVKIGGKEFNHTFLVVP 80 (100)
T ss_dssp SSEEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE--EEEEEEEEETTEEE-EEEEE-EEEEEEETTEEEEEEEEESS
T ss_pred CceEEEeECCEEEEEEEecCCCcceeccccccccccc--ccCCceeccCCCcc-eeeeE-EEEEEEEECccceEEEEecC
Confidence 4578899999999999999999999999999877655 45577888999987 65554 57899999999999999999
Q ss_pred CCCCCeeechhHHhhcCCeEEE
Q 042094 410 VSGCDIVLGAEWLRSLGAILWD 431 (485)
Q Consensus 410 ~~~~dvILG~dwL~~~~~i~id 431 (485)
....| |||+|||.+++. .|+
T Consensus 81 ~~~~~-ILG~D~L~~~~~-~i~ 100 (100)
T PF00077_consen 81 DLPMN-ILGRDFLKKLNA-VIN 100 (100)
T ss_dssp TCSSE-EEEHHHHTTTTC-EEE
T ss_pred CCCCC-EeChhHHHHcCC-EEC
Confidence 87778 999999999997 564
No 7
>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=99.56 E-value=4.3e-14 Score=114.93 Aligned_cols=100 Identities=15% Similarity=0.239 Sum_probs=88.9
Q ss_pred CeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEc
Q 042094 329 NTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLL 408 (485)
Q Consensus 329 ~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~ 408 (485)
++..+.+.++|..+++|+||||..|||+.+++++|+|+.....+++++++.+...........++|.+++..+.+.+||+
T Consensus 33 ~T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~~~~~tsEAv~ld~~i~n~~i~i~aYV~ 112 (177)
T PF12384_consen 33 KTAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSGESATTSEAVTLDFYIDNKLIDIAAYVT 112 (177)
T ss_pred cEEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccCCceEEEEeEEEEEEECCeEEEEEEEEe
Confidence 57788999999999999999999999999999999999988889999987655444444556789999999999999999
Q ss_pred CCCCCCeeechhHHhhcCCe
Q 042094 409 PVSGCDIVLGAEWLRSLGAI 428 (485)
Q Consensus 409 ~~~~~dvILG~dwL~~~~~i 428 (485)
+..++|+|+|.++|++|..+
T Consensus 113 d~m~~dlIIGnPiL~ryp~l 132 (177)
T PF12384_consen 113 DNMDHDLIIGNPILDRYPTL 132 (177)
T ss_pred ccCCcceEeccHHHhhhHHH
Confidence 99999999999999999753
No 8
>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family. This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Sequences in the seed alignment and those scoring above the trusted cutoff are Proteobacterial; homologs scroing between trusted and noise are found in Pyrobaculum aerophilum str. IM2 (archaeal), Pirellula sp. (Planctomycetes), and Nostoc sp. PCC 7120 (Cyanobacteria).
Probab=99.53 E-value=2.3e-13 Score=110.60 Aligned_cols=105 Identities=19% Similarity=0.276 Sum_probs=85.3
Q ss_pred CCeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccc-ccceEEEEccCCeeeecceEeeeEEeecceEEE-EEE
Q 042094 328 QNTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTT-TTQFQVTVADGGVISSSGKCSHVPVNSQGFQFH-LDF 405 (485)
Q Consensus 328 ~~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~-~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~-~~~ 405 (485)
...+++.+.|||+++.+||||||++++|++++|++||+.... ..+..+.+++|.... ....--.+.+++..+. +.+
T Consensus 9 ~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~~~~~~~~ta~G~~~~--~~~~l~~l~iG~~~~~nv~~ 86 (121)
T TIGR02281 9 DGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRLGYTVTVSTANGQIKA--ARVTLDRVAIGGIVVNDVDA 86 (121)
T ss_pred CCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccCCceEEEEeCCCcEEE--EEEEeCEEEECCEEEeCcEE
Confidence 356899999999999999999999999999999999998643 347788899997542 2223347899999876 899
Q ss_pred EEcCCC-CCCeeechhHHhhcCCeEEEccC
Q 042094 406 FLLPVS-GCDIVLGAEWLRSLGAILWDFSK 434 (485)
Q Consensus 406 ~V~~~~-~~dvILG~dwL~~~~~i~id~~~ 434 (485)
.|+|.. ..+.|||||||..+..+++|-..
T Consensus 87 ~v~~~~~~~~~LLGm~fL~~~~~~~~~~~~ 116 (121)
T TIGR02281 87 MVAEGGALSESLLGMSFLNRLSRFTVRGGK 116 (121)
T ss_pred EEeCCCcCCceEcCHHHHhccccEEEECCE
Confidence 999876 35899999999999865666543
No 9
>PF13650 Asp_protease_2: Aspartyl protease
Probab=99.52 E-value=1.3e-13 Score=106.89 Aligned_cols=87 Identities=22% Similarity=0.357 Sum_probs=72.9
Q ss_pred EEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccccc-ceEEEEccCCeeeecceEeeeEEeecceEE-EEEEEEcC-
Q 042094 333 LKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTT-QFQVTVADGGVISSSGKCSHVPVNSQGFQF-HLDFFLLP- 409 (485)
Q Consensus 333 ~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~-~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~-~~~~~V~~- 409 (485)
|++.|||+++.+||||||+.|+|+++++++++++..... ...+..++|........ --.+.+++..+ .+++.|++
T Consensus 1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~i~ig~~~~~~~~~~v~~~ 78 (90)
T PF13650_consen 1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKSVPISVSGAGGSVTVYRGR--VDSITIGGITLKNVPFLVVDL 78 (90)
T ss_pred CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCceeEEEEeCCCCEEEEEEE--EEEEEECCEEEEeEEEEEECC
Confidence 468899999999999999999999999999999876543 67888999984332332 33799999887 78999999
Q ss_pred CCCCCeeechhH
Q 042094 410 VSGCDIVLGAEW 421 (485)
Q Consensus 410 ~~~~dvILG~dw 421 (485)
...+|.|||+||
T Consensus 79 ~~~~~~iLG~df 90 (90)
T PF13650_consen 79 GDPIDGILGMDF 90 (90)
T ss_pred CCCCEEEeCCcC
Confidence 567999999998
No 10
>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=99.42 E-value=1.2e-12 Score=112.58 Aligned_cols=112 Identities=21% Similarity=0.282 Sum_probs=88.7
Q ss_pred EEEEEECC---eEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEc
Q 042094 332 RLKGNLKK---HGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLL 408 (485)
Q Consensus 332 ~~~~~i~~---~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~ 408 (485)
.+.+.+.| ..+.++|||||+.++++..+.-.-.+. ....++.|.+|||+...+..++..+.+.|++..|.+.+.-.
T Consensus 8 ~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~we-~~~~~i~v~~an~~~~~i~~~~~~~~i~I~~~~F~IP~iYq 86 (201)
T PF02160_consen 8 KVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEYWE-KSKKPIKVKGANGSIIQINKKAKNGKIQIADKIFRIPTIYQ 86 (201)
T ss_pred EEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHHHH-hCCCcEEEEEecCCceEEEEEecCceEEEccEEEeccEEEE
Confidence 33444455 468999999999999988765433222 23457899999999888888889999999999999976655
Q ss_pred CCCCCCeeechhHHhhcCCeEEEccCcEEEEEECC-eEE
Q 042094 409 PVSGCDIVLGAEWLRSLGAILWDFSKLTMQFTWKG-QTV 446 (485)
Q Consensus 409 ~~~~~dvILG~dwL~~~~~i~id~~~~~~~~~~~~-~~~ 446 (485)
-..+.|+|||++||+.|.| -+.|.. .+.|...+ +++
T Consensus 87 ~~~g~d~IlG~NF~r~y~P-fiq~~~-~I~f~~~~~~~~ 123 (201)
T PF02160_consen 87 QESGIDIILGNNFLRLYEP-FIQTED-RIQFHKKGLQKV 123 (201)
T ss_pred ecCCCCEEecchHHHhcCC-cEEEcc-EEEEEeCCccee
Confidence 5578999999999999999 599975 79999877 444
No 11
>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=99.42 E-value=1.8e-12 Score=101.72 Aligned_cols=92 Identities=22% Similarity=0.385 Sum_probs=77.6
Q ss_pred eEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEE-EEEEEc
Q 042094 330 TMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFH-LDFFLL 408 (485)
Q Consensus 330 ~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~-~~~~V~ 408 (485)
.+++++.||++++++||||||++++|+.++++++++.........+..++|........ ...+.+++..+. +.+.|+
T Consensus 2 ~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~--~~~i~ig~~~~~~~~~~v~ 79 (96)
T cd05483 2 HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVTVQTANGRVRAARVR--LDSLQIGGITLRNVPAVVL 79 (96)
T ss_pred cEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCCCcEEEEecCCCccceEEE--cceEEECCcEEeccEEEEe
Confidence 46889999999999999999999999999999999844445677889999987654332 457899998876 789999
Q ss_pred CCCC--CCeeechhHHh
Q 042094 409 PVSG--CDIVLGAEWLR 423 (485)
Q Consensus 409 ~~~~--~dvILG~dwL~ 423 (485)
+... .|.|||+|||+
T Consensus 80 d~~~~~~~gIlG~d~l~ 96 (96)
T cd05483 80 PGDALGVDGLLGMDFLR 96 (96)
T ss_pred CCcccCCceEeChHHhC
Confidence 9887 99999999984
No 12
>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=99.42 E-value=2.1e-12 Score=102.36 Aligned_cols=93 Identities=20% Similarity=0.319 Sum_probs=76.4
Q ss_pred CeEEEEEEcCCCCccc-cCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCeee
Q 042094 339 KHGVTILIDSSSTHIF-LNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVL 417 (485)
Q Consensus 339 ~~~v~aLiDsGSt~sf-Is~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvIL 417 (485)
..++.+||||||+..+ |+.++|++||++... ...+.+|||...... .....+.++|......+.+.+..+ +++|
T Consensus 14 ~~~v~~LVDTGat~~~~l~~~~a~~lgl~~~~--~~~~~tA~G~~~~~~--v~~~~v~igg~~~~~~v~~~~~~~-~~LL 88 (107)
T TIGR03698 14 FMEVRALVDTGFSGFLLVPPDIVNKLGLPELD--QRRVYLADGREVLTD--VAKASIIINGLEIDAFVESLGYVD-EPLL 88 (107)
T ss_pred ceEEEEEEECCCCeEEecCHHHHHHcCCCccc--CcEEEecCCcEEEEE--EEEEEEEECCEEEEEEEEecCCCC-ccEe
Confidence 3479999999999997 999999999998643 568999999765543 346789999998766666666666 8999
Q ss_pred chhHHhhcCCeEEEccCcEE
Q 042094 418 GAEWLRSLGAILWDFSKLTM 437 (485)
Q Consensus 418 G~dwL~~~~~i~id~~~~~~ 437 (485)
||.||++++. .|||.++.+
T Consensus 89 G~~~L~~l~l-~id~~~~~~ 107 (107)
T TIGR03698 89 GTELLEGLGI-VIDYRNQGL 107 (107)
T ss_pred cHHHHhhCCE-EEehhhCcC
Confidence 9999999995 899998753
No 13
>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=99.37 E-value=3.6e-12 Score=97.22 Aligned_cols=85 Identities=21% Similarity=0.295 Sum_probs=68.1
Q ss_pred EEEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeee-EEeecceEEEEEEEEcCCC
Q 042094 333 LKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHV-PVNSQGFQFHLDFFLLPVS 411 (485)
Q Consensus 333 ~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v-~v~i~~~~~~~~~~V~~~~ 411 (485)
+++.|||+++.+||||||+++.|++..++++. ....+..+.+++|....... ... .+.+++......+.|++..
T Consensus 1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~~---~~~~~~~v~gagG~~~~~v~--~~~~~v~vg~~~~~~~~~v~~~~ 75 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQE---LSTTSVLIRGVSGQSQQPVT--TYRTLVDLGGHTVSHSFLVVPNC 75 (86)
T ss_pred CEEEECCEEEEEEEECCCCeEEECHHHhhhcc---CCCCcEEEEeCCCcccccEE--EeeeEEEECCEEEEEEEEEEcCC
Confidence 36789999999999999999999999999972 23467899999998621111 123 5899999999999999854
Q ss_pred CCCeeechhHHh
Q 042094 412 GCDIVLGAEWLR 423 (485)
Q Consensus 412 ~~dvILG~dwL~ 423 (485)
.+.|||||||.
T Consensus 76 -~~~lLG~dfL~ 86 (86)
T cd06095 76 -PDPLLGRDLLS 86 (86)
T ss_pred -CCcEechhhcC
Confidence 59999999984
No 14
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=99.36 E-value=2.4e-12 Score=118.02 Aligned_cols=116 Identities=13% Similarity=0.188 Sum_probs=99.0
Q ss_pred CeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccc-ccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEE
Q 042094 329 NTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTT-TTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFL 407 (485)
Q Consensus 329 ~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~-~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V 407 (485)
..+++.+.|||++|+|+|||||..|.||..+|+++||...- +.-..+.-+.| ..++.|.+..+.++|+...+...|.|
T Consensus 234 ~ML~iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~rlid~r~~g~a~gvg-~~ki~g~Ih~~~lki~~~~l~c~ftV 312 (380)
T KOG0012|consen 234 TMLYINCEINGVPVKAFVDSGAQTTIMSAACAERCGLNRLIDKRFQGEARGVG-TEKILGRIHQAQLKIEDLYLPCSFTV 312 (380)
T ss_pred eEEEEEEEECCEEEEEEEcccchhhhhhHHHHHHhChHHHhhhhhhccccCCC-cccccceeEEEEEEeccEeeccceEE
Confidence 45799999999999999999999999999999999998632 22222333334 55678888999999999999999999
Q ss_pred cCCCCCCeeechhHHhhcCCeEEEccCcEEEEEECCeEE
Q 042094 408 LPVSGCDIVLGAEWLRSLGAILWDFSKLTMQFTWKGQTV 446 (485)
Q Consensus 408 ~~~~~~dvILG~dwL~~~~~i~id~~~~~~~~~~~~~~~ 446 (485)
++....|++||.|-|.+|+. .||.+++.+.|...+..+
T Consensus 313 ~d~~~~d~llGLd~Lrr~~c-cIdL~~~~L~ig~~~tei 350 (380)
T KOG0012|consen 313 LDRRDMDLLLGLDMLRRHQC-CIDLKTNVLRIGNTETEI 350 (380)
T ss_pred ecCCCcchhhhHHHHHhccc-eeecccCeEEecCCCccc
Confidence 99999999999999999999 799999999998776533
No 15
>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=99.32 E-value=1.9e-11 Score=93.87 Aligned_cols=90 Identities=32% Similarity=0.567 Sum_probs=77.1
Q ss_pred EEEECCeEEEEEEcCCCCccccCHHHHhhcCC-ccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCC
Q 042094 334 KGNLKKHGVTILIDSSSTHIFLNSSLAKQYGC-PVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSG 412 (485)
Q Consensus 334 ~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l-~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~ 412 (485)
.+.++|..+.+|+|+||++++++.+++.++++ ......+..+..++|......+.+..+.+.+++..+...|++++...
T Consensus 2 ~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 81 (92)
T cd00303 2 KGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTIGIGGKTFTVDFYVLDLLS 81 (92)
T ss_pred EEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCcEEEEEEEEeCCEEEEEEEEEEcCCC
Confidence 45678899999999999999999999999988 44455677888888887666555567888999999999999999999
Q ss_pred CCeeechhHHh
Q 042094 413 CDIVLGAEWLR 423 (485)
Q Consensus 413 ~dvILG~dwL~ 423 (485)
+|+|||+|||.
T Consensus 82 ~~~ilG~~~l~ 92 (92)
T cd00303 82 YDVILGRPWLE 92 (92)
T ss_pred cCEEecccccC
Confidence 99999999984
No 16
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=99.28 E-value=1.9e-11 Score=89.52 Aligned_cols=64 Identities=30% Similarity=0.468 Sum_probs=56.8
Q ss_pred CCCeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccccc-ceEEEEccCCeeeecceEe
Q 042094 327 PQNTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTT-QFQVTVADGGVISSSGKCS 390 (485)
Q Consensus 327 ~~~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~-~~~v~~a~G~~~~~~~~~~ 390 (485)
.+..+++.+.|+|+.+.+||||||++|||++++|++||++..... +..+.+|||+...+.+...
T Consensus 5 ~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~~ 69 (72)
T PF13975_consen 5 DPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVAE 69 (72)
T ss_pred cCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEEE
Confidence 456899999999999999999999999999999999999986654 8999999999887766543
No 17
>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=99.23 E-value=6.6e-11 Score=91.13 Aligned_cols=84 Identities=19% Similarity=0.283 Sum_probs=73.8
Q ss_pred EEECC-eEEEEEEcCCCCccccCHHHHhhcC---CccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCC
Q 042094 335 GNLKK-HGVTILIDSSSTHIFLNSSLAKQYG---CPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPV 410 (485)
Q Consensus 335 ~~i~~-~~v~aLiDsGSt~sfIs~~~~~~l~---l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~ 410 (485)
..|++ ..++++|||||++|+|+.+++++|+ .+....+++.+..+||+.+.+.|. ..+.+.+++..+.++|+|++.
T Consensus 3 ~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~-~~~~v~~~~~~~~~~f~Vvd~ 81 (93)
T cd05481 3 MKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGG-VKLKCRYRNPKYNLTFQVVKE 81 (93)
T ss_pred eEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEE-EEEEEEECCcEEEEEEEEECC
Confidence 46788 9999999999999999999999998 555566789999999999998887 579999999999999999997
Q ss_pred CCCCeeechh
Q 042094 411 SGCDIVLGAE 420 (485)
Q Consensus 411 ~~~dvILG~d 420 (485)
.. .-|||.+
T Consensus 82 ~~-~~lLG~~ 90 (93)
T cd05481 82 EG-PPLLGAK 90 (93)
T ss_pred CC-CceEccc
Confidence 54 5677865
No 18
>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=99.00 E-value=1.6e-09 Score=80.16 Aligned_cols=79 Identities=23% Similarity=0.413 Sum_probs=65.8
Q ss_pred EEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecce-EEEEEEEEcCCCCCCeeech
Q 042094 341 GVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGF-QFHLDFFLLPVSGCDIVLGA 419 (485)
Q Consensus 341 ~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~-~~~~~~~V~~~~~~dvILG~ 419 (485)
.+++||||||.+|+|.....+.. ....++.+..|||+.+.+-|. ..+.+.+|.. .|.-.|.|.+.. .-|||.
T Consensus 9 ~~~fLVDTGA~vSviP~~~~~~~----~~~~~~~l~AANgt~I~tyG~-~~l~ldlGlrr~~~w~FvvAdv~--~pIlGa 81 (89)
T cd06094 9 GLRFLVDTGAAVSVLPASSTKKS----LKPSPLTLQAANGTPIATYGT-RSLTLDLGLRRPFAWNFVVADVP--HPILGA 81 (89)
T ss_pred CcEEEEeCCCceEeecccccccc----ccCCceEEEeCCCCeEeeeee-EEEEEEcCCCcEEeEEEEEcCCC--cceecH
Confidence 47899999999999998877752 334577999999999998775 6788999875 889999997765 469999
Q ss_pred hHHhhcC
Q 042094 420 EWLRSLG 426 (485)
Q Consensus 420 dwL~~~~ 426 (485)
|||.+|+
T Consensus 82 DfL~~~~ 88 (89)
T cd06094 82 DFLQHYG 88 (89)
T ss_pred HHHHHcC
Confidence 9999986
No 19
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=98.96 E-value=5e-09 Score=89.32 Aligned_cols=100 Identities=19% Similarity=0.303 Sum_probs=81.5
Q ss_pred CeEEEEEEECCeEEEEEEcCCCCccccCHHHHhhcCCcccc-ccceEEEEccCCeeeecceEeeeEEeecceEE-EEEEE
Q 042094 329 NTMRLKGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTT-TTQFQVTVADGGVISSSGKCSHVPVNSQGFQF-HLDFF 406 (485)
Q Consensus 329 ~~~~~~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~-~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~-~~~~~ 406 (485)
.=+.+.+.|||+.+.+|||||||.-.++++.|+++|+.... .-++.|.+|||...-. .+.-=.+.|+++.. .++..
