Query psy3212
Match_columns 177
No_of_seqs 178 out of 1336
Neff 9.3
Searched_HMMs 46136
Date Fri Aug 16 19:12:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3212.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3212hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd05478 pepsin_A Pepsin A, asp 100.0 5.1E-39 1.1E-43 254.7 19.0 175 1-177 3-270 (317)
2 cd05490 Cathepsin_D2 Cathepsin 100.0 4.3E-39 9.3E-44 255.9 18.6 175 3-177 1-270 (325)
3 cd05487 renin_like Renin stimu 100.0 7.3E-39 1.6E-43 254.7 19.0 176 1-177 1-270 (326)
4 cd05488 Proteinase_A_fungi Fun 100.0 8.4E-39 1.8E-43 253.7 18.7 175 1-177 3-269 (320)
5 cd05485 Cathepsin_D_like Cathe 100.0 3.5E-38 7.6E-43 251.1 19.5 177 1-177 4-274 (329)
6 cd05486 Cathespin_E Cathepsin 100.0 9.3E-38 2E-42 247.4 17.2 166 9-177 1-261 (316)
7 cd06098 phytepsin Phytepsin, a 100.0 2.8E-37 6E-42 244.8 17.5 164 1-177 3-262 (317)
8 cd05477 gastricsin Gastricsins 100.0 5.2E-37 1.1E-41 243.3 19.0 170 6-177 1-265 (318)
9 PTZ00165 aspartyl protease; Pr 100.0 3.2E-37 6.9E-42 254.9 17.2 167 1-177 113-388 (482)
10 PTZ00147 plasmepsin-1; Provisi 100.0 1.5E-36 3.2E-41 249.3 18.9 172 1-177 132-396 (453)
11 PTZ00013 plasmepsin 4 (PM4); P 100.0 4.5E-36 9.8E-41 246.1 19.1 172 1-177 131-395 (450)
12 cd06097 Aspergillopepsin_like 100.0 2.9E-33 6.4E-38 218.0 15.5 156 9-166 1-251 (278)
13 PF00026 Asp: Eukaryotic aspar 100.0 3.3E-33 7.2E-38 220.6 14.1 168 8-177 1-262 (317)
14 KOG1339|consensus 100.0 1.6E-31 3.6E-36 217.6 19.1 177 1-177 39-340 (398)
15 cd05472 cnd41_like Chloroplast 100.0 4.7E-32 1E-36 213.2 15.0 168 8-177 1-246 (299)
16 cd05474 SAP_like SAPs, pepsin- 100.0 3.9E-31 8.4E-36 207.4 16.4 169 8-177 2-242 (295)
17 cd05473 beta_secretase_like Be 100.0 1E-30 2.3E-35 210.7 17.2 170 7-176 2-292 (364)
18 cd06096 Plasmepsin_5 Plasmepsi 100.0 3E-29 6.6E-34 199.5 14.7 91 67-177 171-276 (326)
19 cd05471 pepsin_like Pepsin-lik 100.0 2.6E-28 5.7E-33 189.6 18.3 158 9-166 1-256 (283)
20 PLN03146 aspartyl protease fam 100.0 2.4E-27 5.3E-32 194.6 16.6 110 66-177 249-379 (431)
21 cd05476 pepsin_A_like_plant Ch 100.0 1.7E-27 3.6E-32 184.5 13.4 140 8-177 1-214 (265)
22 cd05475 nucellin_like Nucellin 100.0 4E-27 8.6E-32 183.1 14.9 140 8-177 2-219 (273)
23 cd05489 xylanase_inhibitor_I_l 99.9 1.3E-22 2.8E-27 163.4 14.6 112 66-177 161-310 (362)
24 cd05470 pepsin_retropepsin_lik 99.2 1E-11 2.2E-16 83.5 4.7 31 11-41 1-31 (109)
25 PF14541 TAXi_C: Xylanase inhi 99.1 3.7E-10 8E-15 81.3 6.6 83 95-177 1-111 (161)
26 PF14543 TAXi_N: Xylanase inhi 98.8 3E-09 6.5E-14 76.8 3.9 29 9-37 1-29 (164)
27 cd05483 retropepsin_like_bacte 97.0 0.0011 2.5E-08 42.6 4.1 30 8-39 2-31 (96)
28 cd05484 retropepsin_like_LTR_2 95.7 0.014 3.1E-07 37.5 3.4 31 9-41 1-31 (91)
29 TIGR02281 clan_AA_DTGA clan AA 95.0 0.042 9.2E-07 37.5 4.1 34 3-38 6-39 (121)
30 PF13975 gag-asp_proteas: gag- 94.6 0.09 1.9E-06 32.4 4.4 36 4-41 4-39 (72)
31 TIGR02281 clan_AA_DTGA clan AA 94.5 0.14 3E-06 34.9 5.7 37 92-135 8-44 (121)
32 cd05484 retropepsin_like_LTR_2 94.5 0.22 4.7E-06 31.9 6.2 64 103-174 5-73 (91)
33 PF00077 RVP: Retroviral aspar 93.2 0.21 4.5E-06 32.4 4.5 30 10-41 7-36 (100)
34 PF13650 Asp_protease_2: Aspar 93.2 0.18 4E-06 31.7 4.1 29 103-135 3-31 (90)
35 cd05483 retropepsin_like_bacte 92.5 0.44 9.4E-06 30.2 5.2 30 103-136 7-36 (96)
36 cd05479 RP_DDI RP_DDI; retrope 92.4 0.27 5.9E-06 33.6 4.3 34 6-41 14-47 (124)
37 PF13975 gag-asp_proteas: gag- 92.4 0.35 7.6E-06 29.7 4.4 29 103-135 13-41 (72)
38 PF13650 Asp_protease_2: Aspar 91.6 0.25 5.4E-06 31.0 3.2 28 12-41 2-29 (90)
39 cd06095 RP_RTVL_H_like Retrope 89.7 0.73 1.6E-05 29.2 4.1 29 103-135 3-31 (86)
40 cd05479 RP_DDI RP_DDI; retrope 89.1 0.89 1.9E-05 31.0 4.4 29 103-135 21-49 (124)
41 cd06095 RP_RTVL_H_like Retrope 88.6 0.45 9.8E-06 30.2 2.5 28 12-41 2-29 (86)
42 PF12384 Peptidase_A2B: Ty3 tr 87.2 0.93 2E-05 32.6 3.5 30 10-39 34-63 (177)
43 cd05482 HIV_retropepsin_like R 87.0 1.2 2.5E-05 28.6 3.6 28 12-41 2-29 (87)
44 TIGR03698 clan_AA_DTGF clan AA 83.7 1.3 2.8E-05 29.5 2.8 23 113-135 16-39 (107)
45 PF09668 Asp_protease: Asparty 83.3 2.3 4.9E-05 29.2 3.9 30 102-135 28-57 (124)
46 COG3577 Predicted aspartyl pro 82.5 4.1 9E-05 30.4 5.2 36 93-135 103-138 (215)
47 PF00077 RVP: Retroviral aspar 81.4 1.8 4E-05 27.9 2.9 30 102-135 9-38 (100)
48 cd05481 retropepsin_like_LTR_1 80.0 2.8 6E-05 27.1 3.3 24 113-136 10-33 (93)
49 COG5550 Predicted aspartyl pro 79.9 1.8 3.8E-05 29.6 2.4 23 115-137 28-51 (125)
50 PF08284 RVP_2: Retroviral asp 77.8 19 0.00041 25.0 7.2 58 113-173 32-94 (135)
51 COG3577 Predicted aspartyl pro 74.2 5.4 0.00012 29.8 3.7 76 3-111 100-176 (215)
52 TIGR03698 clan_AA_DTGF clan AA 71.0 6.5 0.00014 26.0 3.4 26 11-36 2-32 (107)
53 PF08284 RVP_2: Retroviral asp 68.1 9.4 0.0002 26.5 3.8 30 7-38 20-49 (135)
54 PF12384 Peptidase_A2B: Ty3 tr 67.8 27 0.00058 25.3 5.9 59 112-174 44-108 (177)
55 PF09668 Asp_protease: Asparty 65.8 14 0.0003 25.4 4.1 67 7-91 23-89 (124)
56 PF02160 Peptidase_A3: Caulifl 64.6 8.7 0.00019 28.7 3.2 58 113-174 20-82 (201)
57 cd06094 RP_Saci_like RP_Saci_l 63.6 7.1 0.00015 25.1 2.2 22 20-41 8-29 (89)
58 cd05475 nucellin_like Nucellin 55.4 17 0.00036 28.1 3.5 30 11-40 164-196 (273)
59 PF05585 DUF1758: Putative pep 54.1 8.6 0.00019 27.4 1.6 23 113-135 12-34 (164)
60 cd00303 retropepsin_like Retro 53.7 15 0.00033 21.5 2.5 23 12-36 2-24 (92)
61 cd05480 NRIP_C NRIP_C; putativ 51.0 24 0.00053 23.3 3.2 28 104-135 4-31 (103)
62 cd06098 phytepsin Phytepsin, a 47.2 18 0.00038 28.7 2.5 26 13-38 197-227 (317)
63 cd06096 Plasmepsin_5 Plasmepsi 43.4 20 0.00043 28.5 2.3 29 12-40 216-250 (326)
64 PRK15016 isochorismate synthas 42.4 65 0.0014 26.7 5.1 56 76-137 322-379 (391)
65 cd06097 Aspergillopepsin_like 42.1 24 0.00052 27.2 2.5 30 12-41 185-218 (278)
66 PRK06923 isochorismate synthas 42.1 66 0.0014 26.8 5.2 54 76-135 323-378 (399)
67 cd05472 cnd41_like Chloroplast 41.1 22 0.00047 27.8 2.2 17 23-39 173-189 (299)
68 PTZ00147 plasmepsin-1; Provisi 40.8 58 0.0013 27.5 4.8 34 93-131 137-170 (453)
69 PF03419 Peptidase_U4: Sporula 38.8 45 0.00099 26.2 3.7 28 5-32 154-181 (293)
70 TIGR02854 spore_II_GA sigma-E 36.9 48 0.001 26.1 3.5 29 4-32 154-182 (288)
71 PTZ00165 aspartyl protease; Pr 36.3 68 0.0015 27.4 4.5 36 93-133 118-153 (482)
72 PF13752 DUF4165: Domain of un 36.3 1.2E+02 0.0025 20.9 4.8 41 81-121 81-122 (124)
73 PF00026 Asp: Eukaryotic aspar 31.1 46 0.001 25.8 2.6 31 10-40 184-218 (317)
74 PTZ00013 plasmepsin 4 (PM4); P 29.7 58 0.0013 27.5 3.1 19 20-38 330-348 (450)
75 PF11925 DUF3443: Protein of u 28.5 1.8E+02 0.0039 24.0 5.4 57 65-130 213-272 (370)
76 TIGR00543 isochor_syn isochori 25.6 1.8E+02 0.004 23.7 5.2 56 77-138 286-343 (351)
77 TIGR01624 LRP1_Cterm LRP1 C-te 24.4 1.5E+02 0.0031 16.8 3.2 22 6-29 27-49 (50)
78 PRK09256 hypothetical protein; 23.6 1.6E+02 0.0034 20.6 3.9 48 106-155 26-76 (138)
79 KOG1339|consensus 23.4 59 0.0013 26.7 2.0 21 113-133 59-79 (398)
80 PRK07054 salicylate biosynthes 21.1 2.5E+02 0.0053 24.0 5.2 57 77-139 390-448 (475)
81 PF13854 Kelch_5: Kelch motif 20.7 1.5E+02 0.0032 15.5 2.8 22 69-90 16-39 (42)
No 1
>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=100.00 E-value=5.1e-39 Score=254.66 Aligned_cols=175 Identities=43% Similarity=0.837 Sum_probs=151.0
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|+|+.|.+|+++|+||||||++.|++||||+++||+|..|. ...|..+.
T Consensus 3 l~n~~~~~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~~C~--~~~c~~~~~f~~~~Sst~~~~~~~~~~~yg~gs~~G~ 80 (317)
T cd05478 3 LTNYLDMEYYGTISIGTPPQDFTVIFDTGSSNLWVPSVYCS--SQACSNHNRFNPRQSSTYQSTGQPLSIQYGTGSMTGI 80 (317)
T ss_pred cccccCCEEEEEEEeCCCCcEEEEEEeCCCccEEEecCCCC--cccccccCcCCCCCCcceeeCCcEEEEEECCceEEEE
Confidence 78999999999999999999999999999999999999997 34564433
Q ss_pred ---C----------------------------cCCC----------------------------cccc---ccCCCCCCc
Q psy3212 52 ---D----------------------------KFVG----------------------------HSHF---RNASDENGG 69 (177)
Q Consensus 52 ---D----------------------------~fdG----------------------------~~~F---~~~~~~~~G 69 (177)
| ++|| +++| +.......|
T Consensus 81 ~~~D~v~ig~~~i~~~~fg~~~~~~~~~~~~~~~dGilGLg~~~~s~~~~~~~~~~L~~~g~i~~~~FS~~L~~~~~~~g 160 (317)
T cd05478 81 LGYDTVQVGGISDTNQIFGLSETEPGSFFYYAPFDGILGLAYPSIASSGATPVFDNMMSQGLVSQDLFSVYLSSNGQQGS 160 (317)
T ss_pred EeeeEEEECCEEECCEEEEEEEecCccccccccccceeeeccchhcccCCCCHHHHHHhCCCCCCCEEEEEeCCCCCCCe
Confidence 1 1344 2444 222333579
Q ss_pred EEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCC
Q psy3212 70 EIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANG 147 (177)
Q Consensus 70 ~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g 147 (177)
.|+|||+|+++|.|++.|+|+....+|.|.+++++|+++.+. .+..+++||||+++++|++.+++|++++++.....+
T Consensus 161 ~l~~Gg~d~~~~~g~l~~~p~~~~~~w~v~l~~v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~~~~~~~~~~~ 240 (317)
T cd05478 161 VVTFGGIDPSYYTGSLNWVPVTAETYWQITVDSVTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQSDIGASQNQNG 240 (317)
T ss_pred EEEEcccCHHHccCceEEEECCCCcEEEEEeeEEEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHHHhCCccccCC
Confidence 999999999999999999999988999999999999999876 567899999999999999999999999988755678
Q ss_pred CEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 148 PAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 148 ~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
.|.++|+....+|.|+|+|+|++++|||++
T Consensus 241 ~~~~~C~~~~~~P~~~f~f~g~~~~i~~~~ 270 (317)
T cd05478 241 EMVVNCSSISSMPDVVFTINGVQYPLPPSA 270 (317)
T ss_pred cEEeCCcCcccCCcEEEEECCEEEEECHHH
Confidence 899999987789999999999999999864
No 2
>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=100.00 E-value=4.3e-39 Score=255.86 Aligned_cols=175 Identities=47% Similarity=0.926 Sum_probs=147.5
Q ss_pred cccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-------------------------------
Q psy3212 3 SSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK------------------------------- 51 (177)
Q Consensus 3 ~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~------------------------------- 51 (177)
|+.|.+|+++|+||||||++.|++||||+++||+|..|......|..+.
T Consensus 1 ~~~~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G~~~G~~~ 80 (325)
T cd05490 1 NYMDAQYYGEIGIGTPPQTFTVVFDTGSSNLWVPSVHCSLLDIACWLHHKYNSSKSSTYVKNGTEFAIQYGSGSLSGYLS 80 (325)
T ss_pred CCcCCEEEEEEEECCCCcEEEEEEeCCCccEEEEcCCCCCCCccccCcCcCCcccCcceeeCCcEEEEEECCcEEEEEEe
Confidence 7899999999999999999999999999999999999974334564433
Q ss_pred -C----------------------------cCCC----------------------------cccc---cc--CCCCCCc
Q psy3212 52 -D----------------------------KFVG----------------------------HSHF---RN--ASDENGG 69 (177)
Q Consensus 52 -D----------------------------~fdG----------------------------~~~F---~~--~~~~~~G 69 (177)
| .+|| +++| +. ......|
T Consensus 81 ~D~v~~g~~~~~~~~Fg~~~~~~~~~~~~~~~dGilGLg~~~~s~~~~~~~~~~l~~~g~i~~~~FS~~L~~~~~~~~~G 160 (325)
T cd05490 81 QDTVSIGGLQVEGQLFGEAVKQPGITFIAAKFDGILGMAYPRISVDGVTPVFDNIMAQKLVEQNVFSFYLNRDPDAQPGG 160 (325)
T ss_pred eeEEEECCEEEcCEEEEEEeeccCCcccceeeeEEEecCCccccccCCCCHHHHHHhcCCCCCCEEEEEEeCCCCCCCCC
Confidence 1 1233 2445 21 1123479
Q ss_pred EEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCC
Q psy3212 70 EIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANG 147 (177)
Q Consensus 70 ~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g 147 (177)
+|+|||+|+++|.|++.|+|+.+..+|.|++++|+|++.... ....+++||||+++++|++++++|.+++++.....+
T Consensus 161 ~l~~Gg~d~~~~~g~l~~~~~~~~~~w~v~l~~i~vg~~~~~~~~~~~aiiDSGTt~~~~p~~~~~~l~~~~~~~~~~~~ 240 (325)
T cd05490 161 ELMLGGTDPKYYTGDLHYVNVTRKAYWQIHMDQVDVGSGLTLCKGGCEAIVDTGTSLITGPVEEVRALQKAIGAVPLIQG 240 (325)
T ss_pred EEEECccCHHHcCCceEEEEcCcceEEEEEeeEEEECCeeeecCCCCEEEECCCCccccCCHHHHHHHHHHhCCccccCC
Confidence 999999999999999999999988999999999999987543 567899999999999999999999999987755578
Q ss_pred CEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 148 PAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 148 ~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
.|.++|+....+|+|+|+|+|++++|+|+|
T Consensus 241 ~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~ 270 (325)
T cd05490 241 EYMIDCEKIPTLPVISFSLGGKVYPLTGED 270 (325)
T ss_pred CEEecccccccCCCEEEEECCEEEEEChHH
Confidence 899999987789999999999999999874
No 3
>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=100.00 E-value=7.3e-39 Score=254.69 Aligned_cols=176 Identities=41% Similarity=0.824 Sum_probs=150.4
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.|..|+++|+||||+|+++|++||||+++||++..|......|..+.
T Consensus 1 ~~~~~~~~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~SsT~~~~~~~~~~~Yg~g~~~G~ 80 (326)
T cd05487 1 LTNYLDTQYYGEIGIGTPPQTFKVVFDTGSSNLWVPSSKCSPLYTACVTHNLYDASDSSTYKENGTEFTIHYASGTVKGF 80 (326)
T ss_pred CcccCCCeEEEEEEECCCCcEEEEEEeCCccceEEccCCCcCcchhhcccCcCCCCCCeeeeECCEEEEEEeCCceEEEE
Confidence 789999999999999999999999999999999999999874334565433
Q ss_pred ---C---------------------------cCCC----------------------------cccc---ccC--CCCCC
Q psy3212 52 ---D---------------------------KFVG----------------------------HSHF---RNA--SDENG 68 (177)
Q Consensus 52 ---D---------------------------~fdG----------------------------~~~F---~~~--~~~~~ 68 (177)
| .+|| +++| +.. .....
T Consensus 81 ~~~D~v~~g~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~~~~s~~~~~~~~~~L~~qg~i~~~~FS~~L~~~~~~~~~ 160 (326)
T cd05487 81 LSQDIVTVGGIPVTQMFGEVTALPAIPFMLAKFDGVLGMGYPKQAIGGVTPVFDNIMSQGVLKEDVFSVYYSRDSSHSLG 160 (326)
T ss_pred EeeeEEEECCEEeeEEEEEEEeccCCccceeecceEEecCChhhcccCCCCHHHHHHhcCCCCCCEEEEEEeCCCCCCCC
Confidence 1 1234 3445 221 12457
Q ss_pred cEEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCC
Q psy3212 69 GEIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLAN 146 (177)
Q Consensus 69 G~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~ 146 (177)
|.|+|||+|+++|.|++.|+|+.+..+|.|.+++++++++.+. .+..+++||||+++++|++++++|++++++... .
T Consensus 161 G~l~fGg~d~~~y~g~l~~~~~~~~~~w~v~l~~i~vg~~~~~~~~~~~aiiDSGts~~~lP~~~~~~l~~~~~~~~~-~ 239 (326)
T cd05487 161 GEIVLGGSDPQHYQGDFHYINTSKTGFWQIQMKGVSVGSSTLLCEDGCTAVVDTGASFISGPTSSISKLMEALGAKER-L 239 (326)
T ss_pred cEEEECCcChhhccCceEEEECCcCceEEEEecEEEECCEEEecCCCCEEEECCCccchhCcHHHHHHHHHHhCCccc-C
Confidence 9999999999999999999999988999999999999999775 567899999999999999999999999988743 6
Q ss_pred CCEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 147 GPAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 147 g~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
+.|.+||+....+|.|+|+|+|++++|++++
T Consensus 240 ~~y~~~C~~~~~~P~i~f~fgg~~~~v~~~~ 270 (326)
T cd05487 240 GDYVVKCNEVPTLPDISFHLGGKEYTLSSSD 270 (326)
T ss_pred CCEEEeccccCCCCCEEEEECCEEEEeCHHH
Confidence 7899999988889999999999999999864
No 4
>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=100.00 E-value=8.4e-39 Score=253.75 Aligned_cols=175 Identities=47% Similarity=0.812 Sum_probs=151.2
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.|.+|+++|+||||+|++.|++||||+++||+|..|. +..|..+.
T Consensus 3 l~n~~~~~Y~~~i~iGtp~q~~~v~~DTGSs~~wv~~~~C~--~~~C~~~~~y~~~~Sst~~~~~~~~~~~y~~g~~~G~ 80 (320)
T cd05488 3 LTNYLNAQYFTDITLGTPPQKFKVILDTGSSNLWVPSVKCG--SIACFLHSKYDSSASSTYKANGTEFKIQYGSGSLEGF 80 (320)
T ss_pred ccccCCCEEEEEEEECCCCcEEEEEEecCCcceEEEcCCCC--CcccCCcceECCCCCcceeeCCCEEEEEECCceEEEE
Confidence 68999999999999999999999999999999999999997 34564332
Q ss_pred ---C----------------------------cCCC----------------------------cccc---ccCCCCCCc
Q psy3212 52 ---D----------------------------KFVG----------------------------HSHF---RNASDENGG 69 (177)
Q Consensus 52 ---D----------------------------~fdG----------------------------~~~F---~~~~~~~~G 69 (177)
| .+|| +++| +.......|
T Consensus 81 ~~~D~v~ig~~~~~~~~f~~a~~~~g~~~~~~~~dGilGLg~~~~s~~~~~~~~~~l~~qg~i~~~~FS~~L~~~~~~~G 160 (320)
T cd05488 81 VSQDTLSIGDLTIKKQDFAEATSEPGLAFAFGKFDGILGLAYDTISVNKIVPPFYNMINQGLLDEPVFSFYLGSSEEDGG 160 (320)
T ss_pred EEEeEEEECCEEECCEEEEEEecCCCcceeeeeeceEEecCCccccccCCCCHHHHHHhcCCCCCCEEEEEecCCCCCCc
Confidence 1 1233 2345 222235689
Q ss_pred EEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCC
Q psy3212 70 EIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC-SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGP 148 (177)
Q Consensus 70 ~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~ 148 (177)
.|+|||+|++++.|++.|+|+....+|.|.++++++|++.+. .+..+++||||+++++|++++++|.+++++.....+.
T Consensus 161 ~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~l~~i~vg~~~~~~~~~~~ivDSGtt~~~lp~~~~~~l~~~~~~~~~~~~~ 240 (320)
T cd05488 161 EATFGGIDESRFTGKITWLPVRRKAYWEVELEKIGLGDEELELENTGAAIDTGTSLIALPSDLAEMLNAEIGAKKSWNGQ 240 (320)
T ss_pred EEEECCcCHHHcCCceEEEeCCcCcEEEEEeCeEEECCEEeccCCCeEEEcCCcccccCCHHHHHHHHHHhCCccccCCc
Confidence 999999999999999999999988899999999999998877 7788999999999999999999999999887556788
Q ss_pred EEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 149 AKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 149 ~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
|.+||+....+|+|+|+|+|++++|||++
T Consensus 241 ~~~~C~~~~~~P~i~f~f~g~~~~i~~~~ 269 (320)
T cd05488 241 YTVDCSKVDSLPDLTFNFDGYNFTLGPFD 269 (320)
T ss_pred EEeeccccccCCCEEEEECCEEEEECHHH
Confidence 99999987789999999999999999874
No 5
>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=100.00 E-value=3.5e-38 Score=251.07 Aligned_cols=177 Identities=51% Similarity=1.000 Sum_probs=150.1
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.|.+|+++|+||||+|++.|++||||+++||+|..|......|..+.
T Consensus 4 ~~n~~~~~Y~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~Sst~~~~~~~~~i~Y~~g~~~G~ 83 (329)
T cd05485 4 LSNYMDAQYYGVITIGTPPQSFKVVFDTGSSNLWVPSKKCSWTNIACLLHNKYDSTKSSTYKKNGTEFAIQYGSGSLSGF 83 (329)
T ss_pred ceeccCCeEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCCCCccccCCCeECCcCCCCeEECCeEEEEEECCceEEEE
Confidence 689999999999999999999999999999999999999874333454322
Q ss_pred ---C----------------------------cCCC----------------------------cccc---cc--CCCCC
Q psy3212 52 ---D----------------------------KFVG----------------------------HSHF---RN--ASDEN 67 (177)
Q Consensus 52 ---D----------------------------~fdG----------------------------~~~F---~~--~~~~~ 67 (177)
| +++| +++| +. .....
T Consensus 84 ~~~D~v~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~~~~s~~~~~p~~~~l~~qg~i~~~~FS~~l~~~~~~~~ 163 (329)
T cd05485 84 LSTDTVSVGGVSVKGQTFAEAINEPGLTFVAAKFDGILGMGYSSISVDGVVPVFYNMVNQKLVDAPVFSFYLNRDPSAKE 163 (329)
T ss_pred EecCcEEECCEEECCEEEEEEEecCCccccccccceEEEcCCccccccCCCCHHHHHHhCCCCCCCEEEEEecCCCCCCC
Confidence 1 1233 2344 11 11235
Q ss_pred CcEEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCC
Q psy3212 68 GGEIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC-SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLAN 146 (177)
Q Consensus 68 ~G~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~ 146 (177)
.|.|+|||+|+++|.|++.|+|+.+..+|.|.+++++++++.+. .+..+++||||+++++|++++++|.+++++.....
T Consensus 164 ~G~l~fGg~d~~~~~g~l~~~p~~~~~~~~v~~~~i~v~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~~~~~~~~~~ 243 (329)
T cd05485 164 GGELILGGSDPKHYTGNFTYLPVTRKGYWQFKMDSVSVGEGEFCSGGCQAIADTGTSLIAGPVDEIEKLNNAIGAKPIIG 243 (329)
T ss_pred CcEEEEcccCHHHcccceEEEEcCCceEEEEEeeEEEECCeeecCCCcEEEEccCCcceeCCHHHHHHHHHHhCCccccC
Confidence 79999999999999999999999988999999999999999887 77789999999999999999999999998774446
Q ss_pred CCEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 147 GPAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 147 g~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
+.|.++|+..+++|+|+|+|+|++++|+|++
T Consensus 244 ~~~~~~C~~~~~~p~i~f~fgg~~~~i~~~~ 274 (329)
T cd05485 244 GEYMVNCSAIPSLPDITFVLGGKSFSLTGKD 274 (329)
T ss_pred CcEEEeccccccCCcEEEEECCEEeEEChHH
Confidence 7899999987789999999999999999874
No 6
>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=100.00 E-value=9.3e-38 Score=247.36 Aligned_cols=166 Identities=46% Similarity=0.907 Sum_probs=140.5
Q ss_pred EEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC--------------------------------C----
Q psy3212 9 YYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK--------------------------------D---- 52 (177)
Q Consensus 9 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~--------------------------------D---- 52 (177)
|+++|+||||||+++|++||||+++||+|..|. ...|..+. |
T Consensus 1 Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~s~~C~--~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g~~~G~~~~D~v~i 78 (316)
T cd05486 1 YFGQISIGTPPQNFTVIFDTGSSNLWVPSIYCT--SQACTKHNRFQPSESSTYVSNGEAFSIQYGTGSLTGIIGIDQVTV 78 (316)
T ss_pred CeEEEEECCCCcEEEEEEcCCCccEEEecCCCC--CcccCccceECCCCCcccccCCcEEEEEeCCcEEEEEeeecEEEE
Confidence 899999999999999999999999999999997 34565433 1
Q ss_pred ------------------------cCCC----------------------------cccc---cc--CCCCCCcEEEEcc
Q psy3212 53 ------------------------KFVG----------------------------HSHF---RN--ASDENGGEIMFGG 75 (177)
Q Consensus 53 ------------------------~fdG----------------------------~~~F---~~--~~~~~~G~l~fGg 75 (177)
.+|| +++| +. ......|+|+|||
T Consensus 79 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~~~~s~~~~~p~~~~l~~qg~i~~~~FS~~L~~~~~~~~~g~l~fGg 158 (316)
T cd05486 79 EGITVQNQQFAESVSEPGSTFQDSEFDGILGLAYPSLAVDGVTPVFDNMMAQNLVELPMFSVYMSRNPNSADGGELVFGG 158 (316)
T ss_pred CCEEEcCEEEEEeeccCcccccccccceEeccCchhhccCCCCCHHHHHHhcCCCCCCEEEEEEccCCCCCCCcEEEEcc
Confidence 1233 2445 21 1223579999999
Q ss_pred cCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEEEcC
Q psy3212 76 VDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAKVDC 153 (177)
Q Consensus 76 ~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~~~C 153 (177)
+|+++|.|++.|+|+.+..+|.|.+++|+|+++.+. ....+++||||+++++|++++++|.+.+++.. ..+.|.++|
T Consensus 159 ~d~~~~~g~l~~~pi~~~~~w~v~l~~i~v~g~~~~~~~~~~aiiDTGTs~~~lP~~~~~~l~~~~~~~~-~~~~~~~~C 237 (316)
T cd05486 159 FDTSRFSGQLNWVPVTVQGYWQIQLDNIQVGGTVIFCSDGCQAIVDTGTSLITGPSGDIKQLQNYIGATA-TDGEYGVDC 237 (316)
T ss_pred cCHHHcccceEEEECCCceEEEEEeeEEEEecceEecCCCCEEEECCCcchhhcCHHHHHHHHHHhCCcc-cCCcEEEec
Confidence 999999999999999998999999999999998764 56789999999999999999999999998763 357799999
Q ss_pred CCCCCCccEEEEECCEEEEeccCC
Q psy3212 154 DNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 154 ~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
+....+|+|+|+|+|++++|+|++
T Consensus 238 ~~~~~~p~i~f~f~g~~~~l~~~~ 261 (316)
T cd05486 238 STLSLMPSVTFTINGIPYSLSPQA 261 (316)
T ss_pred cccccCCCEEEEECCEEEEeCHHH
Confidence 987789999999999999999864
No 7
>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=100.00 E-value=2.8e-37 Score=244.78 Aligned_cols=164 Identities=51% Similarity=0.993 Sum_probs=137.2
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.|.+|+++|+||||||+++|++||||+++||+|..|.. ...|..+.
T Consensus 3 l~n~~~~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~-~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G~~~G~ 81 (317)
T cd06098 3 LKNYLDAQYFGEIGIGTPPQKFTVIFDTGSSNLWVPSSKCYF-SIACYFHSKYKSSKSSTYKKNGTSASIQYGTGSISGF 81 (317)
T ss_pred ccccCCCEEEEEEEECCCCeEEEEEECCCccceEEecCCCCC-CccccccCcCCcccCCCcccCCCEEEEEcCCceEEEE
Confidence 689999999999999999999999999999999999999851 12454332
Q ss_pred ---C----------------------------cCCC----------------------------cccc---cc--CCCCC
Q psy3212 52 ---D----------------------------KFVG----------------------------HSHF---RN--ASDEN 67 (177)
Q Consensus 52 ---D----------------------------~fdG----------------------------~~~F---~~--~~~~~ 67 (177)
| ++|| +++| +. .....
T Consensus 82 ~~~D~v~ig~~~v~~~~f~~~~~~~~~~~~~~~~dGilGLg~~~~s~~~~~~~~~~l~~qg~i~~~~FS~~L~~~~~~~~ 161 (317)
T cd06098 82 FSQDSVTVGDLVVKNQVFIEATKEPGLTFLLAKFDGILGLGFQEISVGKAVPVWYNMVEQGLVKEPVFSFWLNRNPDEEE 161 (317)
T ss_pred EEeeEEEECCEEECCEEEEEEEecCCccccccccceeccccccchhhcCCCCHHHHHHhcCCCCCCEEEEEEecCCCCCC
Confidence 1 2344 2345 21 12245
Q ss_pred CcEEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec---CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccC
Q psy3212 68 GGEIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC---SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPL 144 (177)
Q Consensus 68 ~G~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~---~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~ 144 (177)
.|+|+|||+|+++|+|++.|+|+....+|.+.+++++|+++.+. ....+++||||+++++|++++++|.
T Consensus 162 ~G~l~fGg~d~~~~~g~l~~~pv~~~~~w~v~l~~i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~~~~~i~-------- 233 (317)
T cd06098 162 GGELVFGGVDPKHFKGEHTYVPVTRKGYWQFEMGDVLIGGKSTGFCAGGCAAIADSGTSLLAGPTTIVTQIN-------- 233 (317)
T ss_pred CcEEEECccChhhcccceEEEecCcCcEEEEEeCeEEECCEEeeecCCCcEEEEecCCcceeCCHHHHHhhh--------
Confidence 79999999999999999999999988899999999999998653 5678999999999999999887764
Q ss_pred CCCCEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 145 ANGPAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 145 ~~g~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
|.++|+..+++|+|+|+|+|++++|+|++
T Consensus 234 ----~~~~C~~~~~~P~i~f~f~g~~~~l~~~~ 262 (317)
T cd06098 234 ----SAVDCNSLSSMPNVSFTIGGKTFELTPEQ 262 (317)
T ss_pred ----ccCCccccccCCcEEEEECCEEEEEChHH
Confidence 56899987789999999999999999874
No 8
>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=100.00 E-value=5.2e-37 Score=243.27 Aligned_cols=170 Identities=42% Similarity=0.847 Sum_probs=145.2
Q ss_pred CceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC--------------------------------C-
Q psy3212 6 QAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK--------------------------------D- 52 (177)
Q Consensus 6 ~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~--------------------------------D- 52 (177)
|.+|+++|+||||||++.|++||||+++||++..|. ...|..+. |
T Consensus 1 ~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~C~--~~~C~~~~~f~~~~SsT~~~~~~~~~~~Yg~Gs~~G~~~~D~ 78 (318)
T cd05477 1 DMSYYGEISIGTPPQNFLVLFDTGSSNLWVPSVLCQ--SQACTNHTKFNPSQSSTYSTNGETFSLQYGSGSLTGIFGYDT 78 (318)
T ss_pred CcEEEEEEEECCCCcEEEEEEeCCCccEEEccCCCC--CccccccCCCCcccCCCceECCcEEEEEECCcEEEEEEEeeE
Confidence 578999999999999999999999999999999997 34565433 1
Q ss_pred ---------------------------cCCC----------------------------cccc---ccCC-CCCCcEEEE
Q psy3212 53 ---------------------------KFVG----------------------------HSHF---RNAS-DENGGEIMF 73 (177)
Q Consensus 53 ---------------------------~fdG----------------------------~~~F---~~~~-~~~~G~l~f 73 (177)
+++| +++| +... ....|.|+|
T Consensus 79 i~~g~~~i~~~~Fg~~~~~~~~~~~~~~~~GilGLg~~~~s~~~~~~~~~~L~~~g~i~~~~FS~~L~~~~~~~~g~l~f 158 (318)
T cd05477 79 VTVQGIIITNQEFGLSETEPGTNFVYAQFDGILGLAYPSISAGGATTVMQGMMQQNLLQAPIFSFYLSGQQGQQGGELVF 158 (318)
T ss_pred EEECCEEEcCEEEEEEEecccccccccceeeEeecCcccccccCCCCHHHHHHhcCCcCCCEEEEEEcCCCCCCCCEEEE
Confidence 1233 3455 2221 235799999
Q ss_pred cccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec---CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEE
Q psy3212 74 GGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC---SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAK 150 (177)
Q Consensus 74 Gg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~---~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~ 150 (177)
||+|++++.|++.|+|+.+..+|.|.+++++++++.+. .+..+++||||+++++|++++++|++.++++....+.|.