T Consensus 104 GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~v~TANG~~~AA--~V~Ld~v~IG~I~~~nV~A~ 181 (215)
T COG3577 104 GHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITVSTANGRARAA--PVTLDRVQIGGIRVKNVDAM 181 (215)
T ss_pred CcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceEEEccCCccccc--eEEeeeEEEccEEEcCchhh
Confidence 34778899999999999999999999999999999998854 5699999999986432 12223688998864 58999
Q ss_pred EcCCC-CCCeeechhHHhhcCCeEE
Q 042094 407 LLPVS-GCDIVLGAEWLRSLGAILW 430 (485)
Q Consensus 407 V~~~~-~~dvILG~dwL~~~~~i~i 430 (485)
|.+.+ -...+|||.||.+++-...
T Consensus 182 V~~~g~L~~sLLGMSfL~rL~~fq~ 206 (215)
T COG3577 182 VAEDGALDESLLGMSFLNRLSGFQV 206 (215)
T ss_pred eecCCccchhhhhHHHHhhccceEe
Confidence 99766 4678899999999986433
No 20
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=98.65 E-value=2.5e-08 Score=77.97 Aligned_cols=67 Identities=27% Similarity=0.454 Sum_probs=56.6
Q ss_pred hhhhccccCchHhHhHHhhhcCCC--CCHHHHHHHHHHhhCCCchh-----------------hhhhhcC----------
Q 042094 113 SLAIGHLDGDAVPWYHWLEQTMGN--MTWAQFKRALVTQFGTFEDG-----------------DAVGTQN---------- 163 (485)
Q Consensus 113 ~~~~~~L~G~A~~W~~~~~~~~~~--~tw~~f~~~l~~~F~~~~~~-----------------~ey~~~~---------- 163 (485)
.++..+|+|.|..||..+...... .+|++|+.+|.++|.++... .+|+.+|
T Consensus 1 ~~~~~~L~g~A~~w~~~~~~~~~~~~~~W~~~~~~~~~~f~~~~~~~~~~~~l~~l~Q~~esv~~y~~rf~~l~~~~~~~ 80 (96)
T PF03732_consen 1 KLFPSFLKGPARQWYRNLRPNEIRDFITWEEFKDAFRKRFFPPDRKEQARQELNSLRQGNESVREYVNRFRELARRAPPP 80 (96)
T ss_pred CCchHhccCHHHHHHHHhHhcCCCCCCCHHHHHHHHHHHHhhhhccccchhhhhhhhccCCcHHHHHHHHHHHHHHCCCC
Confidence 367889999999999999875433 49999999999999997655 5777777
Q ss_pred CChHHHHHHHHhhhHH
Q 042094 164 LPESFFISCFLSGLRE 179 (485)
Q Consensus 164 ~~e~~~~~~f~~GL~~ 179 (485)
++++.++..|++||++
T Consensus 81 ~~e~~~v~~f~~GL~~ 96 (96)
T PF03732_consen 81 MDEEMLVERFIRGLRP 96 (96)
T ss_pred cCHHHHHHHHHHCCCC
Confidence 5889999999999964
No 21
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=1.1e-06 Score=68.91 Aligned_cols=91 Identities=21% Similarity=0.316 Sum_probs=73.4
Q ss_pred EEEEEcCCCC-ccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCeeechh
Q 042094 342 VTILIDSSST-HIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVLGAE 420 (485)
Q Consensus 342 v~aLiDsGSt-~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvILG~d 420 (485)
...|||||.+ -..+.+++++++|++.... ..+..++|+.+.+ ......++++|.+...-+++.+....+ +||++
T Consensus 27 ~~~LiDTGFtg~lvlp~~vaek~~~~~~~~--~~~~~a~~~~v~t--~V~~~~iki~g~e~~~~Vl~s~~~~~~-liG~~ 101 (125)
T COG5550 27 YDELIDTGFTGYLVLPPQVAEKLGLPLFST--IRIVLADGGVVKT--SVALATIKIDGVEKVAFVLASDNLPEP-LIGVN 101 (125)
T ss_pred eeeEEecCCceeEEeCHHHHHhcCCCccCC--hhhhhhcCCEEEE--EEEEEEEEECCEEEEEEEEccCCCccc-chhhh
Confidence 3459999999 8899999999999985433 3456677776654 335678999999888888888888777 99999
Q ss_pred HHhhcCCeEEEccCcEEE
Q 042094 421 WLRSLGAILWDFSKLTMQ 438 (485)
Q Consensus 421 wL~~~~~i~id~~~~~~~ 438 (485)
||+.++- .+|+.++.+.
T Consensus 102 ~lk~l~~-~vn~~~g~LE 118 (125)
T COG5550 102 LLKLLGL-VVNPKTGKLE 118 (125)
T ss_pred hhhhccE-EEcCCcceEe
Confidence 9999996 8999887764
No 22
>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=98.49 E-value=8.6e-07 Score=66.60 Aligned_cols=86 Identities=13% Similarity=0.030 Sum_probs=63.2
Q ss_pred EEEECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCC
Q 042094 334 KGNLKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGC 413 (485)
Q Consensus 334 ~~~i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~ 413 (485)
.+.|+|+.+.+||||||.+|+|++..+...- .....+..+...+|. +... .+..+.+++.+......++|.+....
T Consensus 2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~p~~w--~~~~~~~~i~GIGG~-~~~~-~~~~v~i~i~~~~~~g~vlv~~~~~P 77 (87)
T cd05482 2 TLYINGKLFEGLLDTGADVSIIAENDWPKNW--PIQPAPSNLTGIGGA-ITPS-QSSVLLLEIDGEGHLGTILVYVLSLP 77 (87)
T ss_pred EEEECCEEEEEEEccCCCCeEEcccccCCCC--ccCCCCeEEEeccce-EEEE-EEeeEEEEEcCCeEEEEEEEccCCCc
Confidence 5678999999999999999999975443221 112345677777775 3433 34578999999988889999887444
Q ss_pred CeeechhHHh
Q 042094 414 DIVLGAEWLR 423 (485)
Q Consensus 414 dvILG~dwL~ 423 (485)
..|||+|.|.
T Consensus 78 ~nllGRd~L~ 87 (87)
T cd05482 78 VNLWGRDILS 87 (87)
T ss_pred ccEEccccCC
Confidence 6789999874
No 23
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.36 E-value=1.6e-07 Score=47.77 Aligned_cols=17 Identities=35% Similarity=0.770 Sum_probs=15.7
Q ss_pred ceeecCCCCCCCCcCCC
Q 042094 272 LCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 272 ~Cf~Cg~~GH~a~~C~~ 288 (485)
.||+||+.||++++||+
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 59999999999999974
No 24
>PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function.
Probab=98.27 E-value=2e-06 Score=72.86 Aligned_cols=77 Identities=14% Similarity=0.132 Sum_probs=63.3
Q ss_pred ccCCC--hhhHHHHHHHHhHH-hccccccchhhhhccccCchHhHhHHhhhcCCCCCHHHHHHHHHHhhCCCchh-hhhh
Q 042094 85 LSGEN--PTSLIFRCEQYQRL-AALLETDVLSLAIGHLDGDAVPWYHWLEQTMGNMTWAQFKRALVTQFGTFEDG-DAVG 160 (485)
Q Consensus 85 F~G~~--~~~wl~~~e~~~~~-~~~~d~~kv~~~~~~L~G~A~~W~~~~~~~~~~~tw~~f~~~l~~~F~~~~~~-~ey~ 160 (485)
|+|+. ...|...|...+.- ..+++.+|..++..+|+|.|+.-+.++.. ...+|+...+.|.++||.+... ..+.
T Consensus 1 F~G~~~~~~~F~~~F~~~v~~n~~~~d~~K~~~L~~~L~G~A~~~i~~~~~--~~~~Y~~a~~~L~~~yg~~~~i~~~~~ 78 (145)
T PF03564_consen 1 FDGDPSEWPEFIDQFDSLVHENPDLSDIEKLNYLRSCLKGEAKELIRGLPL--SEENYEEAWELLEERYGNPRRIIQALL 78 (145)
T ss_pred CCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHhcchHHHHHHcccc--cchhhHHHHHHHHHHhCCchHHHHHHH
Confidence 89943 34667777777777 67899999999999999999999998876 7889999999999999999876 4444
Q ss_pred hcC
Q 042094 161 TQN 163 (485)
Q Consensus 161 ~~~ 163 (485)
.++
T Consensus 79 ~~l 81 (145)
T PF03564_consen 79 EEL 81 (145)
T ss_pred HHH
Confidence 433
No 25
>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=98.21 E-value=3.9e-06 Score=72.63 Aligned_cols=71 Identities=21% Similarity=0.345 Sum_probs=48.3
Q ss_pred eEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEe--eeEEeecceEEEEEEEEcCCC
Q 042094 340 HGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCS--HVPVNSQGFQFHLDFFLLPVS 411 (485)
Q Consensus 340 ~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~--~v~v~i~~~~~~~~~~V~~~~ 411 (485)
..++|||||||..|||++++|++|+|+......+.+.+. |........+. .+.+.+++..+.+.++|+|..
T Consensus 11 ~~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~-g~~~~~~~~~~~~~i~~~~~~~~~~i~alvv~~I 83 (164)
T PF05585_consen 11 VEARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTF-GSSSPKSKKCVRVKISSRTSNNSLEIEALVVPKI 83 (164)
T ss_pred EEEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEecc-CccCccceeEEEEEEEEecCCCceEEEEEecCcc
Confidence 568999999999999999999999999765554444433 43322222222 344555555678888877644
No 26
>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=97.99 E-value=1.8e-05 Score=58.76 Aligned_cols=76 Identities=13% Similarity=0.170 Sum_probs=55.5
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCeeec
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVLG 418 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvILG 418 (485)
+-|||||||..|+|.++.++...||+.+-.. .|..++--...+...+..+.+.++|+.+..+|+|+..-+.+.-+.
T Consensus 48 ipclidtgaq~niiteetvrahklptrpw~~-sviyggvyp~kinrkt~kl~i~lngisikteflvvkkfshpaais 123 (137)
T PF12382_consen 48 IPCLIDTGAQVNIITEETVRAHKLPTRPWSQ-SVIYGGVYPNKINRKTIKLNINLNGISIKTEFLVVKKFSHPAAIS 123 (137)
T ss_pred ceeEEccCceeeeeehhhhhhccCCCCcchh-heEeccccccccccceEEEEEEecceEEEEEEEEEEeccCcceEE
Confidence 4689999999999999999999999866422 222222222234455667889999999999999998765544433
No 27
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.03 E-value=0.00025 Score=41.46 Aligned_cols=19 Identities=16% Similarity=0.382 Sum_probs=17.0
Q ss_pred CceeecCCCCCCCCcCCCc
Q 042094 271 GLCFNCDEQFKPGHRCKAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~ 289 (485)
-.|+.|+++||+..+||.+
T Consensus 9 Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CEeecCCCCCccHhHCCCC
Confidence 5699999999999999864
No 28
>PF14893 PNMA: PNMA
Probab=96.64 E-value=0.008 Score=57.24 Aligned_cols=109 Identities=17% Similarity=0.184 Sum_probs=86.5
Q ss_pred ccCCCCccCCC-h-------hhHHHHHHHHhHHh-ccccccchhhhhccccCchHhHhHHhhhcCCCCCHHHHHHHHHHh
Q 042094 79 RLDFLVLSGEN-P-------TSLIFRCEQYQRLA-ALLETDVLSLAIGHLDGDAVPWYHWLEQTMGNMTWAQFKRALVTQ 149 (485)
Q Consensus 79 ~~~~p~F~G~~-~-------~~wl~~~e~~~~~~-~~~d~~kv~~~~~~L~G~A~~W~~~~~~~~~~~tw~~f~~~l~~~ 149 (485)
-.+++.|+|.. | +.|+.++...+..- .++|.+|...+...|.|.|..+...+...+...+-.+++++|...
T Consensus 163 y~~L~iFSG~~~~~~gee~fe~Wl~~a~~~v~~W~~~~e~ekrrrlle~L~GpA~~~~r~l~~~nP~~t~~~~l~aL~~~ 242 (331)
T PF14893_consen 163 YRDLRIFSGREEPAPGEESFESWLEHANEMVKKWNDVSEEEKRRRLLESLRGPALDSRRKLQKKNPKQTAQDCLKALGQV 242 (331)
T ss_pred hhhhhhhcCCCCCCCCcccHHHHHHHHHHHHHhccCCchhhchhhhHHhcccHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Confidence 35677999974 2 49999998887664 488999999999999999999999998877888999999999999
Q ss_pred hCCCchhhhhhhcC----CChHHHHHHHHhhhHHHHHHHHHh
Q 042094 150 FGTFEDGDAVGTQN----LPESFFISCFLSGLREDIKIGVQM 187 (485)
Q Consensus 150 F~~~~~~~ey~~~~----~~e~~~~~~f~~GL~~~i~~~v~~ 187 (485)
|++....++....| -.+.+.+.-|+..|-.-++..+..
T Consensus 243 Fg~~es~~~~~~kf~~~~Q~~~E~ls~yv~RlE~lLqkav~k 284 (331)
T PF14893_consen 243 FGSSESRETLEAKFLNTFQEPGEKLSAYVKRLESLLQKAVEK 284 (331)
T ss_pred cCCcccHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHh
Confidence 99999986555555 234445555777777666665544
No 29
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=96.45 E-value=0.0012 Score=39.45 Aligned_cols=21 Identities=29% Similarity=0.759 Sum_probs=12.7
Q ss_pred CCceeecCCCCCCCCcCCCce
Q 042094 270 KGLCFNCDEQFKPGHRCKAPQ 290 (485)
Q Consensus 270 ~~~Cf~Cg~~GH~a~~C~~~~ 290 (485)
.++|++|++-.|++.+|..+.
T Consensus 2 ~~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 2 PGLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp --C-TTTSSSCS-TTT---TC
T ss_pred CccCcccCCCcchhhhhhhhh
Confidence 378999999999999996653
No 30
>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.013 Score=48.00 Aligned_cols=93 Identities=19% Similarity=0.228 Sum_probs=64.3
Q ss_pred CeEEEEEEcCCCCccccCHHHHhhcC------------------Cccc----c-ccceEEEEccCCeeeecceEeeeEEe
Q 042094 339 KHGVTILIDSSSTHIFLNSSLAKQYG------------------CPVT----T-TTQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 339 ~~~v~aLiDsGSt~sfIs~~~~~~l~------------------l~~~----~-~~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
+..+.|=|||||..|.++..-+.... .... + ...++|..++|+... ...+..+.+.
T Consensus 37 ~~~~kAkiDTGA~TSsL~A~dI~~fkRdGe~WVRF~~~~~~~~~~~~~~~e~pvi~~ikvR~s~~~~~e-~RpVV~~~l~ 115 (162)
T COG4067 37 KIQLKAKIDTGAVTSSLSASDIERFKRDGERWVRFRLADTDNLDQRSEECEAPVIRKIKVRSSSGSRAE-RRPVVRLTLC 115 (162)
T ss_pred cceeeeeecccceeeeEEeecceeeeeCCceEEEEEeecccCccccceeeccceEEEEEEecCCCCccc-cccEEEEEEe
Confidence 34578899999999988765433211 1000 1 124466677777533 3445678999
Q ss_pred ecceEEEEEEEEcCC--CCCCeeechhHHhhcCCeEEEcc
Q 042094 396 SQGFQFHLDFFLLPV--SGCDIVLGAEWLRSLGAILWDFS 433 (485)
Q Consensus 396 i~~~~~~~~~~V~~~--~~~dvILG~dwL~~~~~i~id~~ 433 (485)
+||...+++|...+- ..|++|||..+|.+.+. .+|=.
T Consensus 116 lG~~~~~~E~tLtDR~~m~Yp~LlGrk~l~~~~~-~VDpS 154 (162)
T COG4067 116 LGGRILPIEFTLTDRSNMRYPVLLGRKALRHFGA-VVDPS 154 (162)
T ss_pred eCCeeeeEEEEeecccccccceEecHHHHhhCCe-EECch
Confidence 999999999999884 56999999999998775 56643
No 31
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=96.13 E-value=0.0022 Score=40.51 Aligned_cols=19 Identities=16% Similarity=0.349 Sum_probs=17.2
Q ss_pred CCceeecCCCCCCCCcCCC
Q 042094 270 KGLCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 270 ~~~Cf~Cg~~GH~a~~C~~ 288 (485)
...|.+|++.||+..+|++
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4679999999999999984
No 32
>smart00343 ZnF_C2HC zinc finger.
Probab=96.10 E-value=0.0025 Score=35.99 Aligned_cols=17 Identities=24% Similarity=0.724 Sum_probs=15.4
Q ss_pred ceeecCCCCCCCCcCCC
Q 042094 272 LCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 272 ~Cf~Cg~~GH~a~~C~~ 288 (485)
.||+|++.||++++|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 49999999999999973
No 33
>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=95.40 E-value=0.068 Score=44.27 Aligned_cols=92 Identities=16% Similarity=0.267 Sum_probs=48.6
Q ss_pred CeEEEEEEcCCCCccccCHHHHhhc---C-------Ccc---ccc----------cceEEEEccCCeeeecceEeeeEEe
Q 042094 339 KHGVTILIDSSSTHIFLNSSLAKQY---G-------CPV---TTT----------TQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 339 ~~~v~aLiDsGSt~sfIs~~~~~~l---~-------l~~---~~~----------~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
|..+.|=|||||..|-|...-.... | +.. ... ....|.-.+|.. -...+..+.+.
T Consensus 14 ~~~~~aKiDTGA~tSSLhA~~I~~ferdg~~~VrF~~~~~~~~~~~~~~~e~p~~~~~~Ik~s~g~~--e~R~VV~~~~~ 91 (138)
T PF05618_consen 14 GLTIKAKIDTGAKTSSLHATDIEEFERDGEKWVRFTVHDPDNEEKEGVTFEAPVVRRRKIKSSNGES--ERRPVVETTLC 91 (138)
T ss_dssp TEEEEEEE-TT-SSEEEE-EEEEEEEETTEEEEEE----EEEETTEEEEEEEEEECEEE-----------CCEEEEEEEE
T ss_pred CCEEEEEEcCCCcccceeecceEEeeeCCceEEEEecccccCCCcceEEEEEEeEeEEEEEcCCCce--eEeeEEEEEEE
Confidence 4457888899999998865433211 0 000 000 111233334431 12344577899
Q ss_pred ecceEEEEEEEEcCC--CCCCeeec-hhHHhhcCCeEEEccC
Q 042094 396 SQGFQFHLDFFLLPV--SGCDIVLG-AEWLRSLGAILWDFSK 434 (485)
Q Consensus 396 i~~~~~~~~~~V~~~--~~~dvILG-~dwL~~~~~i~id~~~ 434 (485)
+++..+.++|.+.+- ..|+++|| +.||... +.+|-..
T Consensus 92 lg~~~~~~e~tL~dR~~m~yp~LlGrR~~l~~~--~lVD~s~ 131 (138)
T PF05618_consen 92 LGGKTWKIEFTLTDRSNMKYPMLLGRRNFLRGR--FLVDVSR 131 (138)
T ss_dssp ETTEEEEEEEEEE-S--SS-SEEE-HHHHHHTT--EEEETT-
T ss_pred ECCEEEEEEEEEcCCCcCcCCEEEEehHHhcCC--EEECCCh
Confidence 999999999999874 56999999 9999854 3577554
No 34
>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=95.38 E-value=0.098 Score=49.08 Aligned_cols=86 Identities=17% Similarity=0.173 Sum_probs=54.7
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCC-CCCCeeechh
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPV-SGCDIVLGAE 420 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~-~~~dvILG~d 420 (485)
..++||||++..++.+++. +.+.+...+|..+..... ..-+...+....+ -++.. ...-.|||..
T Consensus 177 ~~ai~DTGTs~~~lp~~~~----------P~i~~~f~~~~~~~i~~~--~y~~~~~~~~~C~--~~~~~~~~~~~ilG~~ 242 (265)
T cd05476 177 GGTIIDSGTTLTYLPDPAY----------PDLTLHFDGGADLELPPE--NYFVDVGEGVVCL--AILSSSSGGVSILGNI 242 (265)
T ss_pred CcEEEeCCCcceEcCcccc----------CCEEEEECCCCEEEeCcc--cEEEECCCCCEEE--EEecCCCCCcEEEChh
Confidence 3589999999999988876 356677665554443221 1111111111111 22222 3456899999
Q ss_pred HHhhcCCeEEEccCcEEEEEEC
Q 042094 421 WLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 421 wL~~~~~i~id~~~~~~~~~~~ 442 (485)
||+.+-. ..|+.+++|-|...