T Consensus 159 Gg~d~~~~~g~l~~~pv~~~~~w~v~l~~i~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~~~~~~~~~~~~~~ 238 (318)
T cd05477 159 GGVDNNLYTGQIYWTPVTSETYWQIGIQGFQINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTLMQSIGAQQDQYGQYV 238 (318)
T ss_pred cccCHHHcCCceEEEecCCceEEEEEeeEEEECCEEecccCCCceeeECCCCccEECCHHHHHHHHHHhCCccccCCCEE
Confidence 99999999999999999988999999999999998753 456899999999999999999999999998866678999
Q ss_pred EcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 151 VDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 151 ~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
+||+....+|.|+|+|+|++++|||++
T Consensus 239 ~~C~~~~~~p~l~~~f~g~~~~v~~~~ 265 (318)
T cd05477 239 VNCNNIQNLPTLTFTINGVSFPLPPSA 265 (318)
T ss_pred EeCCccccCCcEEEEECCEEEEECHHH
Confidence 999988889999999999999999863
No 9
>PTZ00165 aspartyl protease; Provisional
Probab=100.00 E-value=3.2e-37 Score=254.91 Aligned_cols=167 Identities=38% Similarity=0.684 Sum_probs=140.3
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.||.|.+|+++|+||||||+|.|++||||+++||+|..|. +.+|..|.
T Consensus 113 l~n~~d~~Y~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~~C~--~~~C~~~~~yd~s~SSTy~~~~~~~~~~~~~i~YGsG 190 (482)
T PTZ00165 113 LLNFHNSQYFGEIQVGTPPKSFVVVFDTGSSNLWIPSKECK--SGGCAPHRKFDPKKSSTYTKLKLGDESAETYIQYGTG 190 (482)
T ss_pred cccccCCeEEEEEEeCCCCceEEEEEeCCCCCEEEEchhcC--cccccccCCCCccccCCcEecCCCCccceEEEEeCCC
Confidence 68999999999999999999999999999999999999987 33454322
Q ss_pred --------C----------------------------cCCC-------------------------------cccc---c
Q psy3212 52 --------D----------------------------KFVG-------------------------------HSHF---R 61 (177)
Q Consensus 52 --------D----------------------------~fdG-------------------------------~~~F---~ 61 (177)
| ++|| +|+| +
T Consensus 191 s~~G~l~~DtV~ig~l~i~~q~FG~a~~~s~~~f~~~~~DGILGLg~~~~s~~s~~~~~p~~~~l~~qgli~~~~FS~yL 270 (482)
T PTZ00165 191 ECVLALGKDTVKIGGLKVKHQSIGLAIEESLHPFADLPFDGLVGLGFPDKDFKESKKALPIVDNIKKQNLLKRNIFSFYM 270 (482)
T ss_pred cEEEEEEEEEEEECCEEEccEEEEEEEeccccccccccccceeecCCCcccccccCCCCCHHHHHHHcCCcccceEEEEe
Confidence 1 3455 3445 2
Q ss_pred cCCCCCCcEEEEcccCCCCe--eeeeeEEecCcccceEEEEeEEEEcCeEec---CCcEEEEeCCCCcEEeCHHHHHHHH
Q psy3212 62 NASDENGGEIMFGGVDKDKF--VGDITYSPVSRKGYWQFGVESIKIEKNVYC---SNCQAIADTGTSLIIGPSKVIAELN 136 (177)
Q Consensus 62 ~~~~~~~G~l~fGg~d~~~~--~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~---~~~~ai~DSGt~~~~lP~~~~~~l~ 136 (177)
......+|+|+|||+|+.++ .|++.|+|+.+..+|.+.+++|+++++.+. ....|++||||+++++|++++++|.
T Consensus 271 ~~~~~~~G~l~fGGiD~~~~~~~g~i~~~Pv~~~~yW~i~l~~i~vgg~~~~~~~~~~~aIiDTGTSli~lP~~~~~~i~ 350 (482)
T PTZ00165 271 SKDLNQPGSISFGSADPKYTLEGHKIWWFPVISTDYWEIEVVDILIDGKSLGFCDRKCKAAIDTGSSLITGPSSVINPLL 350 (482)
T ss_pred ccCCCCCCEEEeCCcCHHHcCCCCceEEEEccccceEEEEeCeEEECCEEeeecCCceEEEEcCCCccEeCCHHHHHHHH
Confidence 23334579999999999777 578999999999999999999999987553 5788999999999999999999999
Q ss_pred HHhCCccCCCCCEEEcCCCCCCCccEEEEECCE-----EEEeccCC
Q psy3212 137 KLIGAVPLANGPAKVDCDNLDKMPNVDIILGGK-----NFTLTRTN 177 (177)
Q Consensus 137 ~~~~~~~~~~g~~~~~C~~~~~~p~l~f~~gg~-----~~~l~~~d 177 (177)
+++++. .+|+....+|+|+|+|+|. +|+|+|+|
T Consensus 351 ~~i~~~--------~~C~~~~~lP~itf~f~g~~g~~v~~~l~p~d 388 (482)
T PTZ00165 351 EKIPLE--------EDCSNKDSLPRISFVLEDVNGRKIKFDMDPED 388 (482)
T ss_pred HHcCCc--------ccccccccCCceEEEECCCCCceEEEEEchHH
Confidence 999875 3899888899999999875 89998764
No 10
>PTZ00147 plasmepsin-1; Provisional
Probab=100.00 E-value=1.5e-36 Score=249.31 Aligned_cols=172 Identities=27% Similarity=0.555 Sum_probs=144.4
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.|.+|+++|+||||||++.|++||||+++||+|..|. +..|..+.
T Consensus 132 L~n~~n~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~--~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~GsvsG~ 209 (453)
T PTZ00147 132 LKDLANVMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIKCT--TEGCETKNLYDSSKSKTYEKDGTKVEMNYVSGTVSGF 209 (453)
T ss_pred ccccCCCEEEEEEEECCCCeEEEEEEeCCCCcEEEeecCCC--cccccCCCccCCccCcceEECCCEEEEEeCCCCEEEE
Confidence 67899999999999999999999999999999999999997 44676543
Q ss_pred ---C-----------------------------cCCC----------------------------cccc---ccCCCCCC
Q psy3212 52 ---D-----------------------------KFVG----------------------------HSHF---RNASDENG 68 (177)
Q Consensus 52 ---D-----------------------------~fdG----------------------------~~~F---~~~~~~~~ 68 (177)
| .+|| +++| +.......
T Consensus 210 ~~~DtVtiG~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~~~~S~~~~~p~~~~L~~qg~I~~~vFS~~L~~~~~~~ 289 (453)
T PTZ00147 210 FSKDLVTIGNLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGWKDLSIGSVDPYVVELKNQNKIEQAVFTFYLPPEDKHK 289 (453)
T ss_pred EEEEEEEECCEEEEEEEEEEEeccCcccccccccccceecccCCccccccCCCHHHHHHHcCCCCccEEEEEecCCCCCC
Confidence 1 1344 3455 33334568
Q ss_pred cEEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHHHHHhCCc-cCCCC
Q psy3212 69 GEIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAELNKLIGAV-PLANG 147 (177)
Q Consensus 69 G~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~-~~~~g 147 (177)
|.|+|||+|+++|+|++.|+|+.+..+|.|.++ +.+++... ....|++||||+++++|++++++|++++++. ....+
T Consensus 290 G~L~fGGiD~~ky~G~l~y~pl~~~~~W~V~l~-~~vg~~~~-~~~~aIiDSGTsli~lP~~~~~ai~~~l~~~~~~~~~ 367 (453)
T PTZ00147 290 GYLTIGGIEERFYEGPLTYEKLNHDLYWQVDLD-VHFGNVSS-EKANVIVDSGTSVITVPTEFLNKFVESLDVFKVPFLP 367 (453)
T ss_pred eEEEECCcChhhcCCceEEEEcCCCceEEEEEE-EEECCEec-CceeEEECCCCchhcCCHHHHHHHHHHhCCeecCCCC
Confidence 999999999999999999999998889999998 57776432 5678999999999999999999999999765 33456
Q ss_pred CEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 148 PAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 148 ~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
.|.++|+. ..+|+|+|.|+|.+++|+|++
T Consensus 368 ~y~~~C~~-~~lP~~~f~f~g~~~~L~p~~ 396 (453)
T PTZ00147 368 LYVTTCNN-TKLPTLEFRSPNKVYTLEPEY 396 (453)
T ss_pred eEEEeCCC-CCCCeEEEEECCEEEEECHHH
Confidence 78999996 578999999999999999864
No 11
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=100.00 E-value=4.5e-36 Score=246.07 Aligned_cols=172 Identities=29% Similarity=0.612 Sum_probs=143.1
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC-----------------------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK----------------------------- 51 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~----------------------------- 51 (177)
|.|+.+.+|+++|+||||||++.|++||||+++||+|..|. ...|..+.
T Consensus 131 l~d~~n~~Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C~--~~~C~~~~~yd~s~SsT~~~~~~~~~i~YG~Gsv~G~ 208 (450)
T PTZ00013 131 LDDVANIMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCD--SIGCSIKNLYDSSKSKSYEKDGTKVDITYGSGTVKGF 208 (450)
T ss_pred eeccCCCEEEEEEEECCCCeEEEEEEeCCCCceEEecccCC--ccccccCCCccCccCcccccCCcEEEEEECCceEEEE
Confidence 56899999999999999999999999999999999999997 34565433
Q ss_pred ---C-----------------------------cCCC----------------------------cccc---ccCCCCCC
Q psy3212 52 ---D-----------------------------KFVG----------------------------HSHF---RNASDENG 68 (177)
Q Consensus 52 ---D-----------------------------~fdG----------------------------~~~F---~~~~~~~~ 68 (177)
| .+|| +++| +.......
T Consensus 209 ~~~Dtv~iG~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~~~~s~~~~~p~~~~L~~qg~I~~~vFS~~L~~~~~~~ 288 (450)
T PTZ00013 209 FSKDLVTLGHLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGWKDLSIGSIDPIVVELKNQNKIDNALFTFYLPVHDVHA 288 (450)
T ss_pred EEEEEEEECCEEEccEEEEEEeccccccceecccccceecccCCccccccCCCHHHHHHhccCcCCcEEEEEecCCCCCC
Confidence 1 1345 3445 22233468
Q ss_pred cEEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHHHHHhCCc-cCCCC
Q psy3212 69 GEIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAELNKLIGAV-PLANG 147 (177)
Q Consensus 69 G~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~-~~~~g 147 (177)
|.|+|||+|+++|+|+|.|+|+.+..+|.|.++ +.+|.... .+..|++||||+++++|+++++++++++++. ....+
T Consensus 289 G~L~fGGiD~~~y~G~L~y~pv~~~~yW~I~l~-v~~G~~~~-~~~~aIlDSGTSli~lP~~~~~~i~~~l~~~~~~~~~ 366 (450)
T PTZ00013 289 GYLTIGGIEEKFYEGNITYEKLNHDLYWQIDLD-VHFGKQTM-QKANVIVDSGTTTITAPSEFLNKFFANLNVIKVPFLP 366 (450)
T ss_pred CEEEECCcCccccccceEEEEcCcCceEEEEEE-EEECceec-cccceEECCCCccccCCHHHHHHHHHHhCCeecCCCC
Confidence 999999999999999999999998899999998 66765433 5677999999999999999999999999776 34466
Q ss_pred CEEEcCCCCCCCccEEEEECCEEEEeccCC
Q psy3212 148 PAKVDCDNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 148 ~~~~~C~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
.|.++|+. ..+|+|+|+|+|.+++|+|++
T Consensus 367 ~y~~~C~~-~~lP~i~F~~~g~~~~L~p~~ 395 (450)
T PTZ00013 367 FYVTTCDN-KEMPTLEFKSANNTYTLEPEY 395 (450)
T ss_pred eEEeecCC-CCCCeEEEEECCEEEEECHHH
Confidence 79999986 578999999999999999863
No 12
>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=100.00 E-value=2.9e-33 Score=218.01 Aligned_cols=156 Identities=31% Similarity=0.571 Sum_probs=125.0
Q ss_pred EEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCC------------CCCCCC-C-------------------C----
Q psy3212 9 YYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILN------------IACSVD-K-------------------D---- 52 (177)
Q Consensus 9 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~------------~~c~~~-~-------------------D---- 52 (177)
|+++|+||||||++.|++||||+++||++..|..+. ..|... . |
T Consensus 1 Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~c~~~~~~~~~~y~~~~Sst~~~~~~~~~~i~Y~~G~~~~G~~~~D~v~i 80 (278)
T cd06097 1 YLTPVKIGTPPQTLNLDLDTGSSDLWVFSSETPAAQQGGHKLYDPSKSSTAKLLPGATWSISYGDGSSASGIVYTDTVSI 80 (278)
T ss_pred CeeeEEECCCCcEEEEEEeCCCCceeEeeCCCCchhhccCCcCCCccCccceecCCcEEEEEeCCCCeEEEEEEEEEEEE
Confidence 799999999999999999999999999999886220 011100 0 1
Q ss_pred ------------------------cCCC-----------------------------cccc-ccCCCCCCcEEEEcccCC
Q psy3212 53 ------------------------KFVG-----------------------------HSHF-RNASDENGGEIMFGGVDK 78 (177)
Q Consensus 53 ------------------------~fdG-----------------------------~~~F-~~~~~~~~G~l~fGg~d~ 78 (177)
.+|| +++| ........|+|+|||+|+
T Consensus 81 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~~~~~~~~~~~~~~~~~~l~~~~~~~~Fs~~l~~~~~G~l~fGg~D~ 160 (278)
T cd06097 81 GGVEVPNQAIELATAVSASFFSDTASDGLLGLAFSSINTVQPPKQKTFFENALSSLDAPLFTADLRKAAPGFYTFGYIDE 160 (278)
T ss_pred CCEEECCeEEEEEeecCccccccccccceeeeccccccccccCCCCCHHHHHHHhccCceEEEEecCCCCcEEEEeccCh
Confidence 1233 1233 111224689999999999
Q ss_pred CCeeeeeeEEecCc-ccceEEEEeEEEEcCeEe-c-CCcEEEEeCCCCcEEeCHHHHHHHHHHh-CCc-cCCCCCEEEcC
Q psy3212 79 DKFVGDITYSPVSR-KGYWQFGVESIKIEKNVY-C-SNCQAIADTGTSLIIGPSKVIAELNKLI-GAV-PLANGPAKVDC 153 (177)
Q Consensus 79 ~~~~g~l~~~p~~~-~~~w~v~~~~i~v~~~~~-~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~-~~~-~~~~g~~~~~C 153 (177)
++|.|++.|+|+.+ ..+|.|++++++++++.. . ....++|||||+++++|++++++|++++ ++. ....+.|.+||
T Consensus 161 ~~~~g~l~~~pi~~~~~~w~v~l~~i~v~~~~~~~~~~~~~iiDSGTs~~~lP~~~~~~l~~~l~g~~~~~~~~~~~~~C 240 (278)
T cd06097 161 SKYKGEISWTPVDNSSGFWQFTSTSYTVGGDAPWSRSGFSAIADTGTTLILLPDAIVEAYYSQVPGAYYDSEYGGWVFPC 240 (278)
T ss_pred HHcCCceEEEEccCCCcEEEEEEeeEEECCcceeecCCceEEeecCCchhcCCHHHHHHHHHhCcCCcccCCCCEEEEEC
Confidence 99999999999986 789999999999999833 3 7889999999999999999999999999 565 45578899999
Q ss_pred CCCCCCccEEEEE
Q psy3212 154 DNLDKMPNVDIIL 166 (177)
Q Consensus 154 ~~~~~~p~l~f~~ 166 (177)
+. .+|+|+|+|
T Consensus 241 ~~--~~P~i~f~~ 251 (278)
T cd06097 241 DT--TLPDLSFAV 251 (278)
T ss_pred CC--CCCCEEEEE
Confidence 95 399999987
No 13
>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=100.00 E-value=3.3e-33 Score=220.58 Aligned_cols=168 Identities=39% Similarity=0.766 Sum_probs=140.6
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCC--------------------------------C---
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDK--------------------------------D--- 52 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~--------------------------------D--- 52 (177)
+|+++|+||||+|+++|++||||+++||++..|..+ ..|..+. |
T Consensus 1 ~Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~-~~~~~~~~y~~~~S~t~~~~~~~~~~~y~~g~~~G~~~~D~v~ 79 (317)
T PF00026_consen 1 QYYINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSC-SSCASSGFYNPSKSSTFSNQGKPFSISYGDGSVSGNLVSDTVS 79 (317)
T ss_dssp EEEEEEEETTTTEEEEEEEETTBSSEEEEBTTECSH-THHCTSC-BBGGGSTTEEEEEEEEEEEETTEEEEEEEEEEEEE
T ss_pred CeEEEEEECCCCeEEEEEEecccceeeeceeccccc-cccccccccccccccccccceeeeeeeccCcccccccccceEe
Confidence 699999999999999999999999999999888732 0122111 1
Q ss_pred -------------------------cCCC-----------------------------cccc---ccCCCCCCcEEEEcc
Q psy3212 53 -------------------------KFVG-----------------------------HSHF---RNASDENGGEIMFGG 75 (177)
Q Consensus 53 -------------------------~fdG-----------------------------~~~F---~~~~~~~~G~l~fGg 75 (177)
+++| +++| ........|.|+|||
T Consensus 80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg~~~~~~~~~~~~~~~~l~~~g~i~~~~fsl~l~~~~~~~g~l~~Gg 159 (317)
T PF00026_consen 80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLGFPSLSSSSTYPTFLDQLVQQGLISSNVFSLYLNPSDSQNGSLTFGG 159 (317)
T ss_dssp ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-SSGGGSGGGTS-SHHHHHHHTTSSSSSEEEEEEESTTSSEEEEEESS
T ss_pred eeeccccccceeccccccccccccccccccccccCCcccccccCCcceecchhhccccccccceeeeecccccchheeec
Confidence 3344 3344 222225679999999
Q ss_pred cCCCCeeeeeeEEecCcccceEEEEeEEEEcCe-Eec-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEEEcC
Q psy3212 76 VDKDKFVGDITYSPVSRKGYWQFGVESIKIEKN-VYC-SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAKVDC 153 (177)
Q Consensus 76 ~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~-~~~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~~~C 153 (177)
+|+++|.|++.|+|+....+|.+.+++|.+++. ... ....+++|||++++++|++++++|++++++.... +.|.++|
T Consensus 160 ~d~~~~~g~~~~~~~~~~~~w~v~~~~i~i~~~~~~~~~~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~-~~~~~~c 238 (317)
T PF00026_consen 160 YDPSKYDGDLVWVPLVSSGYWSVPLDSISIGGESVFSSSGQQAILDTGTSYIYLPRSIFDAIIKALGGSYSD-GVYSVPC 238 (317)
T ss_dssp EEGGGEESEEEEEEBSSTTTTEEEEEEEEETTEEEEEEEEEEEEEETTBSSEEEEHHHHHHHHHHHTTEEEC-SEEEEET
T ss_pred cccccccCceeccCcccccccccccccccccccccccccceeeecccccccccccchhhHHHHhhhcccccc-eeEEEec
Confidence 999999999999999999999999999999999 444 6688999999999999999999999999887333 8899999
Q ss_pred CCCCCCccEEEEECCEEEEeccCC
Q psy3212 154 DNLDKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 154 ~~~~~~p~l~f~~gg~~~~l~~~d 177 (177)
+....+|.|+|.|++.+++|||++
T Consensus 239 ~~~~~~p~l~f~~~~~~~~i~~~~ 262 (317)
T PF00026_consen 239 NSTDSLPDLTFTFGGVTFTIPPSD 262 (317)
T ss_dssp TGGGGSEEEEEEETTEEEEEEHHH
T ss_pred ccccccceEEEeeCCEEEEecchH
Confidence 987789999999999999999864
No 14
>KOG1339|consensus
Probab=100.00 E-value=1.6e-31 Score=217.60 Aligned_cols=177 Identities=37% Similarity=0.735 Sum_probs=144.4
Q ss_pred CccccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCC-C-----------------CCCCCCC------------
Q psy3212 1 MRSSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSI-L-----------------NIACSVD------------ 50 (177)
Q Consensus 1 l~~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~-~-----------------~~~c~~~------------ 50 (177)
+..+.+.+|+++|.||||||+|.|++||||+++||+|..|.. + ...|...
T Consensus 39 ~~~~~~~~Y~~~i~IGTPpq~f~v~~DTGS~~lWV~c~~c~~~C~~~~~~~f~p~~SSt~~~~~c~~~~c~~~~~~~~~~ 118 (398)
T KOG1339|consen 39 LSSYSSGEYYGNISIGTPPQSFTVVLDTGSDLLWVPCAPCSSACYSQHNPIFDPSASSTYKSVGCSSPRCKSLPQSCSPN 118 (398)
T ss_pred cccccccccEEEEecCCCCeeeEEEEeCCCCceeeccccccccccccCCCccCccccccccccCCCCccccccccCcccC
Confidence 356778899999999999999999999999999999988861 1 0122220
Q ss_pred -----C---------------C-------------------------------cCCC---------------------cc
Q psy3212 51 -----K---------------D-------------------------------KFVG---------------------HS 58 (177)
Q Consensus 51 -----~---------------D-------------------------------~fdG---------------------~~ 58 (177)
. | ++|| .+
T Consensus 119 ~~C~y~i~Ygd~~~~~G~l~~Dtv~~~~~~~~~~~~~~FGc~~~~~g~~~~~~~~dGIlGLg~~~~S~~~q~~~~~~~~~ 198 (398)
T KOG1339|consen 119 SSCPYSIQYGDGSSTSGYLATDTVTFGGTTSLPVPNQTFGCGTNNPGSFGLFAAFDGILGLGRGSLSVPSQLPSFYNAIN 198 (398)
T ss_pred CcCceEEEeCCCCceeEEEEEEEEEEccccccccccEEEEeeecCccccccccccceEeecCCCCccceeecccccCCce
Confidence 0 1 1344 22
Q ss_pred cc---ccCCC---CCCcEEEEcccCCCCeeeeeeEEecCccc--ceEEEEeEEEEcCe------Eec-CCcEEEEeCCCC
Q psy3212 59 HF---RNASD---ENGGEIMFGGVDKDKFVGDITYSPVSRKG--YWQFGVESIKIEKN------VYC-SNCQAIADTGTS 123 (177)
Q Consensus 59 ~F---~~~~~---~~~G~l~fGg~d~~~~~g~l~~~p~~~~~--~w~v~~~~i~v~~~------~~~-~~~~ai~DSGt~ 123 (177)
+| +.... ...|.|+||++|+.++.+.+.|+|+.... +|.+.+.+|+|+++ .+. ....+++||||+
T Consensus 199 ~FS~cL~~~~~~~~~~G~i~fG~~d~~~~~~~l~~tPl~~~~~~~y~v~l~~I~vgg~~~~~~~~~~~~~~~~iiDSGTs 278 (398)
T KOG1339|consen 199 VFSYCLSSNGSPSSGGGSIIFGGVDSSHYTGSLTYTPLLSNPSTYYQVNLDGISVGGKRPIGSSLFCTDGGGAIIDSGTS 278 (398)
T ss_pred eEEEEeCCCCCCCCCCcEEEECCCcccCcCCceEEEeeccCCCccEEEEEeEEEECCccCCCcceEecCCCCEEEECCcc
Confidence 35 22221 25899999999999999999999999776 99999999999973 333 358899999999
Q ss_pred cEEeCHHHHHHHHHHhCCc---cCCCCCEEEcCCCCCC----CccEEEEEC-CEEEEeccCC
Q psy3212 124 LIIGPSKVIAELNKLIGAV---PLANGPAKVDCDNLDK----MPNVDIILG-GKNFTLTRTN 177 (177)
Q Consensus 124 ~~~lP~~~~~~l~~~~~~~---~~~~g~~~~~C~~~~~----~p~l~f~~g-g~~~~l~~~d 177 (177)
+++||.++|++|.++++++ ....+.+.++|..... +|.|+|+|+ |+.+.+++++
T Consensus 279 ~t~lp~~~y~~i~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~P~i~~~f~~g~~~~l~~~~ 340 (398)
T KOG1339|consen 279 LTYLPTSAYNALREAIGAEVSVVGTDGEYFVPCFSISTSGVKLPDITFHFGGGAVFSLPPKN 340 (398)
T ss_pred eeeccHHHHHHHHHHHHhheeccccCCceeeecccCCCCcccCCcEEEEECCCcEEEeCccc
Confidence 9999999999999999987 6778889999998776 999999999 8999999985
No 15
>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=100.00 E-value=4.7e-32 Score=213.19 Aligned_cols=168 Identities=24% Similarity=0.437 Sum_probs=128.9
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCC-----CC-------------------------CCCCCC----c
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILN-----IA-------------------------CSVDKD----K 53 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~-----~~-------------------------c~~~~D----~ 53 (177)
+|+++|.||||||++.|++||||+++||+|..|.... .. |....+ .
T Consensus 1 ~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~c~~c~~~~i~Yg~Gs~~~G~~~~D~v~ig~~~~~~~~~Fg~~~~~~~~~~~ 80 (299)
T cd05472 1 EYVVTVGLGTPARDQTVIVDTGSDLTWVQCQPCCLYQVSYGDGSYTTGDLATDTLTLGSSDVVPGFAFGCGHDNEGLFGG 80 (299)
T ss_pred CeEEEEecCCCCcceEEEecCCCCcccccCCCCCeeeeEeCCCceEEEEEEEEEEEeCCCCccCCEEEECCccCCCccCC
Confidence 5999999999999999999999999999988762110 00 000000 2
Q ss_pred CCC-------------------cccc---ccCCC-CCCcEEEEcccCCCCeeeeeeEEecCcc----cceEEEEeEEEEc
Q psy3212 54 FVG-------------------HSHF---RNASD-ENGGEIMFGGVDKDKFVGDITYSPVSRK----GYWQFGVESIKIE 106 (177)
Q Consensus 54 fdG-------------------~~~F---~~~~~-~~~G~l~fGg~d~~~~~g~l~~~p~~~~----~~w~v~~~~i~v~ 106 (177)
++| +++| +.... ...|+|+|||+|++ .|++.|+|+... .+|.|++++|+|+
T Consensus 81 ~~GilGLg~~~~s~~~ql~~~~~~~FS~~L~~~~~~~~G~l~fGg~d~~--~g~l~~~pv~~~~~~~~~y~v~l~~i~vg 158 (299)
T cd05472 81 AAGLLGLGRGKLSLPSQTASSYGGVFSYCLPDRSSSSSGYLSFGAAASV--PAGASFTPMLSNPRVPTFYYVGLTGISVG 158 (299)
T ss_pred CCEEEECCCCcchHHHHhhHhhcCceEEEccCCCCCCCceEEeCCcccc--CCCceECCCccCCCCCCeEEEeeEEEEEC
Confidence 444 3567 22222 56899999999998 899999999853 6899999999999
Q ss_pred CeEec------CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCcc----CCCCCEEEc-CCC-----CCCCccEEEEEC-CE
Q psy3212 107 KNVYC------SNCQAIADTGTSLIIGPSKVIAELNKLIGAVP----LANGPAKVD-CDN-----LDKMPNVDIILG-GK 169 (177)
Q Consensus 107 ~~~~~------~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~----~~~g~~~~~-C~~-----~~~~p~l~f~~g-g~ 169 (177)
++.+. ....+++||||+++++|++++++|.++++++. ...+.+.++ |.. ...+|+|+|+|+ |+
T Consensus 159 ~~~~~~~~~~~~~~~~ivDSGTt~~~lp~~~~~~l~~~l~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~P~i~f~f~~g~ 238 (299)
T cd05472 159 GRRLPIPPASFGAGGVIIDSGTVITRLPPSAYAALRDAFRAAMAAYPRAPGFSILDTCYDLSGFRSVSVPTVSLHFQGGA 238 (299)
T ss_pred CEECCCCccccCCCCeEEeCCCcceecCHHHHHHHHHHHHHHhccCCCCCCCCCCCccCcCCCCcCCccCCEEEEECCCC
Confidence 98764 24579999999999999999999999986541 123344554 753 357999999997 89
Q ss_pred EEEeccCC
Q psy3212 170 NFTLTRTN 177 (177)
Q Consensus 170 ~~~l~~~d 177 (177)
+++|+|++
T Consensus 239 ~~~l~~~~ 246 (299)
T cd05472 239 DVELDASG 246 (299)
T ss_pred EEEeCccc
Confidence 99999975
No 16
>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=99.97 E-value=3.9e-31 Score=207.35 Aligned_cols=169 Identities=31% Similarity=0.543 Sum_probs=133.4
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCC------------------------CCCCCCcCCC-------
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIA------------------------CSVDKDKFVG------- 56 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~------------------------c~~~~D~fdG------- 56 (177)
.|+++|+||||+|++.|++||||+++||+.-.....+.. |......++|
T Consensus 2 ~Y~~~i~iGtp~q~~~v~~DTgS~~~wv~~~~~~Y~~g~~~~G~~~~D~v~~g~~~~~~~~fg~~~~~~~~~GilGLg~~ 81 (295)
T cd05474 2 YYSAELSVGTPPQKVTVLLDTGSSDLWVPDFSISYGDGTSASGTWGTDTVSIGGATVKNLQFAVANSTSSDVGVLGIGLP 81 (295)
T ss_pred eEEEEEEECCCCcEEEEEEeCCCCcceeeeeEEEeccCCcEEEEEEEEEEEECCeEecceEEEEEecCCCCcceeeECCC
Confidence 699999999999999999999999999993221100000 0000012233
Q ss_pred --------------------------cccc---ccCCCCCCcEEEEcccCCCCeeeeeeEEecCcc------cceEEEEe
Q psy3212 57 --------------------------HSHF---RNASDENGGEIMFGGVDKDKFVGDITYSPVSRK------GYWQFGVE 101 (177)
Q Consensus 57 --------------------------~~~F---~~~~~~~~G~l~fGg~d~~~~~g~l~~~p~~~~------~~w~v~~~ 101 (177)
+++| +.......|.|+|||+|+++|.|++.|+|+... .+|.|.++
T Consensus 82 ~~~~~~~~~~~~~s~~~~L~~~g~i~~~~Fsl~l~~~~~~~g~l~~Gg~d~~~~~g~~~~~p~~~~~~~~~~~~~~v~l~ 161 (295)
T cd05474 82 GNEATYGTGYTYPNFPIALKKQGLIKKNAYSLYLNDLDASTGSILFGGVDTAKYSGDLVTLPIVNDNGGSEPSELSVTLS 161 (295)
T ss_pred CCcccccCCCcCCCHHHHHHHCCcccceEEEEEeCCCCCCceeEEEeeeccceeeceeEEEeCcCcCCCCCceEEEEEEE
Confidence 2344 222234689999999999999999999999965 78999999
Q ss_pred EEEEcCeEe----c-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCc-cCCCCCEEEcCCCCCCCccEEEEECCEEEEecc
Q psy3212 102 SIKIEKNVY----C-SNCQAIADTGTSLIIGPSKVIAELNKLIGAV-PLANGPAKVDCDNLDKMPNVDIILGGKNFTLTR 175 (177)
Q Consensus 102 ~i~v~~~~~----~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~-~~~~g~~~~~C~~~~~~p~l~f~~gg~~~~l~~ 175 (177)
+|+++++.. . ....+++||||++++||.+++++|++++++. ....+.|.++|+.... |.|+|+|+|++++||+
T Consensus 162 ~i~v~~~~~~~~~~~~~~~~iiDSGt~~~~lP~~~~~~l~~~~~~~~~~~~~~~~~~C~~~~~-p~i~f~f~g~~~~i~~ 240 (295)
T cd05474 162 SISVNGSSGNTTLLSKNLPALLDSGTTLTYLPSDIVDAIAKQLGATYDSDEGLYVVDCDAKDD-GSLTFNFGGATISVPL 240 (295)
T ss_pred EEEEEcCCCcccccCCCccEEECCCCccEeCCHHHHHHHHHHhCCEEcCCCcEEEEeCCCCCC-CEEEEEECCeEEEEEH
Confidence 999998863 3 6778999999999999999999999999887 4446789999997666 9999999999999998
Q ss_pred CC
Q psy3212 176 TN 177 (177)
Q Consensus 176 ~d 177 (177)
++
T Consensus 241 ~~ 242 (295)
T cd05474 241 SD 242 (295)
T ss_pred HH
Confidence 64
No 17
>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=99.97 E-value=1e-30 Score=210.74 Aligned_cols=170 Identities=26% Similarity=0.439 Sum_probs=129.7
Q ss_pred ceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCC--------CCCCCCCC------------------C--------
Q psy3212 7 AQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSIL--------NIACSVDK------------------D-------- 52 (177)
Q Consensus 7 ~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~--------~~~c~~~~------------------D-------- 52 (177)
..|+++|+||||+|++.|++||||+++||+|..|... +.++.... |
T Consensus 2 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~~~~~~~~f~~~~SsT~~~~~~~~~i~Yg~Gs~~G~~~~D~v~ig~~~ 81 (364)
T cd05473 2 QGYYIEMLIGTPPQKLNILVDTGSSNFAVAAAPHPFIHTYFHRELSSTYRDLGKGVTVPYTQGSWEGELGTDLVSIPKGP 81 (364)
T ss_pred CceEEEEEecCCCceEEEEEecCCcceEEEcCCCccccccCCchhCcCcccCCceEEEEECcceEEEEEEEEEEEECCCC
Confidence 4699999999999999999999999999999876521 11111110 1
Q ss_pred ----------------------cCCC-----------------------------cccc---ccC---------CCCCCc
Q psy3212 53 ----------------------KFVG-----------------------------HSHF---RNA---------SDENGG 69 (177)
Q Consensus 53 ----------------------~fdG-----------------------------~~~F---~~~---------~~~~~G 69 (177)
.+|| +++| +.. .....|
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~~~l~~~~~~~~~~~~~l~~q~~~~~~FS~~l~~~~~~~~~~~~~~~~g 161 (364)
T cd05473 82 NVTFRANIAAITESENFFLNGSNWEGILGLAYAELARPDSSVEPFFDSLVKQTGIPDVFSLQMCGAGLPVNGSASGTVGG 161 (364)
T ss_pred ccceEEeeEEEeccccceecccccceeeeecccccccCCCCCCCHHHHHHhccCCccceEEEecccccccccccccCCCc
Confidence 1244 1244 110 123479
Q ss_pred EEEEcccCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec-C-----CcEEEEeCCCCcEEeCHHHHHHHHHHhCCcc
Q psy3212 70 EIMFGGVDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC-S-----NCQAIADTGTSLIIGPSKVIAELNKLIGAVP 143 (177)
Q Consensus 70 ~l~fGg~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~-~-----~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~ 143 (177)
.|+|||+|+++|.|++.|+|+.+..+|.|.+++|+++++.+. . ...+++||||+++++|++++++|.++++++.