T Consensus 243 fl~~~~~-vFD~~~~~iGfa~~ 263 (265)
T cd05476 243 QQQNFLV-EYDLENSRLGFAPA 263 (265)
T ss_pred hcccEEE-EEECCCCEEeeecC
Confidence 9999986 69999999988653
No 35
>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=94.66 E-value=0.11 Score=50.35 Aligned_cols=93 Identities=15% Similarity=0.151 Sum_probs=59.3
Q ss_pred EEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCeeechh
Q 042094 341 GVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVLGAE 420 (485)
Q Consensus 341 ~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvILG~d 420 (485)
...++||||++.+++.+++.+++.-.. +.+.+.+.+|..+..... ..-+...+.. . +........-.|||..
T Consensus 231 ~~~aivDSGTs~~~lp~~~~~~l~~~~---P~i~~~f~~g~~~~i~p~--~y~~~~~~~~--c-~~~~~~~~~~~ILG~~ 302 (326)
T cd06096 231 GLGMLVDSGSTLSHFPEDLYNKINNFF---PTITIIFENNLKIDWKPS--SYLYKKESFW--C-KGGEKSVSNKPILGAS 302 (326)
T ss_pred CCCEEEeCCCCcccCCHHHHHHHHhhc---CcEEEEEcCCcEEEECHH--HhccccCCce--E-EEEEecCCCceEEChH
Confidence 345899999999999999998875332 456666665655543211 1111111111 1 1112222235799999
Q ss_pred HHhhcCCeEEEccCcEEEEEEC
Q 042094 421 WLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 421 wL~~~~~i~id~~~~~~~~~~~ 442 (485)
||+.+-. ..|+.+++|.|...
T Consensus 303 flr~~y~-vFD~~~~riGfa~~ 323 (326)
T cd06096 303 FFKNKQI-IFDLDNNRIGFVES 323 (326)
T ss_pred HhcCcEE-EEECcCCEEeeEcC
Confidence 9999986 79999999998743
No 36
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=94.18 E-value=0.018 Score=49.37 Aligned_cols=22 Identities=27% Similarity=0.652 Sum_probs=17.4
Q ss_pred hhhhCCceeecCCCCCCCCcCC
Q 042094 266 ERRAKGLCFNCDEQFKPGHRCK 287 (485)
Q Consensus 266 ~~~~~~~Cf~Cg~~GH~a~~C~ 287 (485)
.+.....||+||+.||.+++||
T Consensus 56 ~~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 56 IREENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccccchhcccCcccccCC
Confidence 3445567999999999999998
No 37
>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=93.55 E-value=0.59 Score=45.12 Aligned_cols=94 Identities=14% Similarity=0.236 Sum_probs=56.1
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeecc--eEeeeEEeecceEEEEE-----------E--
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSSG--KCSHVPVNSQGFQFHLD-----------F-- 405 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~~--~~~~v~v~i~~~~~~~~-----------~-- 405 (485)
..++||||++..++..++++.+--...... . ..|. .+.|.. ....+.+.++|..+.+. +
T Consensus 202 ~~~iiDSGtt~~~lP~~~~~~l~~~~~~~~----~-~~~~~~~~C~~~~~~p~l~~~f~g~~~~v~~~~y~~~~~~~C~~ 276 (318)
T cd05477 202 CQAIVDTGTSLLTAPQQVMSTLMQSIGAQQ----D-QYGQYVVNCNNIQNLPTLTFTINGVSFPLPPSAYILQNNGYCTV 276 (318)
T ss_pred ceeeECCCCccEECCHHHHHHHHHHhCCcc----c-cCCCEEEeCCccccCCcEEEEECCEEEEECHHHeEecCCCeEEE
Confidence 368999999999999998887532111000 0 0111 111211 11345666666655432 1
Q ss_pred EEcC----C--CCCCeeechhHHhhcCCeEEEccCcEEEEEE
Q 042094 406 FLLP----V--SGCDIVLGAEWLRSLGAILWDFSKLTMQFTW 441 (485)
Q Consensus 406 ~V~~----~--~~~dvILG~dwL~~~~~i~id~~~~~~~~~~ 441 (485)
-+.+ . .....|||..||+.+-. ..|+.+.+|.|..
T Consensus 277 ~i~~~~~~~~~~~~~~ilG~~fl~~~y~-vfD~~~~~ig~a~ 317 (318)
T cd05477 277 GIEPTYLPSQNGQPLWILGDVFLRQYYS-VYDLGNNQVGFAT 317 (318)
T ss_pred EEEecccCCCCCCceEEEcHHHhhheEE-EEeCCCCEEeeee
Confidence 1111 1 12358999999999986 6999999998753
No 38
>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=93.44 E-value=0.47 Score=45.78 Aligned_cols=95 Identities=17% Similarity=0.267 Sum_probs=51.9
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCcc-cc----ccceEEEEccCCeeeecceEeeeEEeecc--e-EEEEEEEEcCC---
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPV-TT----TTQFQVTVADGGVISSSGKCSHVPVNSQG--F-QFHLDFFLLPV--- 410 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~-~~----~~~~~v~~a~G~~~~~~~~~~~v~v~i~~--~-~~~~~~~V~~~--- 410 (485)
..++||||++..++..++++.+.... .. .+.+.+.. +|..+.+... ..-+.... . .....+...+.
T Consensus 211 ~~aivDTGTs~~~lP~~~~~~i~~~~~C~~~~~~P~i~f~f-~g~~~~l~~~--~yi~~~~~~~~~~C~~~~~~~~~~~~ 287 (317)
T cd06098 211 CAAIADSGTSLLAGPTTIVTQINSAVDCNSLSSMPNVSFTI-GGKTFELTPE--QYILKVGEGAAAQCISGFTALDVPPP 287 (317)
T ss_pred cEEEEecCCcceeCCHHHHHhhhccCCccccccCCcEEEEE-CCEEEEEChH--HeEEeecCCCCCEEeceEEECCCCCC
Confidence 46899999999999999998775221 10 12233333 2332222110 00011000 0 00011111221
Q ss_pred CCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 411 SGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 411 ~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
.+...|||-.||+.+-. ..|+.+++|.|-
T Consensus 288 ~~~~~IlGd~Flr~~y~-VfD~~~~~iGfA 316 (317)
T cd06098 288 RGPLWILGDVFMGAYHT-VFDYGNLRVGFA 316 (317)
T ss_pred CCCeEEechHHhcccEE-EEeCCCCEEeec
Confidence 12347999999999986 699999999874
No 39
>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=93.28 E-value=0.3 Score=47.40 Aligned_cols=93 Identities=14% Similarity=0.248 Sum_probs=54.8
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCe-eeecc--eEeeeEEeecceEEEEE--------------
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGV-ISSSG--KCSHVPVNSQGFQFHLD-------------- 404 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~-~~~~~--~~~~v~v~i~~~~~~~~-------------- 404 (485)
..++||||++.+++..++++.+.-..... . + .+|.- +.|.. ....+.+.+++..+.+.
T Consensus 211 ~~~iiDSGtt~~~lP~~~~~~l~~~~~~~-~--~--~~~~~~~~C~~~~~~p~i~f~fgg~~~~i~~~~yi~~~~~~~~~ 285 (329)
T cd05485 211 CQAIADTGTSLIAGPVDEIEKLNNAIGAK-P--I--IGGEYMVNCSAIPSLPDITFVLGGKSFSLTGKDYVLKVTQMGQT 285 (329)
T ss_pred cEEEEccCCcceeCCHHHHHHHHHHhCCc-c--c--cCCcEEEeccccccCCcEEEEECCEEeEEChHHeEEEecCCCCC
Confidence 36999999999999999887653221110 0 0 11111 12211 11345566666554432
Q ss_pred -EE--Ec-----CCCCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 405 -FF--LL-----PVSGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 405 -~~--V~-----~~~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
++ +. +..+...|||..||+.+-. ..|+.+++|.|.
T Consensus 286 ~C~~~~~~~~~~~~~~~~~IlG~~fl~~~y~-vFD~~~~~ig~a 328 (329)
T cd05485 286 ICLSGFMGIDIPPPAGPLWILGDVFIGKYYT-EFDLGNNRVGFA 328 (329)
T ss_pred EEeeeEEECcCCCCCCCeEEEchHHhccceE-EEeCCCCEEeec
Confidence 11 11 1112348999999999986 699999999874
No 40
>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=93.23 E-value=0.7 Score=44.59 Aligned_cols=100 Identities=16% Similarity=0.241 Sum_probs=60.2
Q ss_pred EEECCeEE------EEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeecc--eEeeeEEeecceEEEEE-
Q 042094 335 GNLKKHGV------TILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSSG--KCSHVPVNSQGFQFHLD- 404 (485)
Q Consensus 335 ~~i~~~~v------~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~~--~~~~v~v~i~~~~~~~~- 404 (485)
+.|++..+ .++||||++..++.++.++.+.-..... . ..+|. .+.|.. ....+.+.++|..+.+.
T Consensus 194 v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~~~~~~----~-~~~~~~~~~C~~~~~~P~~~f~f~g~~~~i~~ 268 (317)
T cd05478 194 VTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQSDIGAS----Q-NQNGEMVVNCSSISSMPDVVFTINGVQYPLPP 268 (317)
T ss_pred EEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHHHhCCc----c-ccCCcEEeCCcCcccCCcEEEEECCEEEEECH
Confidence 45666544 5899999999999999887753221110 0 01111 112211 12345666666655532
Q ss_pred ----------EE--EcCCC-CCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 405 ----------FF--LLPVS-GCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 405 ----------~~--V~~~~-~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
++ +.+.. ....|||..||+.+-. ..|+.+++|.|.
T Consensus 269 ~~y~~~~~~~C~~~~~~~~~~~~~IlG~~fl~~~y~-vfD~~~~~iG~A 316 (317)
T cd05478 269 SAYILQDQGSCTSGFQSMGLGELWILGDVFIRQYYS-VFDRANNKVGLA 316 (317)
T ss_pred HHheecCCCEEeEEEEeCCCCCeEEechHHhcceEE-EEeCCCCEEeec
Confidence 11 22222 2458999999999986 699999998774
No 41
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.94 E-value=0.048 Score=49.57 Aligned_cols=19 Identities=16% Similarity=0.483 Sum_probs=16.7
Q ss_pred CceeecCCCCCCCCcCCCc
Q 042094 271 GLCFNCDEQFKPGHRCKAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~ 289 (485)
-.||+||++||+..+||.+
T Consensus 177 Y~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 177 YVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred eeEEecCCCCchhhcCCCC
Confidence 4599999999999999754
No 42
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=92.93 E-value=0.045 Score=47.04 Aligned_cols=19 Identities=26% Similarity=0.660 Sum_probs=16.9
Q ss_pred CceeecCCCCCCCCcC-CCc
Q 042094 271 GLCFNCDEQFKPGHRC-KAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C-~~~ 289 (485)
.+||+||+-||++++| |.+
T Consensus 98 ~~C~~Cg~~GH~~~dC~P~~ 117 (190)
T COG5082 98 KKCYNCGETGHLSRDCNPSK 117 (190)
T ss_pred cccccccccCccccccCccc
Confidence 6899999999999999 554
No 43
>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=92.42 E-value=0.45 Score=45.91 Aligned_cols=91 Identities=21% Similarity=0.279 Sum_probs=53.5
Q ss_pred EEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCe-eeecc--eEeeeEEeecceEEEEE---------------
Q 042094 343 TILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGV-ISSSG--KCSHVPVNSQGFQFHLD--------------- 404 (485)
Q Consensus 343 ~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~-~~~~~--~~~~v~v~i~~~~~~~~--------------- 404 (485)
.++||||++..++..+.++.+.-..... ..+|.. +.|.. ....+.+.++|..+.+.
T Consensus 200 ~aiiDTGTs~~~lP~~~~~~l~~~~~~~------~~~~~~~~~C~~~~~~p~i~f~f~g~~~~l~~~~y~~~~~~~~~~~ 273 (316)
T cd05486 200 QAIVDTGTSLITGPSGDIKQLQNYIGAT------ATDGEYGVDCSTLSLMPSVTFTINGIPYSLSPQAYTLEDQSDGGGY 273 (316)
T ss_pred EEEECCCcchhhcCHHHHHHHHHHhCCc------ccCCcEEEeccccccCCCEEEEECCEEEEeCHHHeEEecccCCCCE
Confidence 6999999999999998877652111000 011221 12211 12345666666554431
Q ss_pred EE--E--cC---CCCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 405 FF--L--LP---VSGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 405 ~~--V--~~---~~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
++ + ++ ..+...|||-.||+.+-. ..|+.+++|-|-
T Consensus 274 C~~~~~~~~~~~~~~~~~ILGd~flr~~y~-vfD~~~~~IGfA 315 (316)
T cd05486 274 CSSGFQGLDIPPPAGPLWILGDVFIRQYYS-VFDRGNNRVGFA 315 (316)
T ss_pred EeeEEEECCCCCCCCCeEEEchHHhcceEE-EEeCCCCEeecc
Confidence 11 1 11 112247999999999986 699999988763
No 44
>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=92.38 E-value=0.25 Score=47.57 Aligned_cols=94 Identities=15% Similarity=0.258 Sum_probs=55.9
Q ss_pred EEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecc--eEeeeEEeecceEEEE---------------
Q 042094 341 GVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSG--KCSHVPVNSQGFQFHL--------------- 403 (485)
Q Consensus 341 ~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~--~~~~v~v~i~~~~~~~--------------- 403 (485)
...++||||++...+..+++..+--........ +.-.+.|.. ....+.+.+++..+.+
T Consensus 199 ~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~-----~~~~~~c~~~~~~p~l~f~~~~~~~~i~~~~~~~~~~~~~~~ 273 (317)
T PF00026_consen 199 GQQAILDTGTSYIYLPRSIFDAIIKALGGSYSD-----GVYSVPCNSTDSLPDLTFTFGGVTFTIPPSDYIFKIEDGNGG 273 (317)
T ss_dssp EEEEEEETTBSSEEEEHHHHHHHHHHHTTEEEC-----SEEEEETTGGGGSEEEEEEETTEEEEEEHHHHEEEESSTTSS
T ss_pred ceeeecccccccccccchhhHHHHhhhcccccc-----eeEEEecccccccceEEEeeCCEEEEecchHhcccccccccc
Confidence 368999999999999998877652221100000 111111111 1233445555444321
Q ss_pred ----EEEEcC--CCCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 404 ----DFFLLP--VSGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 404 ----~~~V~~--~~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
.+..++ .....+|||..||+.+-. ..|+.+++|.|-
T Consensus 274 ~C~~~i~~~~~~~~~~~~iLG~~fl~~~y~-vfD~~~~~ig~A 315 (317)
T PF00026_consen 274 YCYLGIQPMDSSDDSDDWILGSPFLRNYYV-VFDYENNRIGFA 315 (317)
T ss_dssp EEEESEEEESSTTSSSEEEEEHHHHTTEEE-EEETTTTEEEEE
T ss_pred eeEeeeecccccccCCceEecHHHhhceEE-EEeCCCCEEEEe
Confidence 122211 345789999999999986 799999999875
No 45
>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=92.20 E-value=0.49 Score=45.04 Aligned_cols=95 Identities=19% Similarity=0.255 Sum_probs=55.3
Q ss_pred EEEEEEcCCCCccccCHHHHhhcCCccccc-cceEEEEccCCeeeecceE-eeeEEeecceEEEEE--------------
Q 042094 341 GVTILIDSSSTHIFLNSSLAKQYGCPVTTT-TQFQVTVADGGVISSSGKC-SHVPVNSQGFQFHLD-------------- 404 (485)
Q Consensus 341 ~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~-~~~~v~~a~G~~~~~~~~~-~~v~v~i~~~~~~~~-------------- 404 (485)
...++||||++..++..++++.+--..... ... ...-.+.|.... ..+.+.++|..+.+.
T Consensus 178 ~~~~iiDSGt~~~~lP~~~~~~l~~~~~~~~~~~----~~~~~~~C~~~~~p~i~f~f~g~~~~i~~~~~~~~~~~~~~~ 253 (295)
T cd05474 178 NLPALLDSGTTLTYLPSDIVDAIAKQLGATYDSD----EGLYVVDCDAKDDGSLTFNFGGATISVPLSDLVLPASTDDGG 253 (295)
T ss_pred CccEEECCCCccEeCCHHHHHHHHHHhCCEEcCC----CcEEEEeCCCCCCCEEEEEECCeEEEEEHHHhEeccccCCCC
Confidence 357899999999999999888653221100 000 000011111110 245555555443322
Q ss_pred -----EEEcCCCCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 405 -----FFLLPVSGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 405 -----~~V~~~~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
+.+.+......|||..||+.+-. ..|+.+++|.|-
T Consensus 254 ~~~C~~~i~~~~~~~~iLG~~fl~~~y~-vfD~~~~~ig~a 293 (295)
T cd05474 254 DGACYLGIQPSTSDYNILGDTFLRSAYV-VYDLDNNEISLA 293 (295)
T ss_pred CCCeEEEEEeCCCCcEEeChHHhhcEEE-EEECCCCEEEee
Confidence 11222222468999999999986 799999999875
No 46
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=91.91 E-value=0.078 Score=44.81 Aligned_cols=16 Identities=25% Similarity=0.752 Sum_probs=8.2
Q ss_pred ceeecCCCCCCCCcCC
Q 042094 272 LCFNCDEQFKPGHRCK 287 (485)
Q Consensus 272 ~Cf~Cg~~GH~a~~C~ 287 (485)
.||+|++.||++++|+
T Consensus 105 ~C~~Cg~~gH~~~~C~ 120 (148)
T PTZ00368 105 ACYNCGGEGHISRDCP 120 (148)
T ss_pred hhcccCcCCcchhcCC
Confidence 3555555555555553
No 47
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=91.86 E-value=0.054 Score=35.96 Aligned_cols=19 Identities=21% Similarity=0.646 Sum_probs=16.7
Q ss_pred hCCceeecCCCCCCCCcCC
Q 042094 269 AKGLCFNCDEQFKPGHRCK 287 (485)
Q Consensus 269 ~~~~Cf~Cg~~GH~a~~C~ 287 (485)
-...||+||..||...+|+
T Consensus 30 lp~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECP 48 (49)
T ss_pred cChhhcCCCCcCcCHhHcC
Confidence 3466999999999999996
No 48
>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=91.77 E-value=0.23 Score=46.95 Aligned_cols=79 Identities=20% Similarity=0.354 Sum_probs=47.8
Q ss_pred EEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeecceEeeeEEeecceEEEEEEEEcCCCCCCeeech
Q 042094 341 GVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVLGA 419 (485)
Q Consensus 341 ~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvILG~ 419 (485)
...++||||++..++..++++.+--... ........|. .+.| .-.+-...|.+ ..|||-
T Consensus 198 ~~~~iiDSGTs~~~lP~~~~~~l~~~l~---g~~~~~~~~~~~~~C-------~~~~P~i~f~~----------~~ilGd 257 (278)
T cd06097 198 GFSAIADTGTTLILLPDAIVEAYYSQVP---GAYYDSEYGGWVFPC-------DTTLPDLSFAV----------FSILGD 257 (278)
T ss_pred CceEEeecCCchhcCCHHHHHHHHHhCc---CCcccCCCCEEEEEC-------CCCCCCEEEEE----------EEEEcc
Confidence 4578999999999999888876632210 0000001111 1122 11122222222 579999
Q ss_pred hHHhhcCCeEEEccCcEEEEE
Q 042094 420 EWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 420 dwL~~~~~i~id~~~~~~~~~ 440 (485)
.||+.+-. ..|+.+++|-|-
T Consensus 258 ~fl~~~y~-vfD~~~~~ig~A 277 (278)
T cd06097 258 VFLKAQYV-VFDVGGPKLGFA 277 (278)
T ss_pred hhhCceeE-EEcCCCceeeec
Confidence 99999987 699999998774
No 49
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=91.57 E-value=0.1 Score=47.65 Aligned_cols=22 Identities=14% Similarity=0.345 Sum_probs=18.1
Q ss_pred ceeecCCCCCCCCcCCCceeee
Q 042094 272 LCFNCDEQFKPGHRCKAPQLLL 293 (485)
Q Consensus 272 ~Cf~Cg~~GH~a~~C~~~~~~~ 293 (485)
.||.||+.||++++||......
T Consensus 162 ~cyrcGkeghwskEcP~~~~~r 183 (346)
T KOG0109|consen 162 GCYRCGKEGHWSKECPVDRTGR 183 (346)
T ss_pred HheeccccccccccCCccCCCc
Confidence 4999999999999998654433
No 50
>PF02023 SCAN: SCAN domain; InterPro: IPR003309 A number of C2H2-zinc finger proteins contain a highly conserved N-terminal motif termed the SCAN domain. The SCAN domain may play an important role in the assembly and function of this newly defined subclass of transcriptional regulators [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3LHR_B 4E6S_A 2FI2_A 1Y7Q_A.
Probab=91.54 E-value=0.47 Score=36.50 Aligned_cols=39 Identities=23% Similarity=0.242 Sum_probs=33.3
Q ss_pred HHHHHHHHhhhHHHHHHHHHhcCcccHHHHHHHHHHHHH
Q 042094 167 SFFISCFLSGLREDIKIGVQMLKPASLLQTFELARFQEE 205 (485)
Q Consensus 167 ~~~~~~f~~GL~~~i~~~v~~~~p~tl~~~~~~a~~~e~ 205 (485)
-..+.+|+..||.+++..|..+.|.+..+++.+|..+..
T Consensus 48 llvlEQFL~~lP~e~~~wV~e~~p~s~~ea~~Lae~~~~ 86 (95)
T PF02023_consen 48 LLVLEQFLNILPPEVQTWVRERKPESAEEAVALAEDYQR 86 (95)
T ss_dssp HHHHHHHHHHS-HHHHHHHHTCS-SSHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHCCHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 357889999999999999999999999999999988754
No 51
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=91.22 E-value=0.13 Score=31.88 Aligned_cols=20 Identities=25% Similarity=0.295 Sum_probs=16.5
Q ss_pred CceeecCCCCCCC--CcCCCce
Q 042094 271 GLCFNCDEQFKPG--HRCKAPQ 290 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a--~~C~~~~ 290 (485)
..|.+||..||.+ +.||-+.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 4699999999998 6887654
No 52
>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=91.16 E-value=1.4 Score=42.10 Aligned_cols=27 Identities=11% Similarity=0.181 Sum_probs=23.5
Q ss_pred CeeechhHHhhcCCeEEEccCcEEEEEE
Q 042094 414 DIVLGAEWLRSLGAILWDFSKLTMQFTW 441 (485)
Q Consensus 414 dvILG~dwL~~~~~i~id~~~~~~~~~~ 441 (485)
-.|||..||+.+-. ..|+.+++|.|..
T Consensus 270 ~~ilG~~fl~~~~v-vfD~~~~~igfa~ 296 (299)
T cd05472 270 LSIIGNVQQQTFRV-VYDVAGGRIGFAP 296 (299)
T ss_pred CEEEchHHccceEE-EEECCCCEEeEec
Confidence 47999999999986 6999999998864
No 53
>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=90.02 E-value=1.9 Score=41.71 Aligned_cols=93 Identities=19% Similarity=0.318 Sum_probs=55.4
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCe-eeecc--eEeeeEEeecceEEEEE-----------E--
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGV-ISSSG--KCSHVPVNSQGFQFHLD-----------F-- 405 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~-~~~~~--~~~~v~v~i~~~~~~~~-----------~-- 405 (485)
..++||||++..++..++++.+.-...... ..+|.. +.|.. ....+.+.++|..+.+. +
T Consensus 206 ~~~ivDSGtt~~~lp~~~~~~l~~~~~~~~-----~~~~~~~~~C~~~~~~P~i~f~f~g~~~~i~~~~y~~~~~g~C~~ 280 (320)
T cd05488 206 TGAAIDTGTSLIALPSDLAEMLNAEIGAKK-----SWNGQYTVDCSKVDSLPDLTFNFDGYNFTLGPFDYTLEVSGSCIS 280 (320)
T ss_pred CeEEEcCCcccccCCHHHHHHHHHHhCCcc-----ccCCcEEeeccccccCCCEEEEECCEEEEECHHHheecCCCeEEE
Confidence 358999999999999998887532211100 011111 12211 12345666666655432 1
Q ss_pred EEcC--C---CCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 406 FLLP--V---SGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 406 ~V~~--~---~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
.+.. . .+...|||..||+.+-. ..|+.+.+|.|.
T Consensus 281 ~~~~~~~~~~~~~~~ilG~~fl~~~y~-vfD~~~~~iG~a 319 (320)
T cd05488 281 AFTGMDFPEPVGPLAIVGDAFLRKYYS-VYDLGNNAVGLA 319 (320)
T ss_pred EEEECcCCCCCCCeEEEchHHhhheEE-EEeCCCCEEeec
Confidence 1111 1 12358999999999886 699999998774
No 54
>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=89.96 E-value=0.35 Score=45.58 Aligned_cols=82 Identities=21% Similarity=0.285 Sum_probs=49.1
Q ss_pred eEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCeeech
Q 042094 340 HGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIVLGA 419 (485)
Q Consensus 340 ~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvILG~ 419 (485)
....++||||++..++..+++..+--........ ..+... ..+.-.-.--.+.+.| ..|||.
T Consensus 201 ~~~~~iiDsGt~~~~lp~~~~~~l~~~~~~~~~~----~~~~~~------~~~~~~~~~p~i~f~f--------~~ilG~ 262 (283)
T cd05471 201 GGGGAIVDSGTSLIYLPSSVYDAILKALGAAVSS----SDGGYG------VDCSPCDTLPDITFTF--------LWILGD 262 (283)
T ss_pred CCcEEEEecCCCCEeCCHHHHHHHHHHhCCcccc----cCCcEE------EeCcccCcCCCEEEEE--------EEEccH
Confidence 3568999999999999999988764332111000 000000 0000000001122222 799999
Q ss_pred hHHhhcCCeEEEccCcEEEEE
Q 042094 420 EWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 420 dwL~~~~~i~id~~~~~~~~~ 440 (485)
.||+.+-. ..|+.+++|.|.
T Consensus 263 ~fl~~~y~-vfD~~~~~igfa 282 (283)
T cd05471 263 VFLRNYYT-VFDLDNNRIGFA 282 (283)
T ss_pred hhhhheEE-EEeCCCCEEeec
Confidence 99999996 699999888774
No 55
>PTZ00147 plasmepsin-1; Provisional
Probab=89.50 E-value=1.4 Score=44.60 Aligned_cols=97 Identities=16% Similarity=0.355 Sum_probs=55.1
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeec-ceEeeeEEeecceEEEEE---------------E
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSS-GKCSHVPVNSQGFQFHLD---------------F 405 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~-~~~~~v~v~i~~~~~~~~---------------~ 405 (485)
..++||||++..++..+.++.+--.... ..+...++-.+.|. .....+.+.++|..+.+. +
T Consensus 333 ~~aIiDSGTsli~lP~~~~~ai~~~l~~---~~~~~~~~y~~~C~~~~lP~~~f~f~g~~~~L~p~~yi~~~~~~~~~~C 409 (453)
T PTZ00147 333 ANVIVDSGTSVITVPTEFLNKFVESLDV---FKVPFLPLYVTTCNNTKLPTLEFRSPNKVYTLEPEYYLQPIEDIGSALC 409 (453)
T ss_pred eeEEECCCCchhcCCHHHHHHHHHHhCC---eecCCCCeEEEeCCCCCCCeEEEEECCEEEEECHHHheeccccCCCcEE
Confidence 5799999999999999988764211100 00000000001111 111234455555443321 1
Q ss_pred E--EcC--CCCCCeeechhHHhhcCCeEEEccCcEEEEEEC
Q 042094 406 F--LLP--VSGCDIVLGAEWLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 406 ~--V~~--~~~~dvILG~dwL~~~~~i~id~~~~~~~~~~~ 442 (485)
+ +.+ ......|||..||+.+-. ..|+.+.+|.|-..
T Consensus 410 ~~~i~~~~~~~~~~ILGd~FLr~~Yt-VFD~~n~rIGfA~a 449 (453)
T PTZ00147 410 MLNIIPIDLEKNTFILGDPFMRKYFT-VFDYDNHTVGFALA 449 (453)
T ss_pred EEEEEECCCCCCCEEECHHHhccEEE-EEECCCCEEEEEEe
Confidence 1 222 222357999999999997 69999999999754
No 56
>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=88.94 E-value=1.2 Score=43.08 Aligned_cols=93 Identities=12% Similarity=0.204 Sum_probs=54.1
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeecc--eEeeeEEeecceEEEEE--------------
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSSG--KCSHVPVNSQGFQFHLD-------------- 404 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~~--~~~~v~v~i~~~~~~~~-------------- 404 (485)
..++||||++..++..+.++.+.-..... ...+|. .+.|.. ....+.|.++|..+.+.
T Consensus 207 ~~aiiDSGTt~~~~p~~~~~~l~~~~~~~-----~~~~~~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~y~~~~~~~~~~ 281 (325)
T cd05490 207 CEAIVDTGTSLITGPVEEVRALQKAIGAV-----PLIQGEYMIDCEKIPTLPVISFSLGGKVYPLTGEDYILKVSQRGTT 281 (325)
T ss_pred CEEEECCCCccccCCHHHHHHHHHHhCCc-----cccCCCEEecccccccCCCEEEEECCEEEEEChHHeEEeccCCCCC
Confidence 47999999999999998887663211100 001111 112211 11234555666544322
Q ss_pred -EE--Ec--C---CCCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 405 -FF--LL--P---VSGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 405 -~~--V~--~---~~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
++ +. + ......|||..||+.+-. ..|+.+++|.|.
T Consensus 282 ~C~~~~~~~~~~~~~~~~~ilGd~flr~~y~-vfD~~~~~IGfA 324 (325)
T cd05490 282 ICLSGFMGLDIPPPAGPLWILGDVFIGRYYT-VFDRDNDRVGFA 324 (325)
T ss_pred EEeeEEEECCCCCCCCceEEEChHhheeeEE-EEEcCCcEeecc
Confidence 11 11 1 112347999999999986 699999998774
No 57
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=88.26 E-value=2.2 Score=43.18 Aligned_cols=95 Identities=19% Similarity=0.338 Sum_probs=53.6
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeec-ceEeeeEEeecceEEEEE---------------
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSS-GKCSHVPVNSQGFQFHLD--------------- 404 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~-~~~~~v~v~i~~~~~~~~--------------- 404 (485)
..|+||||++..++..+.++.+--..... .+. ..|. .+.|. .....+.+.++|..+.+.
T Consensus 332 ~~aIlDSGTSli~lP~~~~~~i~~~l~~~---~~~-~~~~y~~~C~~~~lP~i~F~~~g~~~~L~p~~Yi~~~~~~~~~~ 407 (450)
T PTZ00013 332 ANVIVDSGTTTITAPSEFLNKFFANLNVI---KVP-FLPFYVTTCDNKEMPTLEFKSANNTYTLEPEYYMNPLLDVDDTL 407 (450)
T ss_pred cceEECCCCccccCCHHHHHHHHHHhCCe---ecC-CCCeEEeecCCCCCCeEEEEECCEEEEECHHHheehhccCCCCe
Confidence 45899999999999998777552111000 000 0110 01111 111234455555433321
Q ss_pred --EEEcCC--CCCCeeechhHHhhcCCeEEEccCcEEEEEE
Q 042094 405 --FFLLPV--SGCDIVLGAEWLRSLGAILWDFSKLTMQFTW 441 (485)
Q Consensus 405 --~~V~~~--~~~dvILG~dwL~~~~~i~id~~~~~~~~~~ 441 (485)
+.+.+. .....|||-.||+.+-. ..|+.+++|-|-.
T Consensus 408 C~~~i~~~~~~~~~~ILGd~FLr~~Y~-VFD~~n~rIGfA~ 447 (450)
T PTZ00013 408 CMITMLPVDIDDNTFILGDPFMRKYFT-VFDYDKESVGFAI 447 (450)
T ss_pred eEEEEEECCCCCCCEEECHHHhccEEE-EEECCCCEEEEEE
Confidence 112222 22358999999999987 6999999998864
No 58
>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=87.50 E-value=3.3 Score=39.36 Aligned_cols=72 Identities=25% Similarity=0.353 Sum_probs=48.4
Q ss_pred EEEEEECC--eEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEE-EEEEEc
Q 042094 332 RLKGNLKK--HGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFH-LDFFLL 408 (485)
Q Consensus 332 ~~~~~i~~--~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~-~~~~V~ 408 (485)
.+.+.|+. +.+.++|||||+...|. ++.+..++|+.+. |....=.|.+++.... ..|-+.
T Consensus 4 ~~~i~iGtp~q~~~v~~DTgS~~~wv~---------------~~~~~Y~~g~~~~--G~~~~D~v~~g~~~~~~~~fg~~ 66 (295)
T cd05474 4 SAELSVGTPPQKVTVLLDTGSSDLWVP---------------DFSISYGDGTSAS--GTWGTDTVSIGGATVKNLQFAVA 66 (295)
T ss_pred EEEEEECCCCcEEEEEEeCCCCcceee---------------eeEEEeccCCcEE--EEEEEEEEEECCeEecceEEEEE
Confidence 45666765 88999999999999887 5677888876543 4333346777776543 445555
Q ss_pred CC-CCCCeeechh
Q 042094 409 PV-SGCDIVLGAE 420 (485)
Q Consensus 409 ~~-~~~dvILG~d 420 (485)
.. ...|-|||+-
T Consensus 67 ~~~~~~~GilGLg 79 (295)
T cd05474 67 NSTSSDVGVLGIG 79 (295)
T ss_pred ecCCCCcceeeEC
Confidence 42 3467787754
No 59
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=86.71 E-value=2.7 Score=33.77 Aligned_cols=87 Identities=14% Similarity=0.024 Sum_probs=54.1
Q ss_pred hHhHhHHhhhcCCCC------CHHHHHHHHHHh-hCCCchhhhhhhcC-------------CChHHHHHHHHhhhHHHHH
Q 042094 123 AVPWYHWLEQTMGNM------TWAQFKRALVTQ-FGTFEDGDAVGTQN-------------LPESFFISCFLSGLREDIK 182 (485)
Q Consensus 123 A~~W~~~~~~~~~~~------tw~~f~~~l~~~-F~~~~~~~ey~~~~-------------~~e~~~~~~f~~GL~~~i~ 182 (485)
|..-|..+....... ....++..|..- +.+.....+|+.++ +++..++..+++|||+...
T Consensus 3 A~e~W~~L~~~y~~~~~~~~~~~~~L~~~l~~~k~~~~~sv~~y~~~~~~i~~~L~~~g~~i~d~~~v~~iL~~Lp~~y~ 82 (119)
T PF14223_consen 3 AKEAWDALKKRYEGQSKVKQARVQQLKSQLENLKMKDGESVDEYISRLKEIVDELRAIGKPISDEDLVSKILRSLPPSYD 82 (119)
T ss_pred HHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHhhhhhhhcCCcccchhHHHHHHhcCCchhH
Confidence 455555554432222 223344444332 24555557777776 6999999999999987654
Q ss_pred HH---HHhc-Ccc--cHHHHHHHHHHHHHHHhh
Q 042094 183 IG---VQML-KPA--SLLQTFELARFQEEYAAV 209 (485)
Q Consensus 183 ~~---v~~~-~p~--tl~~~~~~a~~~e~~~~~ 209 (485)
.. +... ... ++++++......|.....
T Consensus 83 ~~~~~i~~~~~~~~~t~~el~~~L~~~E~~~~~ 115 (119)
T PF14223_consen 83 TFVTAIRNSKDLPKMTLEELISRLLAEEMRLKS 115 (119)
T ss_pred HHHHHHHhcCCCCcCCHHHHHHHHHHHHHHHHH
Confidence 43 3333 334 799999998888876643
No 60
>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=86.35 E-value=2.5 Score=40.91 Aligned_cols=92 Identities=17% Similarity=0.268 Sum_probs=52.4
Q ss_pred EEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCC-eeeecc--eEeeeEEeecceEEEEE---------------
Q 042094 343 TILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGG-VISSSG--KCSHVPVNSQGFQFHLD--------------- 404 (485)
Q Consensus 343 ~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~-~~~~~~--~~~~v~v~i~~~~~~~~--------------- 404 (485)
.++||||++..++..+.++.+--....... .|. .+.|.. ....+.+.+++..+.+.
T Consensus 209 ~aiiDSGts~~~lP~~~~~~l~~~~~~~~~------~~~y~~~C~~~~~~P~i~f~fgg~~~~v~~~~yi~~~~~~~~~~ 282 (326)
T cd05487 209 TAVVDTGASFISGPTSSISKLMEALGAKER------LGDYVVKCNEVPTLPDISFHLGGKEYTLSSSDYVLQDSDFSDKL 282 (326)
T ss_pred EEEECCCccchhCcHHHHHHHHHHhCCccc------CCCEEEeccccCCCCCEEEEECCEEEEeCHHHhEEeccCCCCCE
Confidence 589999999999999877665211110000 111 112211 11234555555543321
Q ss_pred EE--E--cCC---CCCCeeechhHHhhcCCeEEEccCcEEEEEE
Q 042094 405 FF--L--LPV---SGCDIVLGAEWLRSLGAILWDFSKLTMQFTW 441 (485)
Q Consensus 405 ~~--V--~~~---~~~dvILG~dwL~~~~~i~id~~~~~~~~~~ 441 (485)
++ + .+. .+...|||..||+.+-. ..|+.+++|-|..
T Consensus 283 C~~~~~~~~~~~~~~~~~ilG~~flr~~y~-vfD~~~~~IGfA~ 325 (326)
T cd05487 283 CTVAFHAMDIPPPTGPLWVLGATFIRKFYT-EFDRQNNRIGFAL 325 (326)
T ss_pred EEEEEEeCCCCCCCCCeEEEehHHhhccEE-EEeCCCCEEeeee
Confidence 11 1 111 11247999999999986 7999999998753
No 61
>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=86.03 E-value=2.1 Score=41.09 Aligned_cols=86 Identities=22% Similarity=0.304 Sum_probs=51.4
Q ss_pred EEEEEEC--CeEEEEEEcCCCCccccCHHHHhhc------CCcc-c-------cccceEEEEccCCeeeecceEeeeEEe
Q 042094 332 RLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQY------GCPV-T-------TTTQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 332 ~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l------~l~~-~-------~~~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
.+.+.|+ .+.+.++|||||+..+|....+..- +.-. . ...++.+..++|. + .|....=.|.
T Consensus 3 ~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~~~~~~~~~y~~~~S~t~~~~~~~~~~~y~~g~-~--~G~~~~D~v~ 79 (317)
T PF00026_consen 3 YINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSCSSCASSGFYNPSKSSTFSNQGKPFSISYGDGS-V--SGNLVSDTVS 79 (317)
T ss_dssp EEEEEETTTTEEEEEEEETTBSSEEEEBTTECSHTHHCTSC-BBGGGSTTEEEEEEEEEEEETTEE-E--EEEEEEEEEE
T ss_pred EEEEEECCCCeEEEEEEecccceeeeceeccccccccccccccccccccccccceeeeeeeccCcc-c--ccccccceEe
Confidence 4567776 7999999999999998864322211 1110 1 1134566667766 3 3444444788
Q ss_pred ecceEEE-EEEEEcCC--------CCCCeeechh
Q 042094 396 SQGFQFH-LDFFLLPV--------SGCDIVLGAE 420 (485)
Q Consensus 396 i~~~~~~-~~~~V~~~--------~~~dvILG~d 420 (485)
+++.... ..|.++.. ...|=|||+-
T Consensus 80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg 113 (317)
T PF00026_consen 80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLG 113 (317)
T ss_dssp ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-S
T ss_pred eeeccccccceecccccccccccccccccccccc
Confidence 8887655 55555543 2367777766
No 62
>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=85.98 E-value=3.8 Score=33.67 Aligned_cols=82 Identities=10% Similarity=0.124 Sum_probs=49.3
Q ss_pred ECCeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecceEEEEEEEEcCCCCCCee
Q 042094 337 LKKHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGFQFHLDFFLLPVSGCDIV 416 (485)
Q Consensus 337 i~~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~~~~~~~~V~~~~~~dvI 416 (485)
|.|..+.+.-||||+++.|-..+... ..+.....+.+.+|..-. .+--+.|.++|.....+++.-+.. |-+|
T Consensus 1 ikg~~l~~~wDsga~ITCiP~~fl~~----E~Pi~~~~i~Tihg~~~~---~vYYl~fKi~grkv~aEVi~s~~d-y~li 72 (163)
T PF03539_consen 1 IKGTKLKGHWDSGAQITCIPESFLEE----EQPIGKTLIKTIHGEKEQ---DVYYLTFKINGRKVEAEVIASPYD-YILI 72 (163)
T ss_dssp ETTEEEEEEE-TT-SSEEEEGGGTTT-------SEEEEEE-SS-EEEE---EEEEEEEEESS-EEEEEEEEESSS-SEEE
T ss_pred CCCceeeEEecCCCeEEEccHHHhCc----cccccceEEEEecCceec---cEEEEEEEEcCeEEEEEEecCccc-eEEE
Confidence 45788899999999999998887553 134456678888887643 333478999998776666655532 2222
Q ss_pred --echhHHhhcC
Q 042094 417 --LGAEWLRSLG 426 (485)
Q Consensus 417 --LG~dwL~~~~ 426 (485)
.-.+|+.+..