T Consensus 162 ~l~fGg~D~~~~~g~l~~~p~~~~~~~~v~l~~i~vg~~~~~~~~~~~~~~~~ivDSGTs~~~lp~~~~~~l~~~l~~~~ 241 (364)
T cd05473 162 SMVIGGIDPSLYKGDIWYTPIREEWYYEVIILKLEVGGQSLNLDCKEYNYDKAIVDSGTTNLRLPVKVFNAAVDAIKAAS 241 (364)
T ss_pred EEEeCCcCHhhcCCCceEEecCcceeEEEEEEEEEECCEecccccccccCccEEEeCCCcceeCCHHHHHHHHHHHHhhc
Confidence 999999999999999999999988899999999999998764 1 2469999999999999999999999997652
Q ss_pred C----CC---CCEEEcCCCCC-----CCccEEEEECC------EEEEeccC
Q psy3212 144 L----AN---GPAKVDCDNLD-----KMPNVDIILGG------KNFTLTRT 176 (177)
Q Consensus 144 ~----~~---g~~~~~C~~~~-----~~p~l~f~~gg------~~~~l~~~ 176 (177)
. .. +.+.++|.... .+|+|+|+|+| .+++|+|+
T Consensus 242 ~~~~~~~~~~~~~~~~C~~~~~~~~~~~P~i~~~f~g~~~~~~~~l~l~p~ 292 (364)
T cd05473 242 LIEDFPDGFWLGSQLACWQKGTTPWEIFPKISIYLRDENSSQSFRITILPQ 292 (364)
T ss_pred ccccCCccccCcceeecccccCchHhhCCcEEEEEccCCCCceEEEEECHH
Confidence 1 11 23467998543 58999999975 46788875
No 18
>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=99.96 E-value=3e-29 Score=199.51 Aligned_cols=91 Identities=25% Similarity=0.504 Sum_probs=82.7
Q ss_pred CCcEEEEcccCCCCee----------eeeeEEecCcccceEEEEeEEEEcCeE---ec-CCcEEEEeCCCCcEEeCHHHH
Q psy3212 67 NGGEIMFGGVDKDKFV----------GDITYSPVSRKGYWQFGVESIKIEKNV---YC-SNCQAIADTGTSLIIGPSKVI 132 (177)
Q Consensus 67 ~~G~l~fGg~d~~~~~----------g~l~~~p~~~~~~w~v~~~~i~v~~~~---~~-~~~~ai~DSGt~~~~lP~~~~ 132 (177)
..|.|+|||+|++++. +++.|+|+.+..+|.|.+++|+++++. .. ....+++||||++++||++++
T Consensus 171 ~~G~l~~Gg~d~~~~~~~~~~~~~~~~~~~~~p~~~~~~y~v~l~~i~vg~~~~~~~~~~~~~aivDSGTs~~~lp~~~~ 250 (326)
T cd06096 171 DGGELTIGGYDKDYTVRNSSIGNNKVSKIVWTPITRKYYYYVKLEGLSVYGTTSNSGNTKGLGMLVDSGSTLSHFPEDLY 250 (326)
T ss_pred CCeEEEECccChhhhcccccccccccCCceEEeccCCceEEEEEEEEEEcccccceecccCCCEEEeCCCCcccCCHHHH
Confidence 4799999999999987 889999999889999999999999885 23 678899999999999999999
Q ss_pred HHHHHHhCCccCCCCCEEEcCCCCCCCccEEEEEC-CEEEEeccCC
Q psy3212 133 AELNKLIGAVPLANGPAKVDCDNLDKMPNVDIILG-GKNFTLTRTN 177 (177)
Q Consensus 133 ~~l~~~~~~~~~~~g~~~~~C~~~~~~p~l~f~~g-g~~~~l~~~d 177 (177)
++|.+.+ |+|+|.|+ |++++|+|++
T Consensus 251 ~~l~~~~--------------------P~i~~~f~~g~~~~i~p~~ 276 (326)
T cd06096 251 NKINNFF--------------------PTITIIFENNLKIDWKPSS 276 (326)
T ss_pred HHHHhhc--------------------CcEEEEEcCCcEEEECHHH
Confidence 9998887 89999998 8999999864
No 19
>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=99.96 E-value=2.6e-28 Score=189.58 Aligned_cols=158 Identities=42% Similarity=0.799 Sum_probs=128.8
Q ss_pred EEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCC--------------C------------------C----
Q psy3212 9 YYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVD--------------K------------------D---- 52 (177)
Q Consensus 9 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~--------------~------------------D---- 52 (177)
|+++|.||+|+|++.|++||||+++||+|..|..+...+... . |
T Consensus 1 Y~~~i~iGtp~q~~~l~~DTGS~~~wv~~~~c~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~Y~~g~~~g~~~~D~v~~ 80 (283)
T cd05471 1 YYGEITIGTPPQKFSVIFDTGSSLLWVPSSNCTSCSCQKHPRFKYDSSKSSTYKDTGCTFSITYGDGSVTGGLGTDTVTI 80 (283)
T ss_pred CEEEEEECCCCcEEEEEEeCCCCCEEEecCCCCccccccCCCCccCccCCceeecCCCEEEEEECCCeEEEEEEEeEEEE
Confidence 789999999999999999999999999999987432111110 0 1
Q ss_pred -----------------------cCCC----------------------------cccc---ccCC--CCCCcEEEEccc
Q psy3212 53 -----------------------KFVG----------------------------HSHF---RNAS--DENGGEIMFGGV 76 (177)
Q Consensus 53 -----------------------~fdG----------------------------~~~F---~~~~--~~~~G~l~fGg~ 76 (177)
.++| +++| +... ....|.|+|||+
T Consensus 81 ~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~~~~~~~~~s~~~~l~~~~~i~~~~Fs~~l~~~~~~~~~g~l~~Gg~ 160 (283)
T cd05471 81 GGLTIPNQTFGCATSESGDFSSSGFDGILGLGFPSLSVDGVPSFFDQLKSQGLISSPVFSFYLGRDGDGGNGGELTFGGI 160 (283)
T ss_pred CCEEEeceEEEEEeccCCcccccccceEeecCCcccccccCCCHHHHHHHCCCCCCCEEEEEEcCCCCCCCCCEEEEccc
Confidence 1222 2444 1111 357899999999
Q ss_pred CCCCeeeeeeEEecCc--ccceEEEEeEEEEcCe--Eec-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCc-cCCCCCEE
Q psy3212 77 DKDKFVGDITYSPVSR--KGYWQFGVESIKIEKN--VYC-SNCQAIADTGTSLIIGPSKVIAELNKLIGAV-PLANGPAK 150 (177)
Q Consensus 77 d~~~~~g~l~~~p~~~--~~~w~v~~~~i~v~~~--~~~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~-~~~~g~~~ 150 (177)
|++++.+++.|+|+.. ..+|.+.+++|.+++. ... ....++|||||++++||++++++|++++++. ......+.
T Consensus 161 d~~~~~~~~~~~p~~~~~~~~~~v~l~~i~v~~~~~~~~~~~~~~iiDsGt~~~~lp~~~~~~l~~~~~~~~~~~~~~~~ 240 (283)
T cd05471 161 DPSKYTGDLTYTPVVSNGPGYWQVPLDGISVGGKSVISSSGGGGAIVDSGTSLIYLPSSVYDAILKALGAAVSSSDGGYG 240 (283)
T ss_pred CccccCCceEEEecCCCCCCEEEEEeCeEEECCceeeecCCCcEEEEecCCCCEeCCHHHHHHHHHHhCCcccccCCcEE
Confidence 9999999999999997 7899999999999997 344 7889999999999999999999999999877 33466788
Q ss_pred EcCCCCCCCccEEEEE
Q psy3212 151 VDCDNLDKMPNVDIIL 166 (177)
Q Consensus 151 ~~C~~~~~~p~l~f~~ 166 (177)
.+|.....+|+|+|+|
T Consensus 241 ~~~~~~~~~p~i~f~f 256 (283)
T cd05471 241 VDCSPCDTLPDITFTF 256 (283)
T ss_pred EeCcccCcCCCEEEEE
Confidence 8999888999999998
No 20
>PLN03146 aspartyl protease family protein; Provisional
Probab=99.95 E-value=2.4e-27 Score=194.62 Aligned_cols=110 Identities=20% Similarity=0.311 Sum_probs=84.2
Q ss_pred CCCcEEEEcccCCCCeee-eeeEEecCc---ccceEEEEeEEEEcCeEec-C--------CcEEEEeCCCCcEEeCHHHH
Q psy3212 66 ENGGEIMFGGVDKDKFVG-DITYSPVSR---KGYWQFGVESIKIEKNVYC-S--------NCQAIADTGTSLIIGPSKVI 132 (177)
Q Consensus 66 ~~~G~l~fGg~d~~~~~g-~l~~~p~~~---~~~w~v~~~~i~v~~~~~~-~--------~~~ai~DSGt~~~~lP~~~~ 132 (177)
...|.|+||+. +++.| .+.|+|+.. ..+|.|.+++|+||++.+. . ...+||||||++++||+++|
T Consensus 249 ~~~g~l~fG~~--~~~~~~~~~~tPl~~~~~~~~y~V~L~gIsVgg~~l~~~~~~~~~~~~g~~iiDSGTt~t~Lp~~~y 326 (431)
T PLN03146 249 NGTSKINFGTN--AIVSGSGVVSTPLVSKDPDTFYYLTLEAISVGSKKLPYTGSSKNGVEEGNIIIDSGTTLTLLPSDFY 326 (431)
T ss_pred CCcceEEeCCc--cccCCCCceEcccccCCCCCeEEEeEEEEEECCEECcCCccccccCCCCcEEEeCCccceecCHHHH
Confidence 35799999984 55554 488999973 4699999999999998764 1 24789999999999999999
Q ss_pred HHHHHHhCCc----c-CCCCCEEEcCCCC---CCCccEEEEECCEEEEeccCC
Q psy3212 133 AELNKLIGAV----P-LANGPAKVDCDNL---DKMPNVDIILGGKNFTLTRTN 177 (177)
Q Consensus 133 ~~l~~~~~~~----~-~~~g~~~~~C~~~---~~~p~l~f~~gg~~~~l~~~d 177 (177)
++|.+++..+ . .....+..+|... ..+|.|+|+|+|+++.|+|++
T Consensus 327 ~~l~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~P~i~~~F~Ga~~~l~~~~ 379 (431)
T PLN03146 327 SELESAVEEAIGGERVSDPQGLLSLCYSSTSDIKLPIITAHFTGADVKLQPLN 379 (431)
T ss_pred HHHHHHHHHHhccccCCCCCCCCCccccCCCCCCCCeEEEEECCCeeecCcce
Confidence 9987765322 1 1122234578753 368999999999999999864
No 21
>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=99.95 E-value=1.7e-27 Score=184.51 Aligned_cols=140 Identities=26% Similarity=0.457 Sum_probs=111.1
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCC-----CCC-------------C--CCC---------------C
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILN-----IAC-------------S--VDK---------------D 52 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~-----~~c-------------~--~~~---------------D 52 (177)
+|+++|+||||||++.|++||||+++||+| |.... ..+ . ... .
T Consensus 1 ~Y~~~i~iGtP~q~~~v~~DTGSs~~wv~~--~~~~~~Y~dg~~~~G~~~~D~v~~g~~~~~~~~~~Fg~~~~~~~~~~~ 78 (265)
T cd05476 1 EYLVTLSIGTPPQPFSLIVDTGSDLTWTQC--CSYEYSYGDGSSTSGVLATETFTFGDSSVSVPNVAFGCGTDNEGGSFG 78 (265)
T ss_pred CeEEEEecCCCCcceEEEecCCCCCEEEcC--CceEeEeCCCceeeeeEEEEEEEecCCCCccCCEEEEecccccCCccC
Confidence 599999999999999999999999999997 53110 000 0 000 0
Q ss_pred cCCC----------------c--ccc---ccCC--CCCCcEEEEcccCCCCeeeeeeEEecCc----ccceEEEEeEEEE
Q psy3212 53 KFVG----------------H--SHF---RNAS--DENGGEIMFGGVDKDKFVGDITYSPVSR----KGYWQFGVESIKI 105 (177)
Q Consensus 53 ~fdG----------------~--~~F---~~~~--~~~~G~l~fGg~d~~~~~g~l~~~p~~~----~~~w~v~~~~i~v 105 (177)
.++| . ++| +... ....|+|+||++|++ +.|++.|+|+.. ..+|.+++++|++
T Consensus 79 ~~~GIlGLg~~~~s~~~ql~~~~~~Fs~~l~~~~~~~~~G~l~fGg~d~~-~~~~l~~~p~~~~~~~~~~~~v~l~~i~v 157 (265)
T cd05476 79 GADGILGLGRGPLSLVSQLGSTGNKFSYCLVPHDDTGGSSPLILGDAADL-GGSGVVYTPLVKNPANPTYYYVNLEGISV 157 (265)
T ss_pred CCCEEEECCCCcccHHHHhhcccCeeEEEccCCCCCCCCCeEEECCcccc-cCCCceEeecccCCCCCCceEeeeEEEEE
Confidence 2444 1 366 2221 456899999999999 999999999985 4799999999999
Q ss_pred cCeEe----------c-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEEEcCCCCCCCccEEEEEC-CEEEEe
Q psy3212 106 EKNVY----------C-SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAKVDCDNLDKMPNVDIILG-GKNFTL 173 (177)
Q Consensus 106 ~~~~~----------~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~~~C~~~~~~p~l~f~~g-g~~~~l 173 (177)
+++.+ . ....+++||||+++++|++++ |+|+|+|+ ++++.|
T Consensus 158 ~~~~~~~~~~~~~~~~~~~~~ai~DTGTs~~~lp~~~~---------------------------P~i~~~f~~~~~~~i 210 (265)
T cd05476 158 GGKRLPIPPSVFAIDSDGSGGTIIDSGTTLTYLPDPAY---------------------------PDLTLHFDGGADLEL 210 (265)
T ss_pred CCEEecCCchhcccccCCCCcEEEeCCCcceEcCcccc---------------------------CCEEEEECCCCEEEe
Confidence 99865 2 467899999999999998877 89999998 899999
Q ss_pred ccCC
Q psy3212 174 TRTN 177 (177)
Q Consensus 174 ~~~d 177 (177)
++++
T Consensus 211 ~~~~ 214 (265)
T cd05476 211 PPEN 214 (265)
T ss_pred Cccc
Confidence 9875
No 22
>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=99.95 E-value=4e-27 Score=183.15 Aligned_cols=140 Identities=23% Similarity=0.432 Sum_probs=110.1
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCC-CCCCCCCCCCCC---C-----------C--------------------
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQ-HCSILNIACSVD---K-----------D-------------------- 52 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~-~c~~~~~~c~~~---~-----------D-------------------- 52 (177)
+|+++|.||||||++.|++||||+++||+|. .|..+ .|.-. . |
T Consensus 2 ~Y~~~i~iGtP~q~~~v~~DTGS~~~Wv~c~~~c~~c--~c~~~i~Ygd~~~~~G~~~~D~v~~~~~~~~~~~~~~~Fgc 79 (273)
T cd05475 2 YYYVTINIGNPPKPYFLDIDTGSDLTWLQCDAPCTGC--QCDYEIEYADGGSSMGVLVTDIFSLKLTNGSRAKPRIAFGC 79 (273)
T ss_pred ceEEEEEcCCCCeeEEEEEccCCCceEEeCCCCCCCC--cCccEeEeCCCCceEEEEEEEEEEEeecCCCcccCCEEEEe
Confidence 6999999999999999999999999999984 56521 12100 0 1
Q ss_pred -------------cCCC---------------------cccc-ccCCCCCCcEEEEcccCCCCeeeeeeEEecCcc---c
Q psy3212 53 -------------KFVG---------------------HSHF-RNASDENGGEIMFGGVDKDKFVGDITYSPVSRK---G 94 (177)
Q Consensus 53 -------------~fdG---------------------~~~F-~~~~~~~~G~l~fGg~d~~~~~g~l~~~p~~~~---~ 94 (177)
++|| +++| ........|.|+|| |..++.|++.|+|+.++ .
T Consensus 80 ~~~~~~~~~~~~~~~dGIlGLg~~~~s~~~ql~~~~~i~~~Fs~~l~~~~~g~l~~G--~~~~~~g~i~ytpl~~~~~~~ 157 (273)
T cd05475 80 GYDQQGPLLNPPPPTDGILGLGRGKISLPSQLASQGIIKNVIGHCLSSNGGGFLFFG--DDLVPSSGVTWTPMRRESQKK 157 (273)
T ss_pred eeccCCcccCCCccCCEEEECCCCCCCHHHHHHhcCCcCceEEEEccCCCCeEEEEC--CCCCCCCCeeecccccCCCCC
Confidence 2334 2456 11122446899998 45667899999999864 7
Q ss_pred ceEEEEeEEEEcCeEec-CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEEEcCCCCCCCccEEEEECC----E
Q psy3212 95 YWQFGVESIKIEKNVYC-SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAKVDCDNLDKMPNVDIILGG----K 169 (177)
Q Consensus 95 ~w~v~~~~i~v~~~~~~-~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~~~C~~~~~~p~l~f~~gg----~ 169 (177)
+|.|++.+|+||++... ....+++||||+++++|++++ +|+|+|+|++ +
T Consensus 158 ~y~v~l~~i~vg~~~~~~~~~~~ivDTGTt~t~lp~~~y--------------------------~p~i~~~f~~~~~~~ 211 (273)
T cd05475 158 HYSPGPASLLFNGQPTGGKGLEVVFDSGSSYTYFNAQAY--------------------------FKPLTLKFGKGWRTR 211 (273)
T ss_pred eEEEeEeEEEECCEECcCCCceEEEECCCceEEcCCccc--------------------------cccEEEEECCCCcee
Confidence 99999999999998766 778899999999999998865 6899999987 7
Q ss_pred EEEeccCC
Q psy3212 170 NFTLTRTN 177 (177)
Q Consensus 170 ~~~l~~~d 177 (177)
+++|+|++
T Consensus 212 ~~~l~~~~ 219 (273)
T cd05475 212 LLEIPPEN 219 (273)
T ss_pred EEEeCCCc
Confidence 99999975
No 23
>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=99.90 E-value=1.3e-22 Score=163.44 Aligned_cols=112 Identities=20% Similarity=0.274 Sum_probs=88.0
Q ss_pred CCCcEEEEcccCCCCee------eeeeEEecCcc----cceEEEEeEEEEcCeEec-----------CCcEEEEeCCCCc
Q psy3212 66 ENGGEIMFGGVDKDKFV------GDITYSPVSRK----GYWQFGVESIKIEKNVYC-----------SNCQAIADTGTSL 124 (177)
Q Consensus 66 ~~~G~l~fGg~d~~~~~------g~l~~~p~~~~----~~w~v~~~~i~v~~~~~~-----------~~~~ai~DSGt~~ 124 (177)
...|.|+||+.++.++. +.+.|+|+..+ .+|.|++++|+||++.+. ....++|||||++
T Consensus 161 ~~~g~l~fG~~~~~~~~~~~~~~~~~~~tPl~~~~~~~~~Y~v~l~~IsVg~~~l~~~~~~~~~~~~~~~g~iiDSGTs~ 240 (362)
T cd05489 161 GGPGVAIFGGGPYYLFPPPIDLSKSLSYTPLLTNPRKSGEYYIGVTSIAVNGHAVPLNPTLSANDRLGPGGVKLSTVVPY 240 (362)
T ss_pred CCCeeEEECCCchhcccccccccCCccccccccCCCCCCceEEEEEEEEECCEECCCCchhccccccCCCcEEEecCCce
Confidence 45899999999988774 78999999854 799999999999998653 1357999999999
Q ss_pred EEeCHHHHHHHHHHhCCccCCCCC------EEEcCCC---------CCCCccEEEEECC--EEEEeccCC
Q psy3212 125 IIGPSKVIAELNKLIGAVPLANGP------AKVDCDN---------LDKMPNVDIILGG--KNFTLTRTN 177 (177)
Q Consensus 125 ~~lP~~~~~~l~~~~~~~~~~~g~------~~~~C~~---------~~~~p~l~f~~gg--~~~~l~~~d 177 (177)
++||.++|++|.+++.++....+. +.-.|.. ...+|+|+|+|+| ++++|+|++
T Consensus 241 t~lp~~~y~~l~~a~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~P~it~~f~g~g~~~~l~~~n 310 (362)
T cd05489 241 TVLRSDIYRAFTQAFAKATARIPRVPAAAVFPELCYPASALGNTRLGYAVPAIDLVLDGGGVNWTIFGAN 310 (362)
T ss_pred EEECHHHHHHHHHHHHHHhcccCcCCCCCCCcCccccCCCcCCcccccccceEEEEEeCCCeEEEEcCCc
Confidence 999999999999888654111111 0013432 3579999999976 999999985
No 24
>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=99.24 E-value=1e-11 Score=83.45 Aligned_cols=31 Identities=61% Similarity=1.173 Sum_probs=29.6
Q ss_pred EEEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 11 GTISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 11 ~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
++|.||||||++.|+|||||+++||+|..|.