T Consensus 73 ~p~diPw~~~~p 84 (163)
T PF03539_consen 73 SPSDIPWYKKKP 84 (163)
T ss_dssp -TTT-HHHHS--
T ss_pred cccccccccCCC
Confidence 1568998765
No 63
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=85.39 E-value=0.45 Score=40.18 Aligned_cols=19 Identities=21% Similarity=0.630 Sum_probs=12.0
Q ss_pred CceeecCCCCCCCCcCCCc
Q 042094 271 GLCFNCDEQFKPGHRCKAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~ 289 (485)
..||+|++.||++++||.+
T Consensus 28 ~~C~~Cg~~GH~~~~Cp~~ 46 (148)
T PTZ00368 28 RPCYKCGEPGHLSRECPSA 46 (148)
T ss_pred ccCccCCCCCcCcccCcCC
Confidence 4566666666666666543
No 64
>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=84.17 E-value=4.2 Score=31.87 Aligned_cols=27 Identities=15% Similarity=0.322 Sum_probs=20.5
Q ss_pred EEEECC--eEEEEEEcCCCCccccCHHHH
Q 042094 334 KGNLKK--HGVTILIDSSSTHIFLNSSLA 360 (485)
Q Consensus 334 ~~~i~~--~~v~aLiDsGSt~sfIs~~~~ 360 (485)
.+.|+. +.+.++|||||+...|..+-+
T Consensus 2 ~i~vGtP~q~~~~~~DTGSs~~Wv~~~~c 30 (109)
T cd05470 2 EIGIGTPPQTFNVLLDTGSSNLWVPSVDC 30 (109)
T ss_pred EEEeCCCCceEEEEEeCCCCCEEEeCCCC
Confidence 345554 789999999999998876543
No 65
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=83.90 E-value=0.45 Score=44.45 Aligned_cols=18 Identities=28% Similarity=0.704 Sum_probs=16.5
Q ss_pred CceeecCCCCCCCCcCCC
Q 042094 271 GLCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~ 288 (485)
..||+||+.||+.++|+.
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPE 161 (261)
T ss_pred CccCCCCcCCcchhhCCC
Confidence 569999999999999984
No 66
>PLN03146 aspartyl protease family protein; Provisional
Probab=83.54 E-value=2.2 Score=43.10 Aligned_cols=28 Identities=14% Similarity=0.083 Sum_probs=23.9
Q ss_pred CeeechhHHhhcCCeEEEccCcEEEEEEC
Q 042094 414 DIVLGAEWLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 414 dvILG~dwL~~~~~i~id~~~~~~~~~~~ 442 (485)
..|||..+++.+.. ..|..+++|.|...
T Consensus 399 ~~IlG~~~q~~~~v-vyDl~~~~igFa~~ 426 (431)
T PLN03146 399 IAIFGNLAQMNFLV-GYDLESKTVSFKPT 426 (431)
T ss_pred ceEECeeeEeeEEE-EEECCCCEEeeecC
Confidence 37999999998885 79999999998753
No 67
>PTZ00147 plasmepsin-1; Provisional
Probab=83.31 E-value=5.4 Score=40.51 Aligned_cols=89 Identities=19% Similarity=0.318 Sum_probs=54.4
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHhhcCCc-----------c--ccccceEEEEccCCeeeecceEeeeEE
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQYGCP-----------V--TTTTQFQVTVADGGVISSSGKCSHVPV 394 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l~l~-----------~--~~~~~~~v~~a~G~~~~~~~~~~~v~v 394 (485)
.....+.|+ .+.+.++|||||+...|...-|..-+.. + ....++.+..++|+ + .|....=.|
T Consensus 139 ~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~Gs-v--sG~~~~DtV 215 (453)
T PTZ00147 139 MSYGEAKLGDNGQKFNFIFDTGSANLWVPSIKCTTEGCETKNLYDSSKSKTYEKDGTKVEMNYVSGT-V--SGFFSKDLV 215 (453)
T ss_pred EEEEEEEECCCCeEEEEEEeCCCCcEEEeecCCCcccccCCCccCCccCcceEECCCEEEEEeCCCC-E--EEEEEEEEE
Confidence 346677886 7899999999999999865433211110 0 01235677777775 2 344333357
Q ss_pred eecceEEEEEEEEcC----------CCCCCeeechhH
Q 042094 395 NSQGFQFHLDFFLLP----------VSGCDIVLGAEW 421 (485)
Q Consensus 395 ~i~~~~~~~~~~V~~----------~~~~dvILG~dw 421 (485)
.+++......|..+. ....|=|||+-|
T Consensus 216 tiG~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~ 252 (453)
T PTZ00147 216 TIGNLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGW 252 (453)
T ss_pred EECCEEEEEEEEEEEeccCcccccccccccceecccC
Confidence 888876655554432 123688999876
No 68
>PRK04406 hypothetical protein; Provisional
Probab=83.11 E-value=6.6 Score=28.63 Aligned_cols=44 Identities=30% Similarity=0.327 Sum_probs=29.7
Q ss_pred cHHHHHHHHHHhhhhhh-------hhHHHHHHhhhhHHHHHhhhhhhhhhh
Q 042094 2 TIKELEERVEQLSHQFN-------EKVEVLSQQSNDLQELILSLHDQFIRF 45 (485)
Q Consensus 2 ~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (485)
||..|++|++.||..+. +.+++..+++.++..+...++....+.
T Consensus 5 ~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl 55 (75)
T PRK04406 5 TIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKV 55 (75)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57778888888877665 566677777777666666655544443
No 69
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=83.07 E-value=4.8 Score=40.81 Aligned_cols=88 Identities=20% Similarity=0.386 Sum_probs=53.0
Q ss_pred EEEEEEEC--CeEEEEEEcCCCCccccCHHHHhhcCC------ccc-------cccceEEEEccCCeeeecceEeeeEEe
Q 042094 331 MRLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQYGC------PVT-------TTTQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 331 ~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l~l------~~~-------~~~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
.+..+.|+ ++.+.++|||||+...|...-|...+. ... ....+.+..++|+ + .|....=.|.
T Consensus 139 Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C~~~~C~~~~~yd~s~SsT~~~~~~~~~i~YG~Gs-v--~G~~~~Dtv~ 215 (450)
T PTZ00013 139 FYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCDSIGCSIKNLYDSSKSKSYEKDGTKVDITYGSGT-V--KGFFSKDLVT 215 (450)
T ss_pred EEEEEEECCCCeEEEEEEeCCCCceEEecccCCccccccCCCccCccCcccccCCcEEEEEECCce-E--EEEEEEEEEE
Confidence 45566775 789999999999999986544332111 000 1124677777775 3 3433333677
Q ss_pred ecceEEEEEEEEcC----------CCCCCeeechhH
Q 042094 396 SQGFQFHLDFFLLP----------VSGCDIVLGAEW 421 (485)
Q Consensus 396 i~~~~~~~~~~V~~----------~~~~dvILG~dw 421 (485)
+++......|.++. ....|=|||+-|
T Consensus 216 iG~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~ 251 (450)
T PTZ00013 216 LGHLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGW 251 (450)
T ss_pred ECCEEEccEEEEEEeccccccceecccccceecccC
Confidence 78876554444332 123688999875
No 70
>PTZ00165 aspartyl protease; Provisional
Probab=82.46 E-value=7.3 Score=39.92 Aligned_cols=28 Identities=18% Similarity=0.338 Sum_probs=24.6
Q ss_pred CeeechhHHhhcCCeEEEccCcEEEEEEC
Q 042094 414 DIVLGAEWLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 414 dvILG~dwL~~~~~i~id~~~~~~~~~~~ 442 (485)
..|||-.||+.+-. ..|..+++|-|...
T Consensus 419 ~~ILGd~Flr~yy~-VFD~~n~rIGfA~a 446 (482)
T PTZ00165 419 LFVLGNNFIRKYYS-IFDRDHMMVGLVPA 446 (482)
T ss_pred eEEEchhhheeEEE-EEeCCCCEEEEEee
Confidence 47999999999987 69999999999743
No 71
>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=81.50 E-value=2.8 Score=39.40 Aligned_cols=85 Identities=16% Similarity=0.276 Sum_probs=49.7
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccC---CeeeecceEeeeEEee-cceEEEEEEEEcCCC----CC
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADG---GVISSSGKCSHVPVNS-QGFQFHLDFFLLPVS----GC 413 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G---~~~~~~~~~~~v~v~i-~~~~~~~~~~V~~~~----~~ 413 (485)
..++||||++.+++..+.. + +++.+.+.++ ..+..... ..-+.. ++. .-+.++... .-
T Consensus 178 ~~~ivDTGTt~t~lp~~~y----~-----p~i~~~f~~~~~~~~~~l~~~--~y~~~~~~~~---~Cl~~~~~~~~~~~~ 243 (273)
T cd05475 178 LEVVFDSGSSYTYFNAQAY----F-----KPLTLKFGKGWRTRLLEIPPE--NYLIISEKGN---VCLGILNGSEIGLGN 243 (273)
T ss_pred ceEEEECCCceEEcCCccc----c-----ccEEEEECCCCceeEEEeCCC--ceEEEcCCCC---EEEEEecCCCcCCCc
Confidence 4689999999999988765 2 2455555433 12222111 000000 111 112223221 12
Q ss_pred CeeechhHHhhcCCeEEEccCcEEEEEE
Q 042094 414 DIVLGAEWLRSLGAILWDFSKLTMQFTW 441 (485)
Q Consensus 414 dvILG~dwL~~~~~i~id~~~~~~~~~~ 441 (485)
..|||-.||+.+-. ..|+.+++|-|..
T Consensus 244 ~~ilG~~~l~~~~~-vfD~~~~riGfa~ 270 (273)
T cd05475 244 TNIIGDISMQGLMV-IYDNEKQQIGWVR 270 (273)
T ss_pred eEEECceEEEeeEE-EEECcCCEeCccc
Confidence 47999999999986 6999999998864
No 72
>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=81.10 E-value=6.1 Score=36.91 Aligned_cols=75 Identities=15% Similarity=0.207 Sum_probs=48.0
Q ss_pred EEEEEEC--CeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecce--EE-EEEEE
Q 042094 332 RLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGF--QF-HLDFF 406 (485)
Q Consensus 332 ~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~--~~-~~~~~ 406 (485)
.+.+.|+ .+.+.++|||||+...|.. ..+.+..++|+.+. |....=.|.+++. .. ...|-
T Consensus 3 ~~~i~iGtP~q~~~v~~DTGSs~~wv~~-------------~~~~~~Y~dg~~~~--G~~~~D~v~~g~~~~~~~~~~Fg 67 (265)
T cd05476 3 LVTLSIGTPPQPFSLIVDTGSDLTWTQC-------------CSYEYSYGDGSSTS--GVLATETFTFGDSSVSVPNVAFG 67 (265)
T ss_pred EEEEecCCCCcceEEEecCCCCCEEEcC-------------CceEeEeCCCceee--eeEEEEEEEecCCCCccCCEEEE
Confidence 3556665 5789999999999998853 35667777776543 4433335677765 22 23454
Q ss_pred EcCCC------CCCeeechhH
Q 042094 407 LLPVS------GCDIVLGAEW 421 (485)
Q Consensus 407 V~~~~------~~dvILG~dw 421 (485)
++... ..|=|||+-+
T Consensus 68 ~~~~~~~~~~~~~~GIlGLg~ 88 (265)
T cd05476 68 CGTDNEGGSFGGADGILGLGR 88 (265)
T ss_pred ecccccCCccCCCCEEEECCC
Confidence 44432 4788888765
No 73
>PRK02793 phi X174 lysis protein; Provisional
Probab=80.99 E-value=9.5 Score=27.59 Aligned_cols=45 Identities=18% Similarity=0.196 Sum_probs=29.8
Q ss_pred CcHHHHHHHHHHhhhhhh-------hhHHHHHHhhhhHHHHHhhhhhhhhhh
Q 042094 1 MTIKELEERVEQLSHQFN-------EKVEVLSQQSNDLQELILSLHDQFIRF 45 (485)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (485)
||...+++|+..||..+. +.+++..++..++..+...+.....+.
T Consensus 1 m~~~~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl 52 (72)
T PRK02793 1 MQDSSLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKL 52 (72)
T ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677778888888877665 566676777766666665555444443
No 74
>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=77.88 E-value=6.6 Score=38.66 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=23.9
Q ss_pred eeechhHHhhcCCeEEEccCcEEEEEEC
Q 042094 415 IVLGAEWLRSLGAILWDFSKLTMQFTWK 442 (485)
Q Consensus 415 vILG~dwL~~~~~i~id~~~~~~~~~~~ 442 (485)
.|||..||+.+-. ..|..+++|-|...
T Consensus 319 ~ILG~~flr~~yv-vfD~~~~rIGfa~~ 345 (364)
T cd05473 319 TVIGAVIMEGFYV-VFDRANKRVGFAVS 345 (364)
T ss_pred eEEeeeeEcceEE-EEECCCCEEeeEec
Confidence 6999999999986 69999999999754
No 75
>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=75.33 E-value=11 Score=35.38 Aligned_cols=87 Identities=16% Similarity=0.202 Sum_probs=48.9
Q ss_pred EEEEECC--eEEEEEEcCCCCccccCHHHHh-----hcCC---c---c---ccccceEEEEccCCeeeecceEeeeEEee
Q 042094 333 LKGNLKK--HGVTILIDSSSTHIFLNSSLAK-----QYGC---P---V---TTTTQFQVTVADGGVISSSGKCSHVPVNS 396 (485)
Q Consensus 333 ~~~~i~~--~~v~aLiDsGSt~sfIs~~~~~-----~l~l---~---~---~~~~~~~v~~a~G~~~~~~~~~~~v~v~i 396 (485)
+.+.|+. +.+.++|||||+..+|...-+. ..+. . + ....++.+..++|+.+. |....=.|.+
T Consensus 3 ~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~c~~~~~~~~~~y~~~~Sst~~~~~~~~~~i~Y~~G~~~~--G~~~~D~v~i 80 (278)
T cd06097 3 TPVKIGTPPQTLNLDLDTGSSDLWVFSSETPAAQQGGHKLYDPSKSSTAKLLPGATWSISYGDGSSAS--GIVYTDTVSI 80 (278)
T ss_pred eeEEECCCCcEEEEEEeCCCCceeEeeCCCCchhhccCCcCCCccCccceecCCcEEEEEeCCCCeEE--EEEEEEEEEE
Confidence 4566766 8899999999999998654322 1110 0 0 01235667777776433 3322235666
Q ss_pred cceEEE-EEEEEcC--------CCCCCeeechhH
Q 042094 397 QGFQFH-LDFFLLP--------VSGCDIVLGAEW 421 (485)
Q Consensus 397 ~~~~~~-~~~~V~~--------~~~~dvILG~dw 421 (485)
++.... ..|-+.. ....|=|||+-+
T Consensus 81 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 114 (278)
T cd06097 81 GGVEVPNQAIELATAVSASFFSDTASDGLLGLAF 114 (278)
T ss_pred CCEEECCeEEEEEeecCccccccccccceeeecc
Confidence 765432 2233221 134788888865
No 76
>cd07936 SCAN SCAN oligomerization domain. The SCAN domain (named after SRE-ZBP, CTfin51, AW-1 and Number 18 cDNA) is found in several vertebrate proteins that contain C2H2 zinc finger motifs, many of which may be transcription factors playing roles in cell survival and differentiation. This protein-interaction domain is able to mediate homo- and hetero-oligomerization of SCAN-containing proteins. Some SCAN-containing proteins, including those of lower vertebrates, do not contain zinc finger motifs. It has been noted that the SCAN domain resembles a domain-swapped version of the C-terminal domain of the HIV capsid protein. This domain model features elements common to the three general groups of SCAN domains (SCAN-A1, SCAN-A2, and SCAN-B). The SCAND1 protein is truncated at the C-terminus with respect to this model, the SCAND2 protein appears to have a truncated central helix.
Probab=73.75 E-value=7.5 Score=29.17 Aligned_cols=39 Identities=26% Similarity=0.163 Sum_probs=33.7
Q ss_pred ChHHHHHHHHhhhHHHHHHHHHhcCcccHHHHHHHHHHH
Q 042094 165 PESFFISCFLSGLREDIKIGVQMLKPASLLQTFELARFQ 203 (485)
Q Consensus 165 ~e~~~~~~f~~GL~~~i~~~v~~~~p~tl~~~~~~a~~~ 203 (485)
-+-..+.+|+.-|+.+++..|..+.|.+-++++.++..+
T Consensus 45 lelLVlEQfl~~lp~e~q~~v~~~~p~s~eea~~l~e~~ 83 (85)
T cd07936 45 LELLVLEQFLIILPPEVQAWVRERKPESGEEAATLAEDL 83 (85)
T ss_pred HHHHHHHHHhhhCCHHHHHHHHhcCCCCHHHHHHHHHHh
Confidence 345678889999999999999999999999999888754
No 77
>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=73.02 E-value=11 Score=35.74 Aligned_cols=78 Identities=17% Similarity=0.193 Sum_probs=47.4
Q ss_pred EEEEEEC--CeEEEEEEcCCCCccccCHHHHhhcCCccccccceEEEEccCCeeeecceEeeeEEeecce-EE-EEEEEE
Q 042094 332 RLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQYGCPVTTTTQFQVTVADGGVISSSGKCSHVPVNSQGF-QF-HLDFFL 407 (485)
Q Consensus 332 ~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l~l~~~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~-~~-~~~~~V 407 (485)
.+.+.|+ .+++.++|||||+...|...- ...+.+..++|+.+. |....=.|.+++. .. ...|-+
T Consensus 3 ~~~i~iGtP~q~~~v~~DTGSs~~Wv~c~~----------c~~~~i~Yg~Gs~~~--G~~~~D~v~ig~~~~~~~~~Fg~ 70 (299)
T cd05472 3 VVTVGLGTPARDQTVIVDTGSDLTWVQCQP----------CCLYQVSYGDGSYTT--GDLATDTLTLGSSDVVPGFAFGC 70 (299)
T ss_pred EEEEecCCCCcceEEEecCCCCcccccCCC----------CCeeeeEeCCCceEE--EEEEEEEEEeCCCCccCCEEEEC
Confidence 3455565 578999999999999884211 146788888887543 3332225666664 32 234444
Q ss_pred cCCC-----CCCeeechhH
Q 042094 408 LPVS-----GCDIVLGAEW 421 (485)
Q Consensus 408 ~~~~-----~~dvILG~dw 421 (485)
.... ..|=|||+-+
T Consensus 71 ~~~~~~~~~~~~GilGLg~ 89 (299)
T cd05472 71 GHDNEGLFGGAAGLLGLGR 89 (299)
T ss_pred CccCCCccCCCCEEEECCC
Confidence 3321 3677888754
No 78
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=72.84 E-value=1.9 Score=36.58 Aligned_cols=18 Identities=39% Similarity=1.053 Sum_probs=16.2
Q ss_pred CceeecCCCCCCCCcCCC
Q 042094 271 GLCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~ 288 (485)
+.|++||+.||+.+.|++
T Consensus 101 ~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 101 GFCYRCGERGHIGRNCKD 118 (195)
T ss_pred cccccCCCcccccccccc
Confidence 559999999999999965
No 79
>PRK00736 hypothetical protein; Provisional
Probab=70.80 E-value=27 Score=24.87 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
|..||.++--.+..|++.+++..+++.++..+...++....+...
T Consensus 7 i~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~ 51 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLS 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888889988888888888887776665555433
No 80
>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=70.54 E-value=20 Score=34.46 Aligned_cols=88 Identities=19% Similarity=0.267 Sum_probs=51.0
Q ss_pred EEEEEEEC--CeEEEEEEcCCCCccccCHHHHh-----hcCCc------c--ccccceEEEEccCCeeeecceEeeeEEe
Q 042094 331 MRLKGNLK--KHGVTILIDSSSTHIFLNSSLAK-----QYGCP------V--TTTTQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 331 ~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~-----~l~l~------~--~~~~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
..+.+.|+ .+.+.++|||||+...|...-|. ..+.- + .....+.+..++|+. .|....=.|.
T Consensus 4 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~C~~~~C~~~~~f~~~~SsT~~~~~~~~~~~Yg~Gs~---~G~~~~D~i~ 80 (318)
T cd05477 4 YYGEISIGTPPQNFLVLFDTGSSNLWVPSVLCQSQACTNHTKFNPSQSSTYSTNGETFSLQYGSGSL---TGIFGYDTVT 80 (318)
T ss_pred EEEEEEECCCCcEEEEEEeCCCccEEEccCCCCCccccccCCCCcccCCCceECCcEEEEEECCcEE---EEEEEeeEEE
Confidence 45566776 48899999999999998753222 11110 0 012356777788762 2333333667
Q ss_pred ecceEEE-EEEEEcCC--------CCCCeeechhH
Q 042094 396 SQGFQFH-LDFFLLPV--------SGCDIVLGAEW 421 (485)
Q Consensus 396 i~~~~~~-~~~~V~~~--------~~~dvILG~dw 421 (485)
+++.... ..|-++.. ...|=|||+-+
T Consensus 81 ~g~~~i~~~~Fg~~~~~~~~~~~~~~~~GilGLg~ 115 (318)
T cd05477 81 VQGIIITNQEFGLSETEPGTNFVYAQFDGILGLAY 115 (318)
T ss_pred ECCEEEcCEEEEEEEecccccccccceeeEeecCc
Confidence 7776543 34444332 12577888864
No 81
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=70.26 E-value=1.2 Score=36.33 Aligned_cols=22 Identities=18% Similarity=0.270 Sum_probs=18.6
Q ss_pred CceeecCCCCCCCCcCCCceee
Q 042094 271 GLCFNCDEQFKPGHRCKAPQLL 292 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~~~~ 292 (485)
..|-+|.+.||+..+|++++..
T Consensus 28 ~rCQKClq~GHWtYECk~kRkY 49 (177)
T KOG3116|consen 28 ARCQKCLQAGHWTYECKNKRKY 49 (177)
T ss_pred hhHHHHHhhccceeeecCceee
Confidence 3599999999999999877643
No 82
>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=70.22 E-value=18 Score=34.94 Aligned_cols=89 Identities=19% Similarity=0.229 Sum_probs=50.9
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHh-------hcCC-cc-------ccccceEEEEccCCeeeecceEeee
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAK-------QYGC-PV-------TTTTQFQVTVADGGVISSSGKCSHV 392 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~-------~l~l-~~-------~~~~~~~v~~a~G~~~~~~~~~~~v 392 (485)
...+.+.|+ .+.++++|||||+...|...-|. ..+. .. .....+.+..++|+ + .|....=
T Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~SsT~~~~~~~~~~~Yg~g~-~--~G~~~~D 84 (326)
T cd05487 8 QYYGEIGIGTPPQTFKVVFDTGSSNLWVPSSKCSPLYTACVTHNLYDASDSSTYKENGTEFTIHYASGT-V--KGFLSQD 84 (326)
T ss_pred eEEEEEEECCCCcEEEEEEeCCccceEEccCCCcCcchhhcccCcCCCCCCeeeeECCEEEEEEeCCce-E--EEEEeee
Confidence 456677776 68899999999999999643222 1111 00 01234567777775 2 3443333
Q ss_pred EEeecceEEEEEEEEcCC--------CCCCeeechhH
Q 042094 393 PVNSQGFQFHLDFFLLPV--------SGCDIVLGAEW 421 (485)
Q Consensus 393 ~v~i~~~~~~~~~~V~~~--------~~~dvILG~dw 421 (485)
.|.+++......|.++.. ...|=|||.-+
T Consensus 85 ~v~~g~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 121 (326)
T cd05487 85 IVTVGGIPVTQMFGEVTALPAIPFMLAKFDGVLGMGY 121 (326)
T ss_pred EEEECCEEeeEEEEEEEeccCCccceeecceEEecCC
Confidence 567777644322332211 23677888765
No 83
>PF14541 TAXi_C: Xylanase inhibitor C-terminal; PDB: 3AUP_D 3HD8_A 1T6G_A 1T6E_X 2B42_A 3VLB_A 3VLA_A.
Probab=67.55 E-value=28 Score=29.62 Aligned_cols=29 Identities=14% Similarity=0.230 Sum_probs=24.2
Q ss_pred CCCCeeechhHHhhcCCeEEEccCcEEEEE
Q 042094 411 SGCDIVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 411 ~~~dvILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
...-.|||...+..+. |..|-.+++|.|.
T Consensus 132 ~~~~~viG~~~~~~~~-v~fDl~~~~igF~ 160 (161)
T PF14541_consen 132 DDGVSVIGNFQQQNYH-VVFDLENGRIGFA 160 (161)
T ss_dssp TSSSEEE-HHHCCTEE-EEEETTTTEEEEE
T ss_pred CCCcEEECHHHhcCcE-EEEECCCCEEEEe
Confidence 4568899999999998 5899999999986
No 84
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=66.36 E-value=13 Score=23.87 Aligned_cols=25 Identities=32% Similarity=0.369 Sum_probs=18.4
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHh
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQ 27 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~ 27 (485)
|++|+++|+.|+.+++......++.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~fs~y 25 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAFSQY 25 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999887665544443
No 85
>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=65.06 E-value=39 Score=33.25 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=21.6
Q ss_pred eeechhHHhhcCCeEEEccCcEEEEE
Q 042094 415 IVLGAEWLRSLGAILWDFSKLTMQFT 440 (485)
Q Consensus 415 vILG~dwL~~~~~i~id~~~~~~~~~ 440 (485)
.|||.-+|+.+-. ..|..+++|-|.
T Consensus 335 ~IlG~~~~~~~~v-vyD~~~~riGfa 359 (362)
T cd05489 335 VVIGGHQMEDNLL-VFDLEKSRLGFS 359 (362)
T ss_pred EEEeeheecceEE-EEECCCCEeecc
Confidence 5899999999985 799999888775
No 86
>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=63.82 E-value=26 Score=33.60 Aligned_cols=89 Identities=16% Similarity=0.194 Sum_probs=50.1
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHhh-----cCC-cc-------ccccceEEEEccCCeeeecceEeeeEE
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQ-----YGC-PV-------TTTTQFQVTVADGGVISSSGKCSHVPV 394 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~-----l~l-~~-------~~~~~~~v~~a~G~~~~~~~~~~~v~v 394 (485)
...+.+.|+ .+.+.++|||||+...|...-|.. .+. .. ....++.+..++|+ . .|....=.|
T Consensus 10 ~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~~C~~~~c~~~~~f~~~~Sst~~~~~~~~~~~yg~gs-~--~G~~~~D~v 86 (317)
T cd05478 10 EYYGTISIGTPPQDFTVIFDTGSSNLWVPSVYCSSQACSNHNRFNPRQSSTYQSTGQPLSIQYGTGS-M--TGILGYDTV 86 (317)
T ss_pred EEEEEEEeCCCCcEEEEEEeCCCccEEEecCCCCcccccccCcCCCCCCcceeeCCcEEEEEECCce-E--EEEEeeeEE
Confidence 456677786 578999999999999996543321 111 00 01134567777776 2 233322256
Q ss_pred eecceEEE-EEEEEcCC--------CCCCeeechhH
Q 042094 395 NSQGFQFH-LDFFLLPV--------SGCDIVLGAEW 421 (485)
Q Consensus 395 ~i~~~~~~-~~~~V~~~--------~~~dvILG~dw 421 (485)
.+++.... ..|-+... ...|=|||+-|
T Consensus 87 ~ig~~~i~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 122 (317)
T cd05478 87 QVGGISDTNQIFGLSETEPGSFFYYAPFDGILGLAY 122 (317)
T ss_pred EECCEEECCEEEEEEEecCccccccccccceeeecc
Confidence 77775432 23333221 12577888764
No 87
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=63.70 E-value=21 Score=25.53 Aligned_cols=45 Identities=24% Similarity=0.299 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
|..||.++--.+..|++.+++...+..++.++...+.....+...
T Consensus 6 i~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~ 50 (69)
T PF04102_consen 6 IEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRE 50 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777777888888888888888887776655554333
No 88
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=62.10 E-value=3.9 Score=40.59 Aligned_cols=19 Identities=21% Similarity=0.382 Sum_probs=17.1
Q ss_pred CceeecCCCCCCCCcCCCc
Q 042094 271 GLCFNCDEQFKPGHRCKAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~ 289 (485)
+.|++||.-||++++|+.+
T Consensus 286 n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 286 NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCcccccccCCCc
Confidence 3799999999999999765
No 89
>PRK02119 hypothetical protein; Provisional
Probab=61.97 E-value=49 Score=23.96 Aligned_cols=43 Identities=19% Similarity=0.263 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhhhhhh-------hhHHHHHHhhhhHHHHHhhhhhhhhhh
Q 042094 3 IKELEERVEQLSHQFN-------EKVEVLSQQSNDLQELILSLHDQFIRF 45 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (485)
|+.+++|++.||..+. +.+++...++.++..+...++....+.
T Consensus 4 ~~~~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl 53 (73)
T PRK02119 4 QQNLENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKL 53 (73)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777766554 666777777777776666655544443
No 90
>PRK00295 hypothetical protein; Provisional
Probab=61.37 E-value=56 Score=23.27 Aligned_cols=45 Identities=24% Similarity=0.302 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
|..||.++--.+..|++.+++..++..++..+...++....+...
T Consensus 7 i~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~ 51 (68)
T PRK00295 7 VTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEE 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777777788888888888877777666655444333
No 91
>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=60.74 E-value=39 Score=32.52 Aligned_cols=89 Identities=17% Similarity=0.301 Sum_probs=51.0
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHhhcCCc-----------c-c-cccceEEEEccCCeeeecceEeeeEE
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQYGCP-----------V-T-TTTQFQVTVADGGVISSSGKCSHVPV 394 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~l~l~-----------~-~-~~~~~~v~~a~G~~~~~~~~~~~v~v 394 (485)
...+.+.|+ .+.+.++|||||+...|...-|...+.. + . ......+..++|+ + .|....=.|
T Consensus 10 ~Y~~~i~iGtp~q~~~v~~DTGSs~~wv~~~~C~~~~C~~~~~y~~~~Sst~~~~~~~~~~~y~~g~-~--~G~~~~D~v 86 (320)
T cd05488 10 QYFTDITLGTPPQKFKVILDTGSSNLWVPSVKCGSIACFLHSKYDSSASSTYKANGTEFKIQYGSGS-L--EGFVSQDTL 86 (320)
T ss_pred EEEEEEEECCCCcEEEEEEecCCcceEEEcCCCCCcccCCcceECCCCCcceeeCCCEEEEEECCce-E--EEEEEEeEE
Confidence 456778887 4889999999999998865433211110 0 0 1235667777775 2 344433356
Q ss_pred eecceEEE-EEEEEcC--------CCCCCeeechhH
Q 042094 395 NSQGFQFH-LDFFLLP--------VSGCDIVLGAEW 421 (485)
Q Consensus 395 ~i~~~~~~-~~~~V~~--------~~~~dvILG~dw 421 (485)
.+++..+. ..|.+.. ....|=|||+-+
T Consensus 87 ~ig~~~~~~~~f~~a~~~~g~~~~~~~~dGilGLg~ 122 (320)
T cd05488 87 SIGDLTIKKQDFAEATSEPGLAFAFGKFDGILGLAY 122 (320)
T ss_pred EECCEEECCEEEEEEecCCCcceeeeeeceEEecCC
Confidence 67765432 2333331 123577888765
No 92
>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=59.98 E-value=33 Score=32.94 Aligned_cols=86 Identities=16% Similarity=0.272 Sum_probs=47.5
Q ss_pred EEEEEC--CeEEEEEEcCCCCccccCHHHHh-----hcCC-c-----c--ccccceEEEEccCCeeeecceEeeeEEeec
Q 042094 333 LKGNLK--KHGVTILIDSSSTHIFLNSSLAK-----QYGC-P-----V--TTTTQFQVTVADGGVISSSGKCSHVPVNSQ 397 (485)
Q Consensus 333 ~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~-----~l~l-~-----~--~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~ 397 (485)
+.+.|+ .+.+.++|||||+...|...-|. ..+. . + ....++.+..++|. + .|....=.|.++
T Consensus 3 ~~i~iGtP~Q~~~v~~DTGSs~~Wv~s~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g~-~--~G~~~~D~v~ig 79 (316)
T cd05486 3 GQISIGTPPQNFTVIFDTGSSNLWVPSIYCTSQACTKHNRFQPSESSTYVSNGEAFSIQYGTGS-L--TGIIGIDQVTVE 79 (316)
T ss_pred EEEEECCCCcEEEEEEcCCCccEEEecCCCCCcccCccceECCCCCcccccCCcEEEEEeCCcE-E--EEEeeecEEEEC
Confidence 455565 57899999999999988643222 1111 0 0 01135677777775 2 343332256677
Q ss_pred ceEEE-EEEEEc--------CCCCCCeeechhH
Q 042094 398 GFQFH-LDFFLL--------PVSGCDIVLGAEW 421 (485)
Q Consensus 398 ~~~~~-~~~~V~--------~~~~~dvILG~dw 421 (485)
+.... ..|-+. .....|=|||+-+
T Consensus 80 ~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~ 112 (316)
T cd05486 80 GITVQNQQFAESVSEPGSTFQDSEFDGILGLAY 112 (316)
T ss_pred CEEEcCEEEEEeeccCcccccccccceEeccCc
Confidence 65432 233322 1124688888864
No 93
>PRK04325 hypothetical protein; Provisional
Probab=58.53 E-value=33 Score=24.91 Aligned_cols=42 Identities=17% Similarity=0.171 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhh
Q 042094 4 KELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRF 45 (485)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (485)
..||.++--.+..|++.+++..++..++.++...++....+.
T Consensus 12 ~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl 53 (74)
T PRK04325 12 TELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQM 53 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444445555777777777777777776655544443
No 94
>COG2916 Hns DNA-binding protein H-NS [General function prediction only]
Probab=57.87 E-value=46 Score=27.02 Aligned_cols=42 Identities=17% Similarity=0.087 Sum_probs=22.3
Q ss_pred cHHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhh
Q 042094 2 TIKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFI 43 (485)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (485)
+++.|++.++.+++-+++-++......++..+....+...++
T Consensus 16 ~~e~lee~~ek~eq~~~~r~~e~~~~~~~i~e~~~~~~~~~e 57 (128)
T COG2916 16 YLELLEEMLEKEEQVVQERQEEEAAAIAEIEERQEKYGTIRE 57 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666666666665555444444444444444444333
No 95
>PF13961 DUF4219: Domain of unknown function (DUF4219)
Probab=57.74 E-value=13 Score=21.04 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=18.7
Q ss_pred ccCCChhhHHHHHHHHhHHhc
Q 042094 85 LSGENPTSLIFRCEQYQRLAA 105 (485)
Q Consensus 85 F~G~~~~~wl~~~e~~~~~~~ 105 (485)
|+|++...|-.+++.++...+
T Consensus 1 l~g~NY~~W~~~M~~~L~~~~ 21 (27)
T PF13961_consen 1 LDGTNYSTWKIRMKAYLESQD 21 (27)
T ss_pred CCccCHHHHHHHHHHHHHHcc
Confidence 789889999999999998765
No 96
>PRK00846 hypothetical protein; Provisional
Probab=57.10 E-value=69 Score=23.50 Aligned_cols=43 Identities=16% Similarity=0.115 Sum_probs=26.2
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 5 ELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
.||.++--.+..|++.+++...++..+.++...++....+...
T Consensus 17 ~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~ 59 (77)
T PRK00846 17 ELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGK 59 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444445567777777777777777776665555444
No 97
>smart00431 SCAN leucine rich region.
Probab=56.48 E-value=23 Score=28.15 Aligned_cols=39 Identities=23% Similarity=0.206 Sum_probs=33.9
Q ss_pred hHHHHHHHHhhhHHHHHHHHHhcCcccHHHHHHHHHHHH
Q 042094 166 ESFFISCFLSGLREDIKIGVQMLKPASLLQTFELARFQE 204 (485)
Q Consensus 166 e~~~~~~f~~GL~~~i~~~v~~~~p~tl~~~~~~a~~~e 204 (485)
+-..+.+|+.-|+.+++..+..+.|.+-++++.++....
T Consensus 46 ElLVlEQFL~ilP~e~q~wv~~~~p~sgeeav~l~E~l~ 84 (113)
T smart00431 46 ELLVLEQFLTILPGELQAWVREHHPESGEEAVTLLEDLE 84 (113)
T ss_pred HHHHHHHHhccCcHHHHHHHHhcCCCCHHHHHHHHHHhc
Confidence 345688899999999999999999999999999987764
No 98
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.37 E-value=58 Score=23.36 Aligned_cols=45 Identities=22% Similarity=0.247 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhhhh-------hhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 3 IKELEERVEQLSHQ-------FNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 3 ~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
..++++|+..||-. |+|...++.++|..+.++...++....++..
T Consensus 3 ~~~lE~Ri~eLE~r~AfQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~ 54 (72)
T COG2900 3 DMELEARIIELEIRLAFQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKD 54 (72)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566666666554 4455566666666666666555555555544
No 99
>PTZ00165 aspartyl protease; Provisional
Probab=55.64 E-value=59 Score=33.40 Aligned_cols=32 Identities=13% Similarity=0.214 Sum_probs=25.3
Q ss_pred eEEEEEEECC--eEEEEEEcCCCCccccCHHHHh
Q 042094 330 TMRLKGNLKK--HGVTILIDSSSTHIFLNSSLAK 361 (485)
Q Consensus 330 ~~~~~~~i~~--~~v~aLiDsGSt~sfIs~~~~~ 361 (485)
...+.+.|+. +...+++||||+...|...-|.
T Consensus 120 ~Y~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~~C~ 153 (482)
T PTZ00165 120 QYFGEIQVGTPPKSFVVVFDTGSSNLWIPSKECK 153 (482)
T ss_pred eEEEEEEeCCCCceEEEEEeCCCCCEEEEchhcC
Confidence 4567788875 8899999999999998665443
No 100
>COG2383 Uncharacterized conserved protein [Function unknown]
Probab=55.54 E-value=3.9 Score=31.08 Aligned_cols=20 Identities=25% Similarity=0.546 Sum_probs=17.6
Q ss_pred eeechhHHhhcCCeEEEccC
Q 042094 415 IVLGAEWLRSLGAILWDFSK 434 (485)
Q Consensus 415 vILG~dwL~~~~~i~id~~~ 434 (485)
-||+.-||.++|.|+|||..
T Consensus 50 yilsl~~La~~GVItin~~a 69 (109)
T COG2383 50 YILSLFWLAQYGVITINWEA 69 (109)
T ss_pred HHHHHHHHHHcCeEEEcHHH
Confidence 36889999999999999975
No 101
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=54.96 E-value=5.5 Score=38.50 Aligned_cols=18 Identities=17% Similarity=0.213 Sum_probs=16.1
Q ss_pred CceeecCCCCCCCCcCCC
Q 042094 271 GLCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~ 288 (485)
.-|-+||+-||...+||.