T Consensus 1 ~~i~vGtP~q~~~~~~DTGSs~~Wv~~~~c~ 31 (109)
T cd05470 1 IEIGIGTPPQTFNVLLDTGSSNLWVPSVDCQ 31 (109)
T ss_pred CEEEeCCCCceEEEEEeCCCCCEEEeCCCCC
Confidence 4799999999999999999999999999997
No 25
>PF14541 TAXi_C: Xylanase inhibitor C-terminal; PDB: 3AUP_D 3HD8_A 1T6G_A 1T6E_X 2B42_A 3VLB_A 3VLA_A.
Probab=99.07 E-value=3.7e-10 Score=81.29 Aligned_cols=83 Identities=19% Similarity=0.295 Sum_probs=58.6
Q ss_pred ceEEEEeEEEEcCeEec---C-------CcEEEEeCCCCcEEeCHHHHHHHHHHhCCc-cCC--------CC----CEEE
Q psy3212 95 YWQFGVESIKIEKNVYC---S-------NCQAIADTGTSLIIGPSKVIAELNKLIGAV-PLA--------NG----PAKV 151 (177)
Q Consensus 95 ~w~v~~~~i~v~~~~~~---~-------~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~-~~~--------~g----~~~~ 151 (177)
+|.|++.+|+||++.+. . ...++|||||++++||+++|+++.+++.++ ... .. -|..
T Consensus 1 ~Y~v~l~~Isvg~~~l~~~~~~~~~~~~~g~~iiDSGT~~T~L~~~~y~~l~~al~~~~~~~~~~~~~~~~~~~~~Cy~~ 80 (161)
T PF14541_consen 1 FYYVNLTGISVGGKRLPIPPSVFQLSDGSGGTIIDSGTTYTYLPPPVYDALVQALDAQMGAPGVSREAPPFSGFDLCYNL 80 (161)
T ss_dssp SEEEEEEEEEETTEEE---TTCSCETTSTCSEEE-SSSSSEEEEHHHHHHHHHHHHHHHHTCT--CEE---TT-S-EEEG
T ss_pred CccEEEEEEEECCEEecCChHHhhccCCCCCEEEECCCCccCCcHHHHHHHHHHHHHHhhhcccccccccCCCCCceeec
Confidence 47899999999999765 2 357999999999999999999999998544 110 11 1333
Q ss_pred cC----CCCCCCccEEEEEC-CEEEEeccCC
Q psy3212 152 DC----DNLDKMPNVDIILG-GKNFTLTRTN 177 (177)
Q Consensus 152 ~C----~~~~~~p~l~f~~g-g~~~~l~~~d 177 (177)
+. .....+|+|+|+|. |++++|+|++
T Consensus 81 ~~~~~~~~~~~~P~i~l~F~~ga~l~l~~~~ 111 (161)
T PF14541_consen 81 SSFGVNRDWAKFPTITLHFEGGADLTLPPEN 111 (161)
T ss_dssp GCS-EETTEESS--EEEEETTSEEEEE-HHH
T ss_pred cccccccccccCCeEEEEEeCCcceeeeccc
Confidence 33 12247899999998 7999999863
No 26
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=98.83 E-value=3e-09 Score=76.82 Aligned_cols=29 Identities=48% Similarity=1.032 Sum_probs=27.5
Q ss_pred EEEEEEeCCCCceEEEEEecCCCceEEeC
Q psy3212 9 YYGTISLGTPPQEFKVIFDTGSSNLWIPS 37 (177)
Q Consensus 9 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~ 37 (177)
|+++|.||||+|++.|++||||+++|++|
T Consensus 1 Y~~~~~iGtP~~~~~lvvDtgs~l~W~~C 29 (164)
T PF14543_consen 1 YYVSVSIGTPPQPFSLVVDTGSDLTWVQC 29 (164)
T ss_dssp EEEEEECTCTTEEEEEEEETT-SSEEEET
T ss_pred CEEEEEeCCCCceEEEEEECCCCceEEcC
Confidence 89999999999999999999999999998
No 27
>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=97.01 E-value=0.0011 Score=42.63 Aligned_cols=30 Identities=20% Similarity=0.403 Sum_probs=26.9
Q ss_pred eEEEEEEeCCCCceEEEEEecCCCceEEeCCC
Q psy3212 8 QYYGTISLGTPPQEFKVIFDTGSSNLWIPSQH 39 (177)
Q Consensus 8 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~ 39 (177)
.|++++.|+ ++++++++|||++.+|+....
T Consensus 2 ~~~v~v~i~--~~~~~~llDTGa~~s~i~~~~ 31 (96)
T cd05483 2 HFVVPVTIN--GQPVRFLLDTGASTTVISEEL 31 (96)
T ss_pred cEEEEEEEC--CEEEEEEEECCCCcEEcCHHH
Confidence 589999999 699999999999999998653
No 28
>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=95.71 E-value=0.014 Score=37.53 Aligned_cols=31 Identities=23% Similarity=0.194 Sum_probs=26.8
Q ss_pred EEEEEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 9 YYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 9 y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
|++.+.|+ ++++.+++||||+..++....+.
T Consensus 1 ~~~~~~In--g~~i~~lvDTGA~~svis~~~~~ 31 (91)
T cd05484 1 KTVTLLVN--GKPLKFQLDTGSAITVISEKTWR 31 (91)
T ss_pred CEEEEEEC--CEEEEEEEcCCcceEEeCHHHHH
Confidence 57889999 59999999999999999876654
No 29
>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=95.04 E-value=0.042 Score=37.52 Aligned_cols=34 Identities=15% Similarity=0.379 Sum_probs=28.9
Q ss_pred cccCceEEEEEEeCCCCceEEEEEecCCCceEEeCC
Q psy3212 3 SSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQ 38 (177)
Q Consensus 3 ~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~ 38 (177)
...+..|++++.|. ++++.++||||++.+-+...
T Consensus 6 ~~~~g~~~v~~~In--G~~~~flVDTGAs~t~is~~ 39 (121)
T TIGR02281 6 KDGDGHFYATGRVN--GRNVRFLVDTGATSVALNEE 39 (121)
T ss_pred EcCCCeEEEEEEEC--CEEEEEEEECCCCcEEcCHH
Confidence 34678899999998 58999999999999988644
No 30
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=94.60 E-value=0.09 Score=32.36 Aligned_cols=36 Identities=22% Similarity=0.395 Sum_probs=30.6
Q ss_pred ccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 4 SYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 4 ~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
.....+++.+.||. +.+.+++||||+..+|....+.
T Consensus 4 ~~~g~~~v~~~I~g--~~~~alvDtGat~~fis~~~a~ 39 (72)
T PF13975_consen 4 PDPGLMYVPVSIGG--VQVKALVDTGATHNFISESLAK 39 (72)
T ss_pred ccCCEEEEEEEECC--EEEEEEEeCCCcceecCHHHHH
Confidence 45678999999995 9999999999999999866544
No 31
>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=94.54 E-value=0.14 Score=34.93 Aligned_cols=37 Identities=14% Similarity=0.140 Sum_probs=29.7
Q ss_pred cccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 92 RKGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 92 ~~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
..+++.+. +++||+.+ .+++|||++.+.++.+.++++
T Consensus 8 ~~g~~~v~---~~InG~~~----~flVDTGAs~t~is~~~A~~L 44 (121)
T TIGR02281 8 GDGHFYAT---GRVNGRNV----RFLVDTGATSVALNEEDAQRL 44 (121)
T ss_pred CCCeEEEE---EEECCEEE----EEEEECCCCcEEcCHHHHHHc
Confidence 45566555 67788744 699999999999999999887
No 32
>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=94.46 E-value=0.22 Score=31.91 Aligned_cols=64 Identities=22% Similarity=0.271 Sum_probs=39.5
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHHHHHh-CCc----cCCCCCEEEcCCCCCCCccEEEEECCEEEEec
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAELNKLI-GAV----PLANGPAKVDCDNLDKMPNVDIILGGKNFTLT 174 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l~~~~-~~~----~~~~g~~~~~C~~~~~~p~l~f~~gg~~~~l~ 174 (177)
+.|+|+.+ .+++|||++.+.++.+.+.++.... ... ...+|. .+.|. ... .+.+++++.++.++
T Consensus 5 ~~Ing~~i----~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~-~~~~~--G~~-~~~v~~~~~~~~~~ 73 (91)
T cd05484 5 LLVNGKPL----KFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGT-KLSVL--GQI-LVTVKYGGKTKVLT 73 (91)
T ss_pred EEECCEEE----EEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCC-EeeEe--EEE-EEEEEECCEEEEEE
Confidence 67777755 5999999999999999998774332 111 111222 12222 112 46777888766553
No 33
>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=93.23 E-value=0.21 Score=32.45 Aligned_cols=30 Identities=23% Similarity=0.421 Sum_probs=25.0
Q ss_pred EEEEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 10 YGTISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 10 ~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
+.+|.|.. +++++++||||+..-+....+.
T Consensus 7 ~i~v~i~g--~~i~~LlDTGA~vsiI~~~~~~ 36 (100)
T PF00077_consen 7 YITVKING--KKIKALLDTGADVSIISEKDWK 36 (100)
T ss_dssp EEEEEETT--EEEEEEEETTBSSEEESSGGSS
T ss_pred eEEEeECC--EEEEEEEecCCCcceecccccc
Confidence 46788884 8999999999999999876654
No 34
>PF13650 Asp_protease_2: Aspartyl protease
Probab=93.20 E-value=0.18 Score=31.65 Aligned_cols=29 Identities=21% Similarity=0.353 Sum_probs=24.2
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
++++++.+ .+++|||++.+.++++.++++
T Consensus 3 v~vng~~~----~~liDTGa~~~~i~~~~~~~l 31 (90)
T PF13650_consen 3 VKVNGKPV----RFLIDTGASISVISRSLAKKL 31 (90)
T ss_pred EEECCEEE----EEEEcCCCCcEEECHHHHHHc
Confidence 56666544 699999999999999999887
No 35
>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=92.50 E-value=0.44 Score=30.24 Aligned_cols=30 Identities=20% Similarity=0.296 Sum_probs=24.4
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHHH
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAELN 136 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l~ 136 (177)
+.++++.+ .+++|||++.+.++.+.++.+.
T Consensus 7 v~i~~~~~----~~llDTGa~~s~i~~~~~~~l~ 36 (96)
T cd05483 7 VTINGQPV----RFLLDTGASTTVISEELAERLG 36 (96)
T ss_pred EEECCEEE----EEEEECCCCcEEcCHHHHHHcC
Confidence 66776544 5999999999999998887763
No 36
>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=92.39 E-value=0.27 Score=33.55 Aligned_cols=34 Identities=12% Similarity=0.198 Sum_probs=28.0
Q ss_pred CceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 6 QAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 6 ~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
...+++++.|+ ++++++++|||++..++....+.
T Consensus 14 ~~~~~v~~~In--g~~~~~LvDTGAs~s~Is~~~a~ 47 (124)
T cd05479 14 VPMLYINVEIN--GVPVKAFVDSGAQMTIMSKACAE 47 (124)
T ss_pred eeEEEEEEEEC--CEEEEEEEeCCCceEEeCHHHHH
Confidence 45689999999 58999999999999998755443
No 37
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=92.37 E-value=0.35 Score=29.68 Aligned_cols=29 Identities=21% Similarity=0.240 Sum_probs=24.7
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
+.+++..+ .+++|||++..+++.+.++.+
T Consensus 13 ~~I~g~~~----~alvDtGat~~fis~~~a~rL 41 (72)
T PF13975_consen 13 VSIGGVQV----KALVDTGATHNFISESLAKRL 41 (72)
T ss_pred EEECCEEE----EEEEeCCCcceecCHHHHHHh
Confidence 66777655 499999999999999999887
No 38
>PF13650 Asp_protease_2: Aspartyl protease
Probab=91.63 E-value=0.25 Score=31.05 Aligned_cols=28 Identities=18% Similarity=0.291 Sum_probs=22.1
Q ss_pred EEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 12 TISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 12 ~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
++.|+ .+++++++|||++...+....+.
T Consensus 2 ~v~vn--g~~~~~liDTGa~~~~i~~~~~~ 29 (90)
T PF13650_consen 2 PVKVN--GKPVRFLIDTGASISVISRSLAK 29 (90)
T ss_pred EEEEC--CEEEEEEEcCCCCcEEECHHHHH
Confidence 57777 48999999999998888655443
No 39
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=89.73 E-value=0.73 Score=29.21 Aligned_cols=29 Identities=21% Similarity=0.166 Sum_probs=24.2
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
+.+||+.+ ..++|||++.+.++++.++.+
T Consensus 3 v~InG~~~----~fLvDTGA~~tii~~~~a~~~ 31 (86)
T cd06095 3 ITVEGVPI----VFLVDTGATHSVLKSDLGPKQ 31 (86)
T ss_pred EEECCEEE----EEEEECCCCeEEECHHHhhhc
Confidence 55666654 599999999999999999886
No 40
>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=89.08 E-value=0.89 Score=30.99 Aligned_cols=29 Identities=17% Similarity=0.269 Sum_probs=24.1
Q ss_pred EEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 103 IKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 103 i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
+.+++..+ .+++|||++.+.++++.++++
T Consensus 21 ~~Ing~~~----~~LvDTGAs~s~Is~~~a~~l 49 (124)
T cd05479 21 VEINGVPV----KAFVDSGAQMTIMSKACAEKC 49 (124)
T ss_pred EEECCEEE----EEEEeCCCceEEeCHHHHHHc
Confidence 56666644 599999999999999999875
No 41
>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=88.64 E-value=0.45 Score=30.19 Aligned_cols=28 Identities=21% Similarity=0.268 Sum_probs=22.9
Q ss_pred EEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 12 TISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 12 ~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
.+.|. ++++++++|||++.+-+....+.
T Consensus 2 ~v~In--G~~~~fLvDTGA~~tii~~~~a~ 29 (86)
T cd06095 2 TITVE--GVPIVFLVDTGATHSVLKSDLGP 29 (86)
T ss_pred EEEEC--CEEEEEEEECCCCeEEECHHHhh
Confidence 35665 58999999999999999876654
No 42
>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=87.16 E-value=0.93 Score=32.60 Aligned_cols=30 Identities=30% Similarity=0.460 Sum_probs=25.0
Q ss_pred EEEEEeCCCCceEEEEEecCCCceEEeCCC
Q psy3212 10 YGTISLGTPPQEFKVIFDTGSSNLWIPSQH 39 (177)
Q Consensus 10 ~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~ 39 (177)
.+.+.++.-..++++++||||...++....
T Consensus 34 T~~v~l~~~~t~i~vLfDSGSPTSfIr~di 63 (177)
T PF12384_consen 34 TAIVQLNCKGTPIKVLFDSGSPTSFIRSDI 63 (177)
T ss_pred EEEEEEeecCcEEEEEEeCCCccceeehhh
Confidence 456777777899999999999999997653
No 43
>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=86.98 E-value=1.2 Score=28.64 Aligned_cols=28 Identities=21% Similarity=0.331 Sum_probs=22.8
Q ss_pred EEEeCCCCceEEEEEecCCCceEEeCCCCC
Q psy3212 12 TISLGTPPQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 12 ~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
.+.|+ +|.+++++|||+.++-+......
T Consensus 2 ~~~i~--g~~~~~llDTGAd~Tvi~~~~~p 29 (87)
T cd05482 2 TLYIN--GKLFEGLLDTGADVSIIAENDWP 29 (87)
T ss_pred EEEEC--CEEEEEEEccCCCCeEEcccccC
Confidence 45677 69999999999999999865543
No 44
>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=83.72 E-value=1.3 Score=29.46 Aligned_cols=23 Identities=30% Similarity=0.540 Sum_probs=19.7
Q ss_pred CcEEEEeCCCCcEE-eCHHHHHHH
Q psy3212 113 NCQAIADTGTSLII-GPSKVIAEL 135 (177)
Q Consensus 113 ~~~ai~DSGt~~~~-lP~~~~~~l 135 (177)
.-.+++|||.+... +|.++++++
T Consensus 16 ~v~~LVDTGat~~~~l~~~~a~~l 39 (107)
T TIGR03698 16 EVRALVDTGFSGFLLVPPDIVNKL 39 (107)
T ss_pred EEEEEEECCCCeEEecCHHHHHHc
Confidence 45699999999886 999999886
No 45
>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=83.25 E-value=2.3 Score=29.22 Aligned_cols=30 Identities=23% Similarity=0.200 Sum_probs=24.1
Q ss_pred EEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 102 SIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 102 ~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
.+++||+.+ .|++|||+..+.++.+.++++
T Consensus 28 ~~~ing~~v----kA~VDtGAQ~tims~~~a~r~ 57 (124)
T PF09668_consen 28 NCKINGVPV----KAFVDTGAQSTIMSKSCAERC 57 (124)
T ss_dssp EEEETTEEE----EEEEETT-SS-EEEHHHHHHT
T ss_pred EEEECCEEE----EEEEeCCCCccccCHHHHHHc
Confidence 377888766 599999999999999999985
No 46
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=82.51 E-value=4.1 Score=30.43 Aligned_cols=36 Identities=14% Similarity=0.198 Sum_probs=28.3
Q ss_pred ccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 93 KGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 93 ~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
++|+.++ ..|||+.+ ..++|||.+.+.++.+..+.+
T Consensus 103 ~GHF~a~---~~VNGk~v----~fLVDTGATsVal~~~dA~Rl 138 (215)
T COG3577 103 DGHFEAN---GRVNGKKV----DFLVDTGATSVALNEEDARRL 138 (215)
T ss_pred CCcEEEE---EEECCEEE----EEEEecCcceeecCHHHHHHh
Confidence 4444444 77888766 499999999999999998776
No 47
>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=81.41 E-value=1.8 Score=27.88 Aligned_cols=30 Identities=30% Similarity=0.377 Sum_probs=23.0
Q ss_pred EEEEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 102 SIKIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 102 ~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
.+.++++.+ .+++|||+..+.++.+.+...
T Consensus 9 ~v~i~g~~i----~~LlDTGA~vsiI~~~~~~~~ 38 (100)
T PF00077_consen 9 TVKINGKKI----KALLDTGADVSIISEKDWKKL 38 (100)
T ss_dssp EEEETTEEE----EEEEETTBSSEEESSGGSSST
T ss_pred EEeECCEEE----EEEEecCCCcceecccccccc
Confidence 366777655 599999999999998765443
No 48
>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=80.03 E-value=2.8 Score=27.09 Aligned_cols=24 Identities=21% Similarity=0.279 Sum_probs=21.2
Q ss_pred CcEEEEeCCCCcEEeCHHHHHHHH
Q psy3212 113 NCQAIADTGTSLIIGPSKVIAELN 136 (177)
Q Consensus 113 ~~~ai~DSGt~~~~lP~~~~~~l~ 136 (177)
...+.+|||++...+|...++.+.
T Consensus 10 ~v~~~vDtGA~vnllp~~~~~~l~ 33 (93)
T cd05481 10 SVKFQLDTGATCNVLPLRWLKSLT 33 (93)
T ss_pred eEEEEEecCCEEEeccHHHHhhhc
Confidence 346899999999999999999886
No 49
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=79.90 E-value=1.8 Score=29.61 Aligned_cols=23 Identities=26% Similarity=0.481 Sum_probs=19.8
Q ss_pred EEEEeCCCC-cEEeCHHHHHHHHH
Q psy3212 115 QAIADTGTS-LIIGPSKVIAELNK 137 (177)
Q Consensus 115 ~ai~DSGt~-~~~lP~~~~~~l~~ 137 (177)
..++|||.+ ++.+|+++++++-.
T Consensus 28 ~~LiDTGFtg~lvlp~~vaek~~~ 51 (125)
T COG5550 28 DELIDTGFTGYLVLPPQVAEKLGL 51 (125)
T ss_pred eeEEecCCceeEEeCHHHHHhcCC
Confidence 348999999 99999999998843
No 50
>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=77.82 E-value=19 Score=24.96 Aligned_cols=58 Identities=19% Similarity=0.374 Sum_probs=36.7
Q ss_pred CcEEEEeCCCCcEEeCHHHHHHHHHHhCC-c----cCCCCCEEEcCCCCCCCccEEEEECCEEEEe
Q psy3212 113 NCQAIADTGTSLIIGPSKVIAELNKLIGA-V----PLANGPAKVDCDNLDKMPNVDIILGGKNFTL 173 (177)
Q Consensus 113 ~~~ai~DSGt~~~~lP~~~~~~l~~~~~~-~----~~~~g~~~~~C~~~~~~p~l~f~~gg~~~~l 173 (177)
...+++|||++-.++..+.+..+.-.+.. . -...|. .+.|. ...+.+.+.++|.++..
T Consensus 32 ~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~~g~-~~~~~--~~~~~~~~~i~g~~~~~ 94 (135)
T PF08284_consen 32 PASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSAPGG-SINCE--GVCPDVPLSIQGHEFVV 94 (135)
T ss_pred EEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEecccc-ccccc--ceeeeEEEEECCeEEEe
Confidence 44699999999999999988765322211 0 011222 24455 34567888888877654
No 51
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=74.16 E-value=5.4 Score=29.84 Aligned_cols=76 Identities=14% Similarity=0.213 Sum_probs=50.9
Q ss_pred cccCceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCCCcCCCccccccCCCCCCcEEEEcccCCCCee
Q psy3212 3 SSYQAQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDKDKFVGHSHFRNASDENGGEIMFGGVDKDKFV 82 (177)
Q Consensus 3 ~~~~~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~D~fdG~~~F~~~~~~~~G~l~fGg~d~~~~~ 82 (177)
.-.+..|.++.+|- +|+++.++|||-+..-+...... + + |+|.....
T Consensus 100 k~~~GHF~a~~~VN--Gk~v~fLVDTGATsVal~~~dA~----------------------------R--l-Gid~~~l~ 146 (215)
T COG3577 100 KSRDGHFEANGRVN--GKKVDFLVDTGATSVALNEEDAR----------------------------R--L-GIDLNSLD 146 (215)
T ss_pred ecCCCcEEEEEEEC--CEEEEEEEecCcceeecCHHHHH----------------------------H--h-CCCccccC
Confidence 34678899999998 69999999999999888765443 0 1 22333221
Q ss_pred eeeeEEecC-cccceEEEEeEEEEcCeEec
Q psy3212 83 GDITYSPVS-RKGYWQFGVESIKIEKNVYC 111 (177)
Q Consensus 83 g~l~~~p~~-~~~~w~v~~~~i~v~~~~~~ 111 (177)
-++...-.+ +...|.|.++.++||+-.+.
T Consensus 147 y~~~v~TANG~~~AA~V~Ld~v~IG~I~~~ 176 (215)
T COG3577 147 YTITVSTANGRARAAPVTLDRVQIGGIRVK 176 (215)
T ss_pred CceEEEccCCccccceEEeeeEEEccEEEc
Confidence 111111111 34579999999999997665
No 52
>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=71.03 E-value=6.5 Score=26.03 Aligned_cols=26 Identities=31% Similarity=0.597 Sum_probs=20.1
Q ss_pred EEEEeCCCCc----eEEEEEecCCCceE-Ee
Q psy3212 11 GTISLGTPPQ----EFKVIFDTGSSNLW-IP 36 (177)
Q Consensus 11 ~~i~iGtP~q----~~~v~~DTGS~~~w-v~ 36 (177)
++|.|..|.| +..+++|||.+..- ++
T Consensus 2 ~~v~~~~p~~~~~~~v~~LVDTGat~~~~l~ 32 (107)
T TIGR03698 2 LDVELSNPKNPEFMEVRALVDTGFSGFLLVP 32 (107)
T ss_pred EEEEEeCCCCCCceEEEEEEECCCCeEEecC
Confidence 5788888833 67899999999775 44
No 53
>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=68.08 E-value=9.4 Score=26.48 Aligned_cols=30 Identities=23% Similarity=0.399 Sum_probs=24.8
Q ss_pred ceEEEEEEeCCCCceEEEEEecCCCceEEeCC
Q psy3212 7 AQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQ 38 (177)
Q Consensus 7 ~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~ 38 (177)
..-.+.+.|.+ ++..+++|+|++..+|...
T Consensus 20 ~vi~g~~~I~~--~~~~vLiDSGAThsFIs~~ 49 (135)
T PF08284_consen 20 DVITGTFLINS--IPASVLIDSGATHSFISSS 49 (135)
T ss_pred CeEEEEEEecc--EEEEEEEecCCCcEEccHH
Confidence 34567788886 8999999999999999754
No 54
>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Ty3 is a gypsy-type, retrovirus-like, element found in the budding yeast. The Ty3 aspartyl protease is required for processing of the viral polyprotein into its mature species [].
Probab=67.78 E-value=27 Score=25.33 Aligned_cols=59 Identities=15% Similarity=0.287 Sum_probs=39.7
Q ss_pred CCcEEEEeCCCCcEEeCHHHHHHHHHHh-CCcc-----CCCCCEEEcCCCCCCCccEEEEECCEEEEec
Q psy3212 112 SNCQAIADTGTSLIIGPSKVIAELNKLI-GAVP-----LANGPAKVDCDNLDKMPNVDIILGGKNFTLT 174 (177)
Q Consensus 112 ~~~~ai~DSGt~~~~lP~~~~~~l~~~~-~~~~-----~~~g~~~~~C~~~~~~p~l~f~~gg~~~~l~ 174 (177)
....++||||++..++-.++.+.|.-.. .+.. ...+... -|+. .-.|.|.+++..++++
T Consensus 44 t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~~~~-~tsE---Av~ld~~i~n~~i~i~ 108 (177)
T PF12384_consen 44 TPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSGESA-TTSE---AVTLDFYIDNKLIDIA 108 (177)
T ss_pred cEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccCCce-EEEE---eEEEEEEECCeEEEEE
Confidence 4557999999999999999998884333 2221 1122222 2663 3478899999888875
No 55
>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=65.83 E-value=14 Score=25.39 Aligned_cols=67 Identities=18% Similarity=0.288 Sum_probs=34.8
Q ss_pred ceEEEEEEeCCCCceEEEEEecCCCceEEeCCCCCCCCCCCCCCCCcCCCccccccCCCCCCcEEEEcccCCCCeeeeee
Q psy3212 7 AQYYGTISLGTPPQEFKVIFDTGSSNLWIPSQHCSILNIACSVDKDKFVGHSHFRNASDENGGEIMFGGVDKDKFVGDIT 86 (177)
Q Consensus 7 ~~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~c~~~~~~c~~~~D~fdG~~~F~~~~~~~~G~l~fGg~d~~~~~g~l~ 86 (177)
...|.+++|. ++++++.+|||...+-+...-+. .|.-.+ .-+....|. .-|+-..+..|.++
T Consensus 23 ~mLyI~~~in--g~~vkA~VDtGAQ~tims~~~a~----r~gL~~----------lid~r~~g~--a~GvG~~~i~G~Ih 84 (124)
T PF09668_consen 23 SMLYINCKIN--GVPVKAFVDTGAQSTIMSKSCAE----RCGLMR----------LIDKRFAGV--AKGVGTQKILGRIH 84 (124)
T ss_dssp ---EEEEEET--TEEEEEEEETT-SS-EEEHHHHH----HTTGGG----------GEEGGG-EE---------EEEEEEE
T ss_pred ceEEEEEEEC--CEEEEEEEeCCCCccccCHHHHH----HcCChh----------hcccccccc--ccCCCcCceeEEEE
Confidence 4578999999 49999999999999888754333 222110 111122233 23455667778777
Q ss_pred EEecC
Q psy3212 87 YSPVS 91 (177)
Q Consensus 87 ~~p~~ 91 (177)
.+++.
T Consensus 85 ~~~l~ 89 (124)
T PF09668_consen 85 SVQLK 89 (124)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 77765
No 56
>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=64.64 E-value=8.7 Score=28.68 Aligned_cols=58 Identities=21% Similarity=0.259 Sum_probs=32.9
Q ss_pred CcEEEEeCCCCcEE-----eCHHHHHHHHHHhCCccCCCCCEEEcCCCCCCCccEEEEECCEEEEec
Q psy3212 113 NCQAIADTGTSLII-----GPSKVIAELNKLIGAVPLANGPAKVDCDNLDKMPNVDIILGGKNFTLT 174 (177)
Q Consensus 113 ~~~ai~DSGt~~~~-----lP~~~~~~l~~~~~~~~~~~g~~~~~C~~~~~~p~l~f~~gg~~~~l~ 174 (177)
...+++|||++.-. +|.+..+....-+...-..+..-.+. ...+.+.+.+++..|.+|
T Consensus 20 ~~~~~vDTGAt~C~~~~~iiP~e~we~~~~~i~v~~an~~~~~i~----~~~~~~~i~I~~~~F~IP 82 (201)
T PF02160_consen 20 NYHCYVDTGATICCASKKIIPEEYWEKSKKPIKVKGANGSIIQIN----KKAKNGKIQIADKIFRIP 82 (201)
T ss_pred EEEEEEeCCCceEEecCCcCCHHHHHhCCCcEEEEEecCCceEEE----EEecCceEEEccEEEecc
Confidence 44689999999774 55555555543232221112211221 123468888888888876
No 57
>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=63.64 E-value=7.1 Score=25.13 Aligned_cols=22 Identities=18% Similarity=0.415 Sum_probs=19.0
Q ss_pred ceEEEEEecCCCceEEeCCCCC
Q psy3212 20 QEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 20 q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
...+.++|||+...-+|.+.|.
T Consensus 8 s~~~fLVDTGA~vSviP~~~~~ 29 (89)
T cd06094 8 SGLRFLVDTGAAVSVLPASSTK 29 (89)
T ss_pred CCcEEEEeCCCceEeecccccc
Confidence 3568999999999999988776
No 58
>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=55.36 E-value=17 Score=28.10 Aligned_cols=30 Identities=23% Similarity=0.454 Sum_probs=21.4
Q ss_pred EEEEeCCC---CceEEEEEecCCCceEEeCCCC
Q psy3212 11 GTISLGTP---PQEFKVIFDTGSSNLWIPSQHC 40 (177)
Q Consensus 11 ~~i~iGtP---~q~~~v~~DTGS~~~wv~~~~c 40 (177)
..|+||.- .....+++|||++.+.++....
T Consensus 164 ~~i~vg~~~~~~~~~~~ivDTGTt~t~lp~~~y 196 (273)
T cd05475 164 ASLLFNGQPTGGKGLEVVFDSGSSYTYFNAQAY 196 (273)
T ss_pred eEEEECCEECcCCCceEEEECCCceEEcCCccc
Confidence 34678742 2345799999999999986543
No 59
>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=54.11 E-value=8.6 Score=27.35 Aligned_cols=23 Identities=17% Similarity=0.294 Sum_probs=20.2
Q ss_pred CcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 113 NCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 113 ~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
...++||||+...++-+++++.|
T Consensus 12 ~~~~LlDsGSq~SfIt~~la~~L 34 (164)
T PF05585_consen 12 EARALLDSGSQRSFITESLANKL 34 (164)
T ss_pred EEEEEEecCCchhHHhHHHHHHh
Confidence 45789999999999999988887
No 60
>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=53.67 E-value=15 Score=21.45 Aligned_cols=23 Identities=17% Similarity=0.299 Sum_probs=16.9
Q ss_pred EEEeCCCCceEEEEEecCCCceEEe
Q psy3212 12 TISLGTPPQEFKVIFDTGSSNLWIP 36 (177)
Q Consensus 12 ~i~iGtP~q~~~v~~DTGS~~~wv~ 36 (177)
++.++. ..+..++||||...-+.
T Consensus 2 ~~~~~~--~~~~~liDtgs~~~~~~ 24 (92)
T cd00303 2 KGKING--VPVRALVDSGASVNFIS 24 (92)
T ss_pred EEEECC--EEEEEEEcCCCcccccC
Confidence 455654 88899999998866444
No 61
>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=50.99 E-value=24 Score=23.27 Aligned_cols=28 Identities=18% Similarity=0.264 Sum_probs=22.2
Q ss_pred EEcCeEecCCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 104 KIEKNVYCSNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 104 ~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
++||..+ .|.+|||+..+.+..+-.++.
T Consensus 4 k~nG~~v----kAfVDsGaQ~timS~~caerc 31 (103)
T cd05480 4 QCAGKEL----RALVDTGCQYNLISAACLDRL 31 (103)
T ss_pred eECCEEE----EEEEecCCchhhcCHHHHHHc
Confidence 4455444 599999999999999988874
No 62
>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=47.17 E-value=18 Score=28.66 Aligned_cols=26 Identities=27% Similarity=0.339 Sum_probs=19.4
Q ss_pred EEeCCC-----CceEEEEEecCCCceEEeCC
Q psy3212 13 ISLGTP-----PQEFKVIFDTGSSNLWIPSQ 38 (177)
Q Consensus 13 i~iGtP-----~q~~~v~~DTGS~~~wv~~~ 38 (177)
|+||.. .+...+++|||++.++++..
T Consensus 197 i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~ 227 (317)
T cd06098 197 VLIGGKSTGFCAGGCAAIADSGTSLLAGPTT 227 (317)
T ss_pred EEECCEEeeecCCCcEEEEecCCcceeCCHH
Confidence 677752 23457999999999999853
No 63
>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=43.43 E-value=20 Score=28.48 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=21.0
Q ss_pred EEEeCCC------CceEEEEEecCCCceEEeCCCC
Q psy3212 12 TISLGTP------PQEFKVIFDTGSSNLWIPSQHC 40 (177)
Q Consensus 12 ~i~iGtP------~q~~~v~~DTGS~~~wv~~~~c 40 (177)
.|+||.. .....+++|||++.++++....