T Consensus 571 kGCayCgGLGHRItdCPK 588 (610)
T KOG0341|consen 571 KGCAYCGGLGHRITDCPK 588 (610)
T ss_pred cccccccCCCcccccCch
Confidence 459999999999999975
No 102
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=53.92 E-value=20 Score=24.83 Aligned_cols=25 Identities=12% Similarity=0.263 Sum_probs=18.2
Q ss_pred HHHHHHHhhhhhhhhHHHHHHhhhh
Q 042094 6 LEERVEQLSHQFNEKVEVLSQQSND 30 (485)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (485)
+|+|+..||+.+++....+.....+
T Consensus 30 iEqRLa~LE~rL~~ae~ra~~ae~~ 54 (60)
T PF11471_consen 30 IEQRLAALEQRLQAAEQRAQAAEAR 54 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7889999999988776555544444
No 103
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=52.21 E-value=7.8 Score=31.65 Aligned_cols=21 Identities=19% Similarity=0.270 Sum_probs=17.1
Q ss_pred hCCceeecCCCCCCCCcCCCce
Q 042094 269 AKGLCFNCDEQFKPGHRCKAPQ 290 (485)
Q Consensus 269 ~~~~Cf~Cg~~GH~a~~C~~~~ 290 (485)
....|..|+ ..|+...||.+-
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyKd 125 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYKD 125 (128)
T ss_pred ceEEeCCCC-CCcccccCCccc
Confidence 446799996 779999998763
No 104
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=52.01 E-value=7.4 Score=36.30 Aligned_cols=22 Identities=27% Similarity=0.644 Sum_probs=19.2
Q ss_pred hCCceeecCCCCCCCCcCCCce
Q 042094 269 AKGLCFNCDEQFKPGHRCKAPQ 290 (485)
Q Consensus 269 ~~~~Cf~Cg~~GH~a~~C~~~~ 290 (485)
+.+.||.|++.||..++|+.+.
T Consensus 163 ~~~~c~~c~~~~h~~~~C~~~~ 184 (261)
T KOG4400|consen 163 KGGTCFRCGKVGHGSRDCPSKQ 184 (261)
T ss_pred CCCccccCCCcceecccCCccc
Confidence 4688999999999999997654
No 105
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=51.90 E-value=7.3 Score=38.36 Aligned_cols=19 Identities=32% Similarity=0.735 Sum_probs=16.1
Q ss_pred CceeecCCCCCCCCcCCCc
Q 042094 271 GLCFNCDEQFKPGHRCKAP 289 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C~~~ 289 (485)
.-|||||..-|--++|+.+
T Consensus 129 ~~CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRP 147 (485)
T ss_pred ccccccCCCCCccccCCCc
Confidence 3499999999999999644
No 106
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=49.62 E-value=6.1 Score=41.69 Aligned_cols=18 Identities=22% Similarity=0.619 Sum_probs=15.8
Q ss_pred CCceeecCCCCCCCCcCC
Q 042094 270 KGLCFNCDEQFKPGHRCK 287 (485)
Q Consensus 270 ~~~Cf~Cg~~GH~a~~C~ 287 (485)
...||.||+.||.+.+|.
T Consensus 260 ~~~C~~cgq~gh~~~dc~ 277 (931)
T KOG2044|consen 260 PRRCFLCGQTGHEAKDCE 277 (931)
T ss_pred cccchhhcccCCcHhhcC
Confidence 355999999999999993
No 107
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=47.14 E-value=1.3e+02 Score=24.89 Aligned_cols=37 Identities=30% Similarity=0.286 Sum_probs=25.7
Q ss_pred CcHHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhh
Q 042094 1 MTIKELEERVEQLSHQFNEKVEVLSQQSNDLQELILS 37 (485)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (485)
++++.|++.++.|..-++|.++.......+..+....
T Consensus 21 ~~~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~ 57 (134)
T PRK10328 21 FSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEK 57 (134)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688999999999999888776555555444444333
No 108
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=45.63 E-value=73 Score=30.85 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=16.5
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHhhhhHH
Q 042094 5 ELEERVEQLSHQFNEKVEVLSQQSNDLQ 32 (485)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (485)
+|++.-|.|.+++++.+..++++..++.
T Consensus 353 aLrkerd~L~keLeekkreleql~~q~~ 380 (442)
T PF06637_consen 353 ALRKERDSLAKELEEKKRELEQLKMQLA 380 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666666666666655555554433
No 109
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=44.87 E-value=5 Score=39.42 Aligned_cols=19 Identities=32% Similarity=0.606 Sum_probs=17.4
Q ss_pred hhCCceeecCCCCCCCCcC
Q 042094 268 RAKGLCFNCDEQFKPGHRC 286 (485)
Q Consensus 268 ~~~~~Cf~Cg~~GH~a~~C 286 (485)
-++|.|-|||.-||..++|
T Consensus 110 yRKGACeNCGAmtHk~KDC 128 (529)
T KOG2560|consen 110 YRKGACENCGAMTHKVKDC 128 (529)
T ss_pred HhhhhhhhhhhhhcchHHH
Confidence 4568999999999999999
No 110
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=44.84 E-value=64 Score=25.41 Aligned_cols=46 Identities=20% Similarity=0.232 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHHh
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQED 48 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (485)
+..|++.+..|.++|.+.+..+..+.+++.+|..+-+..+.+..+.
T Consensus 10 l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~ 55 (107)
T PF06156_consen 10 LDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEEL 55 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777777777788777888888888887776666665553
No 111
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=44.57 E-value=24 Score=19.11 Aligned_cols=17 Identities=29% Similarity=0.626 Sum_probs=13.8
Q ss_pred HHHHHHHHHHhhhhhhh
Q 042094 3 IKELEERVEQLSHQFNE 19 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~ 19 (485)
|..++.++.+|+.+|++
T Consensus 3 ~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSE 19 (23)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 67888888888888765
No 112
>PF02761 Cbl_N2: CBL proto-oncogene N-terminus, EF hand-like domain; InterPro: IPR014741 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the EF hand-like domain.; GO: 0005509 calcium ion binding; PDB: 3OP0_A 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B ....
Probab=41.99 E-value=18 Score=26.97 Aligned_cols=38 Identities=13% Similarity=0.185 Sum_probs=28.1
Q ss_pred ccCchHhHhHHhhhcCCCCCHHHHHHHHHHhhCCCchh
Q 042094 119 LDGDAVPWYHWLEQTMGNMTWAQFKRALVTQFGTFEDG 156 (485)
Q Consensus 119 L~G~A~~W~~~~~~~~~~~tw~~f~~~l~~~F~~~~~~ 156 (485)
.+.+|..+|...-.......|.+|+.+|.+.+.-....
T Consensus 5 TK~eA~~FW~~~Fg~r~IVPW~~F~~~L~~~h~~~~~~ 42 (85)
T PF02761_consen 5 TKAEAAEFWKTSFGKRTIVPWSEFRQALQKVHPISSGL 42 (85)
T ss_dssp SSHHHHHHHHHHHTT-SEEEHHHHHHHHHHHS--SSHH
T ss_pred ccHHHHHHHHHHCCCCeEeeHHHHHHHHHHhcCCCchH
Confidence 45678888887666568889999999999999766643
No 113
>PF14227 UBN2_2: gag-polypeptide of LTR copia-type
Probab=40.21 E-value=1.8e+02 Score=22.90 Aligned_cols=87 Identities=11% Similarity=-0.028 Sum_probs=50.8
Q ss_pred chHhHhHHhhhcCCCCCHHHHHH----HHHHhhCCCchhhhhhhc-------C------CChHHHHHHHHhhhHHHHHHH
Q 042094 122 DAVPWYHWLEQTMGNMTWAQFKR----ALVTQFGTFEDGDAVGTQ-------N------LPESFFISCFLSGLREDIKIG 184 (485)
Q Consensus 122 ~A~~W~~~~~~~~~~~tw~~f~~----~l~~~F~~~~~~~ey~~~-------~------~~e~~~~~~f~~GL~~~i~~~ 184 (485)
.|..-|..+.......++..-.. .+.-+|.+.....+++++ + ++++.++..++.+||+.-...
T Consensus 3 ta~~~W~~L~~~y~~~~~~~~~~l~~kl~~~k~~~~~~v~~hi~~~~~l~~~L~~~g~~i~d~~~~~~lL~sLP~sy~~~ 82 (119)
T PF14227_consen 3 TAKEMWDKLKKKYEKKSFANKIYLLRKLYSLKMDEGGSVRDHINEFRSLVNQLKSLGVPIDDEDKVIILLSSLPPSYDSF 82 (119)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhHhccchhHHHHHHHHHHHHHhhccccccchHHHHHHHHHHcCCHhHHHH
Confidence 35555666655444444433222 222244444344444443 3 689999999999999876655
Q ss_pred HHh--c----CcccHHHHHHHHHHHHHHHh
Q 042094 185 VQM--L----KPASLLQTFELARFQEEYAA 208 (485)
Q Consensus 185 v~~--~----~p~tl~~~~~~a~~~e~~~~ 208 (485)
+.. . ...++++++......|...+
T Consensus 83 ~~~l~~~~~~~~~tl~~v~~~L~~ee~~~~ 112 (119)
T PF14227_consen 83 VTALLYSKPEDELTLEEVKSKLLQEEERRK 112 (119)
T ss_pred HHHHHccCCCCCcCHHHHHHHHHHHHHHHH
Confidence 533 2 34678888877776555443
No 114
>PF05515 Viral_NABP: Viral nucleic acid binding ; InterPro: IPR008891 This family is common to ssRNA positive-strand viruses and are commonly described as nucleic acid binding proteins (NABP).
Probab=39.18 E-value=27 Score=28.04 Aligned_cols=24 Identities=17% Similarity=0.584 Sum_probs=18.6
Q ss_pred HhhhhCCceeecCCCCCCCCcCCC
Q 042094 265 TERRAKGLCFNCDEQFKPGHRCKA 288 (485)
Q Consensus 265 ~~~~~~~~Cf~Cg~~GH~a~~C~~ 288 (485)
...++-+.||.||+--|-.+.|+.
T Consensus 57 RRAkR~~~C~~CG~~l~~~~~C~~ 80 (124)
T PF05515_consen 57 RRAKRYNRCFKCGRYLHNNGNCRR 80 (124)
T ss_pred HHHHHhCccccccceeecCCcCCC
Confidence 334566889999998788889973
No 115
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=39.17 E-value=1.1e+02 Score=20.79 Aligned_cols=44 Identities=16% Similarity=0.283 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQ 46 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (485)
|.++|..+..++-.++-.+...++..+.+.++.....+....|.
T Consensus 2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll~lYE 45 (55)
T PF05377_consen 2 IDELENELPRIESSINTVKKENEEISESVEKIEENVKDLLSLYE 45 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888888877776667777777777666655555443
No 116
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=36.98 E-value=18 Score=24.96 Aligned_cols=16 Identities=25% Similarity=0.904 Sum_probs=13.3
Q ss_pred CceeecCCCCCCCCcC
Q 042094 271 GLCFNCDEQFKPGHRC 286 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C 286 (485)
..||+|+..+|..-.|
T Consensus 49 ~fC~~C~~~~H~~~~C 64 (64)
T smart00647 49 SFCFRCKVPWHSPVSC 64 (64)
T ss_pred eECCCCCCcCCCCCCC
Confidence 5699999999987655
No 117
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=36.53 E-value=1.6e+02 Score=29.79 Aligned_cols=15 Identities=7% Similarity=0.485 Sum_probs=7.2
Q ss_pred HHHHHHHHHhhhhhh
Q 042094 4 KELEERVEQLSHQFN 18 (485)
Q Consensus 4 ~~~~~~~~~~~~~~~ 18 (485)
++||+.++.|+++++
T Consensus 79 sELEKqLaaLrqElq 93 (475)
T PRK13729 79 AQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555544444
No 118
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=34.07 E-value=1.1e+02 Score=21.26 Aligned_cols=33 Identities=39% Similarity=0.511 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELI 35 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 35 (485)
|+.|++.++.|+............+...+..|.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777766655555555555544443
No 119
>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=33.28 E-value=47 Score=31.89 Aligned_cols=89 Identities=17% Similarity=0.188 Sum_probs=50.5
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHh------hcCC-ccc-------cccceEEEEccCCeeeecceEeeeE
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAK------QYGC-PVT-------TTTQFQVTVADGGVISSSGKCSHVP 393 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~------~l~l-~~~-------~~~~~~v~~a~G~~~~~~~~~~~v~ 393 (485)
...+.+.|+ .+.+.++|||||+...|...-|. ..+. ... ......+..++|+. .|....=.
T Consensus 10 ~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G~~---~G~~~~D~ 86 (317)
T cd06098 10 QYFGEIGIGTPPQKFTVIFDTGSSNLWVPSSKCYFSIACYFHSKYKSSKSSTYKKNGTSASIQYGTGSI---SGFFSQDS 86 (317)
T ss_pred EEEEEEEECCCCeEEEEEECCCccceEEecCCCCCCccccccCcCCcccCCCcccCCCEEEEEcCCceE---EEEEEeeE
Confidence 456778886 68899999999999988654331 1111 000 11245566777752 34333335
Q ss_pred EeecceEEE-EEEEEcC--------CCCCCeeechhH
Q 042094 394 VNSQGFQFH-LDFFLLP--------VSGCDIVLGAEW 421 (485)
Q Consensus 394 v~i~~~~~~-~~~~V~~--------~~~~dvILG~dw 421 (485)
|.+++.... ..|.+.. ....|=|||+-+
T Consensus 87 v~ig~~~v~~~~f~~~~~~~~~~~~~~~~dGilGLg~ 123 (317)
T cd06098 87 VTVGDLVVKNQVFIEATKEPGLTFLLAKFDGILGLGF 123 (317)
T ss_pred EEECCEEECCEEEEEEEecCCccccccccceeccccc
Confidence 667765432 2233221 123688998876
No 120
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=33.22 E-value=15 Score=25.36 Aligned_cols=16 Identities=38% Similarity=1.146 Sum_probs=12.8
Q ss_pred CceeecCCCCCCCCcC
Q 042094 271 GLCFNCDEQFKPGHRC 286 (485)
Q Consensus 271 ~~Cf~Cg~~GH~a~~C 286 (485)
..||.|++.+|....|
T Consensus 49 ~fC~~C~~~~H~~~~C 64 (64)
T PF01485_consen 49 EFCFKCGEPWHEGVTC 64 (64)
T ss_dssp EECSSSTSESCTTS-H
T ss_pred cCccccCcccCCCCCC
Confidence 5699999999987665
No 121
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=32.57 E-value=1.3e+02 Score=23.76 Aligned_cols=45 Identities=18% Similarity=0.220 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhhhhhhhHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHDQFIRFQE 47 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 (485)
+..|++.+..+.++|.+.+..+..+.+++..|..+-+..+.+..+
T Consensus 10 l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 10 LDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777777777777777777777777775555555444
No 122
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=32.36 E-value=1.1e+02 Score=25.23 Aligned_cols=40 Identities=30% Similarity=0.362 Sum_probs=28.1
Q ss_pred CcHHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhhhhh
Q 042094 1 MTIKELEERVEQLSHQFNEKVEVLSQQSNDLQELILSLHD 40 (485)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 (485)
++++.|++.++.|..-++|.++......++..+....++.
T Consensus 21 ~~~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er~~kl~~ 60 (135)
T PRK10947 21 CTLETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQQ 60 (135)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999988876655555554444443333
No 123
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=30.53 E-value=2e+02 Score=28.62 Aligned_cols=97 Identities=15% Similarity=0.169 Sum_probs=53.7
Q ss_pred EEEEEcCCCCccccCHHHHhhcCCcccc-------ccceEEEEccCCeeeecceEeeeEEeec-ceEEEEE--EEEc---
Q 042094 342 VTILIDSSSTHIFLNSSLAKQYGCPVTT-------TTQFQVTVADGGVISSSGKCSHVPVNSQ-GFQFHLD--FFLL--- 408 (485)
Q Consensus 342 v~aLiDsGSt~sfIs~~~~~~l~l~~~~-------~~~~~v~~a~G~~~~~~~~~~~v~v~i~-~~~~~~~--~~V~--- 408 (485)
..++||||++.++.-..+++.+.-.... .....+....+.... .....+.+.++ |..+.+. -+++
T Consensus 269 ~~~iiDSGTs~t~lp~~~y~~i~~~~~~~~~~~~~~~~~~~~C~~~~~~~--~~~P~i~~~f~~g~~~~l~~~~y~~~~~ 346 (398)
T KOG1339|consen 269 GGAIIDSGTSLTYLPTSAYNALREAIGAEVSVVGTDGEYFVPCFSISTSG--VKLPDITFHFGGGAVFSLPPKNYLVEVS 346 (398)
T ss_pred CCEEEECCcceeeccHHHHHHHHHHHHhheeccccCCceeeecccCCCCc--ccCCcEEEEECCCcEEEeCccceEEEEC
Confidence 5689999999999999887665332211 111111222221100 01234555555 4443321 1111
Q ss_pred ----------CCCC--CCeeechhHHhhcCCeEEEcc-CcEEEEEE
Q 042094 409 ----------PVSG--CDIVLGAEWLRSLGAILWDFS-KLTMQFTW 441 (485)
Q Consensus 409 ----------~~~~--~dvILG~dwL~~~~~i~id~~-~~~~~~~~ 441 (485)
.... ...|||--+++.+-. ..|.. +.++-|..
T Consensus 347 ~~~~~Cl~~~~~~~~~~~~ilG~~~~~~~~~-~~D~~~~~riGfa~ 391 (398)
T KOG1339|consen 347 DGGGVCLAFFNGMDSGPLWILGDVFQQNYLV-VFDLGENSRVGFAP 391 (398)
T ss_pred CCCCceeeEEecCCCCceEEEchHHhCCEEE-EEeCCCCCEEEecc
Confidence 1111 368999999999985 78887 77777764
No 124
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=30.52 E-value=1.2e+02 Score=22.10 Aligned_cols=19 Identities=32% Similarity=0.538 Sum_probs=8.5
Q ss_pred HHHHHHHHHHhhhhhhhhH
Q 042094 3 IKELEERVEQLSHQFNEKV 21 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~ 21 (485)
|+.|+.....+++++.+..
T Consensus 35 IKKLr~~~~e~e~~~~~l~ 53 (74)
T PF12329_consen 35 IKKLRAKIKELEKQIKELK 53 (74)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444433
No 125
>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=29.66 E-value=55 Score=30.62 Aligned_cols=47 Identities=19% Similarity=0.258 Sum_probs=30.2
Q ss_pred EEEEEEC--CeEEEEEEcCCCCccccCHH-HHhhcCCccccccceEEEEccCCeee
Q 042094 332 RLKGNLK--KHGVTILIDSSSTHIFLNSS-LAKQYGCPVTTTTQFQVTVADGGVIS 384 (485)
Q Consensus 332 ~~~~~i~--~~~v~aLiDsGSt~sfIs~~-~~~~l~l~~~~~~~~~v~~a~G~~~~ 384 (485)
.+++.|+ .+.+.++|||||+...|..+ .+. .-...+.+..++|+.+.
T Consensus 4 ~~~i~iGtP~q~~~v~~DTGS~~~Wv~c~~~c~------~c~c~~~i~Ygd~~~~~ 53 (273)
T cd05475 4 YVTINIGNPPKPYFLDIDTGSDLTWLQCDAPCT------GCQCDYEIEYADGGSSM 53 (273)
T ss_pred EEEEEcCCCCeeEEEEEccCCCceEEeCCCCCC------CCcCccEeEeCCCCceE
Confidence 4556665 67889999999999998421 110 01235777887666543
No 126
>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=29.20 E-value=58 Score=31.36 Aligned_cols=89 Identities=19% Similarity=0.220 Sum_probs=49.9
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHh-------hcCC-ccc-------cccceEEEEccCCeeeecceEeee
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAK-------QYGC-PVT-------TTTQFQVTVADGGVISSSGKCSHV 392 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~-------~l~l-~~~-------~~~~~~v~~a~G~~~~~~~~~~~v 392 (485)
...+.+.|+ .+.+.++|||||+...|...-|. ..+. ... ...++.+..++|+ + .|....=
T Consensus 6 ~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G~-~--~G~~~~D 82 (325)
T cd05490 6 QYYGEIGIGTPPQTFTVVFDTGSSNLWVPSVHCSLLDIACWLHHKYNSSKSSTYVKNGTEFAIQYGSGS-L--SGYLSQD 82 (325)
T ss_pred EEEEEEEECCCCcEEEEEEeCCCccEEEEcCCCCCCCccccCcCcCCcccCcceeeCCcEEEEEECCcE-E--EEEEeee
Confidence 355677776 47899999999999988532221 1111 000 1125667777875 2 3443333
Q ss_pred EEeecceEEE-EEEEEcC-C-------CCCCeeechhH
Q 042094 393 PVNSQGFQFH-LDFFLLP-V-------SGCDIVLGAEW 421 (485)
Q Consensus 393 ~v~i~~~~~~-~~~~V~~-~-------~~~dvILG~dw 421 (485)
.|.+++.... ..|-+.. . ...|=|||+-|
T Consensus 83 ~v~~g~~~~~~~~Fg~~~~~~~~~~~~~~~dGilGLg~ 120 (325)
T cd05490 83 TVSIGGLQVEGQLFGEAVKQPGITFIAAKFDGILGMAY 120 (325)
T ss_pred EEEECCEEEcCEEEEEEeeccCCcccceeeeEEEecCC
Confidence 5777776433 2333321 1 13577888754
No 127
>PF11880 DUF3400: Domain of unknown function (DUF3400); InterPro: IPR021817 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 50 amino acids in length. This domain is found associated with PF02754 from PFAM, PF02913 from PFAM, PF01565 from PFAM.
Probab=28.97 E-value=7.3 Score=24.79 Aligned_cols=23 Identities=17% Similarity=0.626 Sum_probs=18.3
Q ss_pred EEEEEEEcCCCCCCeeechhHHhhc
Q 042094 401 FHLDFFLLPVSGCDIVLGAEWLRSL 425 (485)
Q Consensus 401 ~~~~~~V~~~~~~dvILG~dwL~~~ 425 (485)
...+++|+++. .-+||-+|+..+
T Consensus 9 ~~aDYIVVEmA--~~lLGe~W~~~~ 31 (45)
T PF11880_consen 9 LEADYIVVEMA--RHLLGENWQQDY 31 (45)
T ss_pred CccceehHHHH--HHHhhhhHHHHH
Confidence 45678888876 568999999876
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=28.89 E-value=62 Score=31.18 Aligned_cols=28 Identities=11% Similarity=0.185 Sum_probs=21.8
Q ss_pred EEEEEEEC--CeEEEEEEcCCCCccccCHH
Q 042094 331 MRLKGNLK--KHGVTILIDSSSTHIFLNSS 358 (485)
Q Consensus 331 ~~~~~~i~--~~~v~aLiDsGSt~sfIs~~ 358 (485)
..+.+.|+ .+.+.++|||||+...|...
T Consensus 4 Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~ 33 (326)
T cd06096 4 YFIDIFIGNPPQKQSLILDTGSSSLSFPCS 33 (326)
T ss_pred EEEEEEecCCCeEEEEEEeCCCCceEEecC
Confidence 35666776 58899999999999887544
No 129
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=27.79 E-value=70 Score=27.31 Aligned_cols=23 Identities=9% Similarity=0.319 Sum_probs=16.7
Q ss_pred EEEEECC--eEEEEEEcCCCCcccc
Q 042094 333 LKGNLKK--HGVTILIDSSSTHIFL 355 (485)
Q Consensus 333 ~~~~i~~--~~v~aLiDsGSt~sfI 355 (485)
+.+.|+. +.+.++|||||..+.+
T Consensus 3 ~~~~iGtP~~~~~lvvDtgs~l~W~ 27 (164)
T PF14543_consen 3 VSVSIGTPPQPFSLVVDTGSDLTWV 27 (164)
T ss_dssp EEEECTCTTEEEEEEEETT-SSEEE
T ss_pred EEEEeCCCCceEEEEEECCCCceEE
Confidence 4455544 6789999999988886
No 130
>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=27.64 E-value=64 Score=31.18 Aligned_cols=89 Identities=17% Similarity=0.207 Sum_probs=50.8
Q ss_pred eEEEEEEEC--CeEEEEEEcCCCCccccCHHHHh-------hcCC--c----cc--cccceEEEEccCCeeeecceEeee
Q 042094 330 TMRLKGNLK--KHGVTILIDSSSTHIFLNSSLAK-------QYGC--P----VT--TTTQFQVTVADGGVISSSGKCSHV 392 (485)
Q Consensus 330 ~~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~-------~l~l--~----~~--~~~~~~v~~a~G~~~~~~~~~~~v 392 (485)
...+.+.|+ .+.+.++|||||+...|...-+. ..+. + +. ...++.+..++|+ + .|....=
T Consensus 11 ~Y~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~Sst~~~~~~~~~i~Y~~g~-~--~G~~~~D 87 (329)
T cd05485 11 QYYGVITIGTPPQSFKVVFDTGSSNLWVPSKKCSWTNIACLLHNKYDSTKSSTYKKNGTEFAIQYGSGS-L--SGFLSTD 87 (329)
T ss_pred eEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCCCCccccCCCeECCcCCCCeEECCeEEEEEECCce-E--EEEEecC
Confidence 456778887 58899999999999988754222 0111 0 00 1124566777775 2 3443333
Q ss_pred EEeecceEEE-EEEEEcCC--------CCCCeeechhH
Q 042094 393 PVNSQGFQFH-LDFFLLPV--------SGCDIVLGAEW 421 (485)
Q Consensus 393 ~v~i~~~~~~-~~~~V~~~--------~~~dvILG~dw 421 (485)
.|.+++.... ..|.++.. ...|=|||+-+
T Consensus 88 ~v~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~ 125 (329)
T cd05485 88 TVSVGGVSVKGQTFAEAINEPGLTFVAAKFDGILGMGY 125 (329)
T ss_pred cEEECCEEECCEEEEEEEecCCccccccccceEEEcCC
Confidence 5677776532 33433311 13577888764
No 131
>PF14244 UBN2_3: gag-polypeptide of LTR copia-type
Probab=26.49 E-value=1.6e+02 Score=24.71 Aligned_cols=27 Identities=22% Similarity=0.103 Sum_probs=23.0
Q ss_pred ccCCCCccCCChhhHHHHHHHHhHHhc
Q 042094 79 RLDFLVLSGENPTSLIFRCEQYQRLAA 105 (485)
Q Consensus 79 ~~~~p~F~G~~~~~wl~~~e~~~~~~~ 105 (485)
.+.+++++|++...|-..++.++...+
T Consensus 7 ~i~~~kL~g~NY~~W~~~~~~~L~~~~ 33 (152)
T PF14244_consen 7 PITSIKLNGSNYLSWSQQMEMALRGKG 33 (152)
T ss_pred cccccCCCCccHHHHHHHHHHHHHhCC
Confidence 355679999999999999999998765
No 132
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=26.43 E-value=1.8e+02 Score=21.25 Aligned_cols=21 Identities=24% Similarity=0.455 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhhhhhhhhHHH
Q 042094 3 IKELEERVEQLSHQFNEKVEV 23 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~ 23 (485)
|+++.+.++.|+++++...+.
T Consensus 13 Ik~vd~KVdaLq~~V~~l~~~ 33 (75)
T PF05531_consen 13 IKAVDDKVDALQTQVDDLESN 33 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 788889999998888755543
No 133
>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=25.87 E-value=68 Score=31.50 Aligned_cols=88 Identities=14% Similarity=0.149 Sum_probs=47.9
Q ss_pred EEEEEEEC--CeEEEEEEcCCCCccccCHHHHhh-cCC------cc--ccccceEEEEccCCeeeecceEeeeEEeecce
Q 042094 331 MRLKGNLK--KHGVTILIDSSSTHIFLNSSLAKQ-YGC------PV--TTTTQFQVTVADGGVISSSGKCSHVPVNSQGF 399 (485)
Q Consensus 331 ~~~~~~i~--~~~v~aLiDsGSt~sfIs~~~~~~-l~l------~~--~~~~~~~v~~a~G~~~~~~~~~~~v~v~i~~~ 399 (485)
..+.+.|+ .+.+.++|||||+...|...-+.. ... .+ .....+.+..++|+. .|....=.|.+++.
T Consensus 4 Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~~~~~~~~f~~~~SsT~~~~~~~~~i~Yg~Gs~---~G~~~~D~v~ig~~ 80 (364)
T cd05473 4 YYIEMLIGTPPQKLNILVDTGSSNFAVAAAPHPFIHTYFHRELSSTYRDLGKGVTVPYTQGSW---EGELGTDLVSIPKG 80 (364)
T ss_pred eEEEEEecCCCceEEEEEecCCcceEEEcCCCccccccCCchhCcCcccCCceEEEEECcceE---EEEEEEEEEEECCC
Confidence 45666775 578999999999998875432111 110 00 012356778888852 34443335666532
Q ss_pred ---EEEEEEEEcC--------CCCCCeeechhH
Q 042094 400 ---QFHLDFFLLP--------VSGCDIVLGAEW 421 (485)
Q Consensus 400 ---~~~~~~~V~~--------~~~~dvILG~dw 421 (485)
.+...+.++. ....|=|||+-|
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~ 113 (364)
T cd05473 81 PNVTFRANIAAITESENFFLNGSNWEGILGLAY 113 (364)
T ss_pred CccceEEeeEEEeccccceecccccceeeeecc
Confidence 2322222211 113577888875
No 134
>smart00338 BRLZ basic region leucin zipper.
Probab=25.61 E-value=1.7e+02 Score=20.34 Aligned_cols=33 Identities=30% Similarity=0.430 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHH
Q 042094 3 IKELEERVEQLSHQFNEKVEVLSQQSNDLQELI 35 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 35 (485)
|..|+..+..|+.+..+.......+..++..+.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666677766666655555455554444433
No 135
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=25.19 E-value=38 Score=22.99 Aligned_cols=22 Identities=23% Similarity=0.764 Sum_probs=14.4
Q ss_pred hhhCCceeecCCCCCCC----CcCCC
Q 042094 267 RRAKGLCFNCDEQFKPG----HRCKA 288 (485)
Q Consensus 267 ~~~~~~Cf~Cg~~GH~a----~~C~~ 288 (485)
|..-..||.||-+---. +.||-
T Consensus 24 R~~~~YC~~Cg~~Y~d~~dL~~~CPG 49 (55)
T PF13821_consen 24 REEHNYCFWCGTKYDDEEDLERNCPG 49 (55)
T ss_pred HhhCceeeeeCCccCCHHHHHhCCCC
Confidence 45567899999764433 55653
No 136
>PF12124 Nsp3_PL2pro: Coronavirus polyprotein cleavage domain; InterPro: IPR022733 This domain is found in SARS coronaviruses, and is about 70 amino acids in length. It is found associated with various other coronavirus proteins due to the polyprotein nature of most viral translation. PL2pro is a domain of the non-structural protein nsp3. The domain performs three of the cleavages required to separate the translated polyprotein into its distinct proteins. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity, 0016788 hydrolase activity, acting on ester bonds, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2KAF_A 2KQW_A.
Probab=23.48 E-value=40 Score=22.24 Aligned_cols=28 Identities=25% Similarity=0.522 Sum_probs=11.2
Q ss_pred echhHHhhcCCeEEEccCcEEEEEECCe
Q 042094 417 LGAEWLRSLGAILWDFSKLTMQFTWKGQ 444 (485)
Q Consensus 417 LG~dwL~~~~~i~id~~~~~~~~~~~~~ 444 (485)
||..||.+-..|...-....+.|...|+
T Consensus 27 lgveflkrgdkivyht~~~~iefh~~ge 54 (66)
T PF12124_consen 27 LGVEFLKRGDKIVYHTVENPIEFHMDGE 54 (66)
T ss_dssp TEEEEEEETTEEEEE-SSSS--EEETTE
T ss_pred hhhHHHhcCCEEEEEecCCceEEEecCc
Confidence 4444444444333333344455554443
No 137
>PF15205 PLAC9: Placenta-specific protein 9
Probab=23.20 E-value=2.2e+02 Score=20.12 Aligned_cols=34 Identities=18% Similarity=0.304 Sum_probs=21.8
Q ss_pred HHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhh
Q 042094 4 KELEERVEQLSHQFNEKVEVLSQQSNDLQELILS 37 (485)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (485)
-++..|+|-+|+.++...+-++..-+-+-.+..+
T Consensus 21 mav~~RLdviEe~veKTVEhLeaEvk~LLg~lee 54 (74)
T PF15205_consen 21 MAVHSRLDVIEETVEKTVEHLEAEVKGLLGLLEE 54 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678889999888877666555544444443333
No 138
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=23.06 E-value=38 Score=23.40 Aligned_cols=9 Identities=33% Similarity=0.933 Sum_probs=7.3
Q ss_pred CceeecCCC
Q 042094 271 GLCFNCDEQ 279 (485)
Q Consensus 271 ~~Cf~Cg~~ 279 (485)
..||.||+.
T Consensus 5 iRCFsCGkv 13 (63)
T COG1644 5 VRCFSCGKV 13 (63)
T ss_pred eEeecCCCC
Confidence 469999985
No 139
>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=22.91 E-value=78 Score=29.40 Aligned_cols=88 Identities=23% Similarity=0.346 Sum_probs=48.5
Q ss_pred EEEEECC--eEEEEEEcCCCCccccCHHHHhhcCCc---------------cccccceEEEEccCCeeeecceEeeeEEe
Q 042094 333 LKGNLKK--HGVTILIDSSSTHIFLNSSLAKQYGCP---------------VTTTTQFQVTVADGGVISSSGKCSHVPVN 395 (485)
Q Consensus 333 ~~~~i~~--~~v~aLiDsGSt~sfIs~~~~~~l~l~---------------~~~~~~~~v~~a~G~~~~~~~~~~~v~v~ 395 (485)
+.+.|+. +.+.++|||||+...|...-+..-... ........+..++|.. .+....=.|.
T Consensus 3 ~~i~iGtp~q~~~l~~DTGS~~~wv~~~~c~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~Y~~g~~---~g~~~~D~v~ 79 (283)
T cd05471 3 GEITIGTPPQKFSVIFDTGSSLLWVPSSNCTSCSCQKHPRFKYDSSKSSTYKDTGCTFSITYGDGSV---TGGLGTDTVT 79 (283)
T ss_pred EEEEECCCCcEEEEEEeCCCCCEEEecCCCCccccccCCCCccCccCCceeecCCCEEEEEECCCeE---EEEEEEeEEE
Confidence 3455543 588999999999998866544332110 0122356666666542 2333333567
Q ss_pred ecceEE-EEEEEEcCC-------CCCCeeechhHHh
Q 042094 396 SQGFQF-HLDFFLLPV-------SGCDIVLGAEWLR 423 (485)
Q Consensus 396 i~~~~~-~~~~~V~~~-------~~~dvILG~dwL~ 423 (485)
+++... ...|.++.. ...|=|||+-.-.
T Consensus 80 ~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~~ 115 (283)
T cd05471 80 IGGLTIPNQTFGCATSESGDFSSSGFDGILGLGFPS 115 (283)
T ss_pred ECCEEEeceEEEEEeccCCcccccccceEeecCCcc
Confidence 776542 233333331 3477788865433
No 140
>PHA03125 dUTPase; Provisional
Probab=21.98 E-value=1.3e+02 Score=29.05 Aligned_cols=75 Identities=9% Similarity=0.053 Sum_probs=51.2
Q ss_pred EEEcCCCCCCeeechhHHhhcCCeEEE---ccCcEE---EEEE-CCeEEEEeecCCCCcc-ccchHHHHhhhccCceeEE
Q 042094 405 FFLLPVSGCDIVLGAEWLRSLGAILWD---FSKLTM---QFTW-KGQTVQLTGYDSLPPA-LANHGEINQLLLQEKQGIF 476 (485)
Q Consensus 405 ~~V~~~~~~dvILG~dwL~~~~~i~id---~~~~~~---~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 476 (485)
.++.|.....+|+|+.=|...|- .|| |..+++ +|-+ .++.+.++.-...+.+ .+...=.-.+++...++.+
T Consensus 279 a~~CPp~~~aLI~GrsgLA~kGL-lV~PtiW~~~tlp~lki~N~T~~Tv~i~AgsrIAQVVFth~~F~~~l~~~~~~~ql 357 (376)
T PHA03125 279 MYVCADELKALMIPSKEILKLGL-LIETYIWNKDTIPSIKIFNSTRKTIYIPTGICIARIIFTCGHFCLSLMPERAINRL 357 (376)
T ss_pred EeeCCCcceeEEEcCchhhhCCc-EEeeeEeCCCCcceEEEEecCCceEEecCCCEEEEEEEEeCcEEEEecCCcccceE
Confidence 45666666899999999999995 577 888855 4433 6777888776665555 4444444555666666666
Q ss_pred EEee
Q 042094 477 FQIM 480 (485)
Q Consensus 477 ~~~~ 480 (485)
+-|.
T Consensus 358 ~~~~ 361 (376)
T PHA03125 358 QVLD 361 (376)
T ss_pred EEee
Confidence 5554
No 141
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=20.73 E-value=2e+02 Score=23.45 Aligned_cols=34 Identities=21% Similarity=0.455 Sum_probs=17.4
Q ss_pred HHHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhh
Q 042094 4 KELEERVEQLSHQFNEKVEVLSQQSNDLQELILS 37 (485)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (485)
+.|.+|++.+...+.+..++..+..++..++...
T Consensus 64 khLsqRId~vd~klDe~~ei~~~i~~eV~~v~~d 97 (126)
T PF07889_consen 64 KHLSQRIDRVDDKLDEQKEISKQIKDEVTEVRED 97 (126)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 3455555555555555555544444444444433
No 142
>PRK00846 hypothetical protein; Provisional
Probab=20.54 E-value=1.8e+02 Score=21.29 Aligned_cols=19 Identities=21% Similarity=0.371 Sum_probs=12.6
Q ss_pred HHHHHHHHHhhhhhhhhHH
Q 042094 4 KELEERVEQLSHQFNEKVE 22 (485)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~ 22 (485)
.+|++|++.||-.+.=...
T Consensus 9 ~~le~Ri~~LE~rlAfQe~ 27 (77)
T PRK00846 9 QALEARLVELETRLSFQEQ 27 (77)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 3577888888877764433
No 143
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=20.35 E-value=1.4e+02 Score=21.19 Aligned_cols=33 Identities=21% Similarity=0.296 Sum_probs=18.0
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHhhhhHHHHHhh
Q 042094 5 ELEERVEQLSHQFNEKVEVLSQQSNDLQELILS 37 (485)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (485)
.|++++..||..+.=......++-+.+-+....
T Consensus 1 ~le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~ 33 (69)
T PF04102_consen 1 MLEERIEELEIKLAFQEDTIEELNDVVTEQQRQ 33 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367778888777764444434444433333333
No 144
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=20.35 E-value=41 Score=23.00 Aligned_cols=9 Identities=33% Similarity=0.874 Sum_probs=7.1
Q ss_pred CceeecCCC
Q 042094 271 GLCFNCDEQ 279 (485)
Q Consensus 271 ~~Cf~Cg~~ 279 (485)
..||-||+.
T Consensus 5 iRCFtCGKv 13 (69)
T KOG3497|consen 5 IRCFTCGKV 13 (69)
T ss_pred eEeeecccc
Confidence 459999974
No 145
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=20.34 E-value=2.4e+02 Score=21.12 Aligned_cols=17 Identities=18% Similarity=0.501 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhhhhhhh
Q 042094 3 IKELEERVEQLSHQFNE 19 (485)
Q Consensus 3 ~~~~~~~~~~~~~~~~~ 19 (485)
|+.+++.++.+++++..
T Consensus 28 l~~~~~ti~~l~~~~~~ 44 (90)
T PF06103_consen 28 LDEVNKTIDTLQEQVDP 44 (90)
T ss_pred HHHHHHHHHHHHHhHHH
Confidence 44444445555554443
No 146
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=20.28 E-value=48 Score=32.16 Aligned_cols=21 Identities=14% Similarity=0.311 Sum_probs=16.7
Q ss_pred hCCceeecCCCCCCC--CcCCCc
Q 042094 269 AKGLCFNCDEQFKPG--HRCKAP 289 (485)
Q Consensus 269 ~~~~Cf~Cg~~GH~a--~~C~~~ 289 (485)
++..|.+|++-||+. ++||-.
T Consensus 123 RNVrC~kChkwGH~n~DreCplf 145 (453)
T KOG3794|consen 123 RNVRCLKCHKWGHINTDRECPLF 145 (453)
T ss_pred eeeeEEeecccccccCCccCcch
Confidence 456799999999985 588743
Done!