T Consensus 216 ~i~vg~~~~~~~~~~~~~aivDSGTs~~~lp~~~~ 250 (326)
T cd06096 216 GLSVYGTTSNSGNTKGLGMLVDSGSTLSHFPEDLY 250 (326)
T ss_pred EEEEcccccceecccCCCEEEeCCCCcccCCHHHH
Confidence 3577753 2345689999999999986544
No 64
>PRK15016 isochorismate synthase EntC; Provisional
Probab=42.44 E-value=65 Score=26.73 Aligned_cols=56 Identities=16% Similarity=0.302 Sum_probs=41.6
Q ss_pred cCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHH
Q psy3212 76 VDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNK 137 (177)
Q Consensus 76 ~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~ 137 (177)
.+...|.|.+-|+....++.|.|.+....+.+..+. .+..++-|| -|...++....
T Consensus 322 ~~RG~YaG~vGw~d~~G~ge~~V~IR~a~~~~~~~~l~AGaGIV~~S------~Pe~E~~ET~~ 379 (391)
T PRK15016 322 FDRELFGGIVGWCDSEGNGEWVVTIRCAKLRENQVRLFAGAGIVPAS------SPLGEWRETGV 379 (391)
T ss_pred CCCCceEEEEEEEeCCCCEEEEEEeeEEEEECCEEEEEeCceEECCC------ChHHHHHHHHH
Confidence 355679999999998888899999999999776554 666667666 35555555433
No 65
>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=42.14 E-value=24 Score=27.25 Aligned_cols=30 Identities=23% Similarity=0.455 Sum_probs=21.8
Q ss_pred EEEeCCC----CceEEEEEecCCCceEEeCCCCC
Q psy3212 12 TISLGTP----PQEFKVIFDTGSSNLWIPSQHCS 41 (177)
Q Consensus 12 ~i~iGtP----~q~~~v~~DTGS~~~wv~~~~c~ 41 (177)
.|.||.- .....++||||++.++++...+.
T Consensus 185 ~i~v~~~~~~~~~~~~~iiDSGTs~~~lP~~~~~ 218 (278)
T cd06097 185 SYTVGGDAPWSRSGFSAIADTGTTLILLPDAIVE 218 (278)
T ss_pred eEEECCcceeecCCceEEeecCCchhcCCHHHHH
Confidence 3566642 35667999999999999876543
No 66
>PRK06923 isochorismate synthase DhbC; Validated
Probab=42.11 E-value=66 Score=26.75 Aligned_cols=54 Identities=22% Similarity=0.490 Sum_probs=40.9
Q ss_pred cCCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHH
Q psy3212 76 VDKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAEL 135 (177)
Q Consensus 76 ~d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l 135 (177)
.+...|.|.+-|+....++.|.|.+....+.+..+. .+..++.|| -|...++..
T Consensus 323 ~~RG~YaG~vGw~d~~G~ge~~V~IR~a~v~~~~~~l~AGaGIV~~S------~pe~E~~ET 378 (399)
T PRK06923 323 FDREFFTGMLGWSDLNGDGEWIVTIRCAEVEENTLRLYAGAGVVAES------KPEDELAET 378 (399)
T ss_pred CCCCceEEEEEEEecCCCEEEEEEeeEEEEECCEEEEEecceEECCC------ChHHHHHHH
Confidence 355678999999998878899999999999877655 666677777 355555444
No 67
>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=41.09 E-value=22 Score=27.77 Aligned_cols=17 Identities=29% Similarity=0.493 Sum_probs=14.7
Q ss_pred EEEEecCCCceEEeCCC
Q psy3212 23 KVIFDTGSSNLWIPSQH 39 (177)
Q Consensus 23 ~v~~DTGS~~~wv~~~~ 39 (177)
.+++|||++.+.++..-
T Consensus 173 ~~ivDSGTt~~~lp~~~ 189 (299)
T cd05472 173 GVIIDSGTVITRLPPSA 189 (299)
T ss_pred CeEEeCCCcceecCHHH
Confidence 58999999999998653
No 68
>PTZ00147 plasmepsin-1; Provisional
Probab=40.83 E-value=58 Score=27.50 Aligned_cols=34 Identities=24% Similarity=0.091 Sum_probs=22.8
Q ss_pred ccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHH
Q psy3212 93 KGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKV 131 (177)
Q Consensus 93 ~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~ 131 (177)
+.+|..+ |+||.-. -...+++|||++.+++|...
T Consensus 137 n~~Y~~~---I~IGTP~--Q~f~Vi~DTGSsdlWVps~~ 170 (453)
T PTZ00147 137 NVMSYGE---AKLGDNG--QKFNFIFDTGSANLWVPSIK 170 (453)
T ss_pred CCEEEEE---EEECCCC--eEEEEEEeCCCCcEEEeecC
Confidence 3455443 6666321 24569999999999999654
No 69
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=38.81 E-value=45 Score=26.21 Aligned_cols=28 Identities=32% Similarity=0.405 Sum_probs=23.9
Q ss_pred cCceEEEEEEeCCCCceEEEEEecCCCc
Q psy3212 5 YQAQYYGTISLGTPPQEFKVIFDTGSSN 32 (177)
Q Consensus 5 ~~~~y~~~i~iGtP~q~~~v~~DTGS~~ 32 (177)
.+..|-+++.+|.-..+++.++|||..+
T Consensus 154 ~~~~~~v~i~~~~~~~~~~allDTGN~L 181 (293)
T PF03419_consen 154 KDYLYPVTIEIGGKKIELKALLDTGNQL 181 (293)
T ss_pred CcEEEEEEEEECCEEEEEEEEEECCCcc
Confidence 4667899999998888889999999765
No 70
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA. Members of this protein family are the stage II sporulation protein SpoIIGA. This protein acts as an activating protease for Sigma-E, one of several specialized sigma factors of the sporulation process in Bacillus subtilis and related endospore-forming bacteria.
Probab=36.85 E-value=48 Score=26.14 Aligned_cols=29 Identities=24% Similarity=0.177 Sum_probs=24.9
Q ss_pred ccCceEEEEEEeCCCCceEEEEEecCCCc
Q psy3212 4 SYQAQYYGTISLGTPPQEFKVIFDTGSSN 32 (177)
Q Consensus 4 ~~~~~y~~~i~iGtP~q~~~v~~DTGS~~ 32 (177)
..+..|-++|.++.-..+++.++|||..+
T Consensus 154 ~~~~~~~v~i~~~g~~~~~~alvDTGN~L 182 (288)
T TIGR02854 154 LDKQIYELEICLDGKKVTIKGFLDTGNQL 182 (288)
T ss_pred hhceEEEEEEEECCEEEEEEEEEecCCcc
Confidence 45678999999998888889999999865
No 71
>PTZ00165 aspartyl protease; Provisional
Probab=36.33 E-value=68 Score=27.37 Aligned_cols=36 Identities=22% Similarity=0.191 Sum_probs=25.2
Q ss_pred ccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHHHHH
Q psy3212 93 KGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSKVIA 133 (177)
Q Consensus 93 ~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~~~~ 133 (177)
+..|..+ |.||.-. -...+++|||++.+++|.....
T Consensus 118 d~~Y~~~---I~IGTPp--Q~f~Vv~DTGSS~lWVps~~C~ 153 (482)
T PTZ00165 118 NSQYFGE---IQVGTPP--KSFVVVFDTGSSNLWIPSKECK 153 (482)
T ss_pred CCeEEEE---EEeCCCC--ceEEEEEeCCCCCEEEEchhcC
Confidence 4566554 6676521 2456999999999999986553
No 72
>PF13752 DUF4165: Domain of unknown function (DUF4165)
Probab=36.30 E-value=1.2e+02 Score=20.87 Aligned_cols=41 Identities=20% Similarity=0.180 Sum_probs=31.7
Q ss_pred eeeeeeEEecCcccceEEEEeEEEEcCeEec-CCcEEEEeCC
Q psy3212 81 FVGDITYSPVSRKGYWQFGVESIKIEKNVYC-SNCQAIADTG 121 (177)
Q Consensus 81 ~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~-~~~~ai~DSG 121 (177)
|-|+...+|...++.|.+..+=+...+..+. ...+.+||+-
T Consensus 81 fYGk~ltlp~l~dG~ytvk~eiL~s~g~vV~t~s~~~~IDtt 122 (124)
T PF13752_consen 81 FYGKELTLPALGDGTYTVKSEILDSQGTVVQTYSYPFTIDTT 122 (124)
T ss_pred eeeeEEEeccCCCCcEEEEEEeeccCCCEEEeeeEeEEEecc
Confidence 4455556666678889999888888888887 8888999974
No 73
>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=31.10 E-value=46 Score=25.82 Aligned_cols=31 Identities=29% Similarity=0.547 Sum_probs=22.0
Q ss_pred EEEEEeCCC----CceEEEEEecCCCceEEeCCCC
Q psy3212 10 YGTISLGTP----PQEFKVIFDTGSSNLWIPSQHC 40 (177)
Q Consensus 10 ~~~i~iGtP----~q~~~v~~DTGS~~~wv~~~~c 40 (177)
+..|.+|.- .+...+++|||++.+|++...+
T Consensus 184 ~~~i~i~~~~~~~~~~~~~~~Dtgt~~i~lp~~~~ 218 (317)
T PF00026_consen 184 LDSISIGGESVFSSSGQQAILDTGTSYIYLPRSIF 218 (317)
T ss_dssp EEEEEETTEEEEEEEEEEEEEETTBSSEEEEHHHH
T ss_pred cccccccccccccccceeeecccccccccccchhh
Confidence 345667653 1236899999999999997543
No 74
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=29.71 E-value=58 Score=27.48 Aligned_cols=19 Identities=37% Similarity=0.636 Sum_probs=15.7
Q ss_pred ceEEEEEecCCCceEEeCC
Q psy3212 20 QEFKVIFDTGSSNLWIPSQ 38 (177)
Q Consensus 20 q~~~v~~DTGS~~~wv~~~ 38 (177)
+...+++|||++.+++|..
T Consensus 330 ~~~~aIlDSGTSli~lP~~ 348 (450)
T PTZ00013 330 QKANVIVDSGTTTITAPSE 348 (450)
T ss_pred cccceEECCCCccccCCHH
Confidence 3456999999999999864
No 75
>PF11925 DUF3443: Protein of unknown function (DUF3443); InterPro: IPR021847 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 400 to 434 amino acids in length. This protein has two conserved sequence motifs: NPV and DNNG.
Probab=28.47 E-value=1.8e+02 Score=23.99 Aligned_cols=57 Identities=16% Similarity=0.335 Sum_probs=32.0
Q ss_pred CCCCcEEEEcccCCCC---eeeeeeEEecCcccceEEEEeEEEEcCeEecCCcEEEEeCCCCcEEeCHH
Q psy3212 65 DENGGEIMFGGVDKDK---FVGDITYSPVSRKGYWQFGVESIKIEKNVYCSNCQAIADTGTSLIIGPSK 130 (177)
Q Consensus 65 ~~~~G~l~fGg~d~~~---~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~~~~~ai~DSGt~~~~lP~~ 130 (177)
....|.|+|| |.++. ..+........+.++... .+++..+. ...||||+.-.++|..
T Consensus 213 ~SatG~LiFG-IgTQsNN~l~~~~~~~~~~~~G~~tt-----~~~G~t~~---~sf~DSGSNg~fF~d~ 272 (370)
T PF11925_consen 213 ASATGTLIFG-IGTQSNNALPSGATVLTTDSNGDFTT-----TFNGQTYS---ASFFDSGSNGYFFPDS 272 (370)
T ss_pred ccceEEEEEe-cCCcccCcccccceEEeecCCceEEE-----EecCceee---eeeEecCCceeeccCC
Confidence 3567899997 23221 223244455555554222 23333222 2499999999999854
No 76
>TIGR00543 isochor_syn isochorismate synthases. This enzyme interconverts chorismate and isochorismate. In E. coli, different loci encode isochorismate synthases for the pathways of menaquinone biosynthesis and enterobactin biosynthesis (via salicilate) and fail to complement each other. Among isochorismate synthases, the N-terminal domain is poorly conserved.
Probab=25.63 E-value=1.8e+02 Score=23.65 Aligned_cols=56 Identities=16% Similarity=0.269 Sum_probs=41.2
Q ss_pred CCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHH
Q psy3212 77 DKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKL 138 (177)
Q Consensus 77 d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~ 138 (177)
+...|.|.+-|+....++.|.|.+..+.+.+..+. .+..++-|| -|...++.....
T Consensus 286 ~Rg~YaG~vG~i~~~g~~ef~V~IRs~~~~~~~~~l~AGaGIV~~S------~pe~E~~Et~~K 343 (351)
T TIGR00543 286 DRGLYAAPLGWLDGEGNGEFAVGIRSALVEDGQVRLYAGAGIVADS------DPESEWEETELK 343 (351)
T ss_pred CCccEEEEEEEEeCCCCeEEEEEeeEEEEECCEEEEEeeeEEeCCC------ChHHHHHHHHHH
Confidence 45678899999988877889999999999877655 666677776 355555555433
No 77
>TIGR01624 LRP1_Cterm LRP1 C-terminal domain. This model represents a tightly conserved small domain found in LRP1 and related plant proteins. This family also contains a well-conserved putative zinc finger domain (TIGR01623). The rest of the sequence of most members consists of highly divergent, low-complexity sequence.
Probab=24.42 E-value=1.5e+02 Score=16.79 Aligned_cols=22 Identities=32% Similarity=0.673 Sum_probs=16.4
Q ss_pred CceEEEEEEeCCCCceEE-EEEecC
Q psy3212 6 QAQYYGTISLGTPPQEFK-VIFDTG 29 (177)
Q Consensus 6 ~~~y~~~i~iGtP~q~~~-v~~DTG 29 (177)
...|.+.|.|| +..|+ ++.|-|
T Consensus 27 e~aYQt~V~Ig--GHvFkGiLyDqG 49 (50)
T TIGR01624 27 EYAYQATVTIG--GHVFKGFLHDQG 49 (50)
T ss_pred eEEEEEEEEEC--ceEEeeEEeccC
Confidence 46899999999 58887 455544
No 78
>PRK09256 hypothetical protein; Provisional
Probab=23.61 E-value=1.6e+02 Score=20.59 Aligned_cols=48 Identities=15% Similarity=0.053 Sum_probs=33.8
Q ss_pred cCeEec---CCcEEEEeCCCCcEEeCHHHHHHHHHHhCCccCCCCCEEEcCCC
Q psy3212 106 EKNVYC---SNCQAIADTGTSLIIGPSKVIAELNKLIGAVPLANGPAKVDCDN 155 (177)
Q Consensus 106 ~~~~~~---~~~~ai~DSGt~~~~lP~~~~~~l~~~~~~~~~~~g~~~~~C~~ 155 (177)
||+.++ +...+.+|--++ ++|..+-..|...+.......|...+-|+.
T Consensus 26 GGQ~VNKt~SkV~l~~~~~~~--~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~ 76 (138)
T PRK09256 26 GGQNVNKVSTAVELRFDIAAS--SLPEFYKERLLALAGHRITKDGVIVIKAQE 76 (138)
T ss_pred CcccccccceeeEEEechhhc--cCCHHHHHHHHHHhcCcccCCCcEEEEECC
Confidence 555554 344566776655 899999999988776665557777888874
No 79
>KOG1339|consensus
Probab=23.40 E-value=59 Score=26.73 Aligned_cols=21 Identities=24% Similarity=0.400 Sum_probs=17.3
Q ss_pred CcEEEEeCCCCcEEeCHHHHH
Q psy3212 113 NCQAIADTGTSLIIGPSKVIA 133 (177)
Q Consensus 113 ~~~ai~DSGt~~~~lP~~~~~ 133 (177)
...+++|||+..+++|-.-..
T Consensus 59 ~f~v~~DTGS~~lWV~c~~c~ 79 (398)
T KOG1339|consen 59 SFTVVLDTGSDLLWVPCAPCS 79 (398)
T ss_pred eeEEEEeCCCCceeecccccc
Confidence 456999999999999985554
No 80
>PRK07054 salicylate biosynthesis isochorismate synthase; Validated
Probab=21.06 E-value=2.5e+02 Score=24.05 Aligned_cols=57 Identities=18% Similarity=0.292 Sum_probs=41.8
Q ss_pred CCCCeeeeeeEEecCcccceEEEEeEEEEcCeEec--CCcEEEEeCCCCcEEeCHHHHHHHHHHh
Q psy3212 77 DKDKFVGDITYSPVSRKGYWQFGVESIKIEKNVYC--SNCQAIADTGTSLIIGPSKVIAELNKLI 139 (177)
Q Consensus 77 d~~~~~g~l~~~p~~~~~~w~v~~~~i~v~~~~~~--~~~~ai~DSGt~~~~lP~~~~~~l~~~~ 139 (177)
+...|.|.+-|+....++.|.|.+.+..+.++.+. .+..++-|| -|...++.+...+
T Consensus 390 ~RG~YaG~vGwid~~g~~ef~V~IRsa~~~~~~~~l~AGaGIV~~S------~P~~E~~Et~~K~ 448 (475)
T PRK07054 390 DRGWYAAPIGWLDAHGNGDFAVALRSALITGGACRLFAGCGIVADS------EPASEYRETCLKL 448 (475)
T ss_pred CCCceEEEEEEEecCCCEEEEEEEEEEEEECCEEEEEeeeeEECCC------ChHHHHHHHHHHH
Confidence 45678899999988777889999999999877554 666666666 3666665554443
No 81
>PF13854 Kelch_5: Kelch motif
Probab=20.73 E-value=1.5e+02 Score=15.52 Aligned_cols=22 Identities=18% Similarity=0.430 Sum_probs=13.0
Q ss_pred cEEEEcccCC--CCeeeeeeEEec
Q psy3212 69 GEIMFGGVDK--DKFVGDITYSPV 90 (177)
Q Consensus 69 G~l~fGg~d~--~~~~g~l~~~p~ 90 (177)
--++|||.+. ..+..++....+
T Consensus 16 ~iyi~GG~~~~~~~~~~d~~~l~l 39 (42)
T PF13854_consen 16 NIYIFGGYSGNNNSYSNDLYVLDL 39 (42)
T ss_pred EEEEEcCccCCCCCEECcEEEEEC
Confidence 4568999883 444455544443
Done!