Query 045784
Match_columns 90
No_of_seqs 108 out of 747
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 05:28:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045784.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045784hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08284 RVP_2: Retroviral asp 100.0 9.6E-29 2.1E-33 156.6 9.8 89 1-89 21-119 (135)
2 cd05479 RP_DDI RP_DDI; retrope 99.9 1.2E-25 2.5E-30 140.4 10.5 88 1-88 16-113 (124)
3 cd05484 retropepsin_like_LTR_2 99.9 3.6E-22 7.7E-27 118.4 9.3 81 2-84 1-91 (91)
4 PF09668 Asp_protease: Asparty 99.8 2.4E-20 5.3E-25 116.5 9.8 88 1-88 24-121 (124)
5 cd05480 NRIP_C NRIP_C; putativ 99.8 1.8E-18 4E-23 103.8 8.5 85 4-88 1-97 (103)
6 PF13650 Asp_protease_2: Aspar 99.8 1.9E-17 4E-22 96.5 10.3 77 4-82 1-90 (90)
7 TIGR02281 clan_AA_DTGA clan AA 99.7 2.6E-17 5.6E-22 102.5 9.9 86 2-89 12-110 (121)
8 PF00077 RVP: Retroviral aspar 99.7 2.7E-17 5.8E-22 98.4 9.4 83 3-88 7-97 (100)
9 cd05483 retropepsin_like_bacte 99.7 4.5E-16 9.7E-21 91.4 9.6 82 1-84 2-96 (96)
10 cd06095 RP_RTVL_H_like Retrope 99.7 5.8E-16 1.3E-20 91.0 8.7 79 4-84 1-86 (86)
11 cd00303 retropepsin_like Retro 99.6 8.8E-15 1.9E-19 82.0 9.8 81 4-84 1-92 (92)
12 KOG0012 DNA damage inducible p 99.5 2.7E-14 5.8E-19 101.7 6.4 88 1-88 235-332 (380)
13 PF13975 gag-asp_proteas: gag- 99.5 6.3E-14 1.4E-18 80.0 6.0 51 1-51 8-69 (72)
14 PF02160 Peptidase_A3: Caulifl 99.5 2E-13 4.3E-18 91.2 8.9 79 11-89 19-106 (201)
15 TIGR03698 clan_AA_DTGF clan AA 99.5 6.8E-13 1.5E-17 81.0 9.7 75 11-88 15-98 (107)
16 PF12384 Peptidase_A2B: Ty3 tr 99.5 4E-13 8.7E-18 87.1 9.0 87 1-88 34-131 (177)
17 cd06094 RP_Saci_like RP_Saci_l 99.3 5.3E-12 1.2E-16 74.6 7.0 74 11-87 8-88 (89)
18 COG3577 Predicted aspartyl pro 99.3 3.8E-12 8.3E-17 85.1 7.0 85 2-88 106-203 (215)
19 cd05481 retropepsin_like_LTR_1 99.3 4E-11 8.7E-16 71.5 8.7 74 6-81 3-90 (93)
20 cd05482 HIV_retropepsin_like R 98.7 1.7E-07 3.6E-12 55.4 8.5 78 5-84 2-87 (87)
21 COG5550 Predicted aspartyl pro 98.4 1.7E-06 3.6E-11 54.0 6.2 72 13-87 27-107 (125)
22 PF05585 DUF1758: Putative pep 98.3 3E-06 6.6E-11 54.7 6.2 25 10-34 10-34 (164)
23 PF05618 Zn_protease: Putative 97.6 0.00043 9.4E-09 44.1 6.4 77 10-86 14-124 (138)
24 PF12382 Peptidase_A2E: Retrot 97.1 0.0017 3.8E-08 39.5 5.3 63 12-74 47-118 (137)
25 COG4067 Uncharacterized protei 97.1 0.0022 4.7E-08 41.6 5.9 76 11-87 38-148 (162)
26 cd05476 pepsin_A_like_plant Ch 96.2 0.043 9.4E-07 37.6 7.5 71 13-87 177-248 (265)
27 cd06097 Aspergillopepsin_like 95.9 0.0093 2E-07 41.1 3.2 24 11-34 197-220 (278)
28 PF03539 Spuma_A9PTase: Spumav 95.4 0.27 5.8E-06 31.9 8.2 73 8-86 1-83 (163)
29 cd05477 gastricsin Gastricsins 95.4 0.13 2.9E-06 36.1 7.5 75 14-88 203-304 (318)
30 PF00026 Asp: Eukaryotic aspar 95.2 0.063 1.4E-06 37.1 5.4 76 12-87 199-302 (317)
31 cd05478 pepsin_A Pepsin A, asp 95.2 0.16 3.4E-06 35.7 7.4 83 6-88 194-304 (317)
32 cd06096 Plasmepsin_5 Plasmepsi 95.1 0.044 9.5E-07 38.7 4.4 72 11-87 230-308 (326)
33 cd05474 SAP_like SAPs, pepsin- 94.9 0.12 2.5E-06 35.7 6.0 77 11-87 177-280 (295)
34 cd05474 SAP_like SAPs, pepsin- 94.7 0.6 1.3E-05 32.1 9.2 73 3-82 4-80 (295)
35 cd05486 Cathespin_E Cathepsin 94.6 0.21 4.5E-06 35.1 6.8 75 14-88 200-303 (316)
36 PF00026 Asp: Eukaryotic aspar 94.6 0.32 7E-06 33.5 7.7 78 3-83 3-115 (317)
37 PTZ00147 plasmepsin-1; Provisi 94.5 0.34 7.3E-06 36.3 8.0 77 12-88 332-435 (453)
38 PTZ00013 plasmepsin 4 (PM4); P 94.4 0.49 1.1E-05 35.5 8.7 76 4-82 141-251 (450)
39 cd05485 Cathepsin_D_like Cathe 94.4 0.36 7.8E-06 34.2 7.7 76 13-88 211-316 (329)
40 PTZ00147 plasmepsin-1; Provisi 94.4 0.56 1.2E-05 35.2 8.9 76 4-82 142-252 (453)
41 cd06098 phytepsin Phytepsin, a 93.8 0.44 9.5E-06 33.5 7.0 22 13-34 211-232 (317)
42 cd05471 pepsin_like Pepsin-lik 93.3 0.091 2E-06 35.6 2.9 25 10-34 200-224 (283)
43 cd05488 Proteinase_A_fungi Fun 93.3 0.36 7.7E-06 34.0 6.0 75 13-87 206-306 (320)
44 cd06097 Aspergillopepsin_like 92.9 1.3 2.7E-05 30.5 8.1 27 3-29 2-30 (278)
45 cd05487 renin_like Renin stimu 92.5 2.4 5.1E-05 29.9 9.2 26 3-28 10-37 (326)
46 cd05490 Cathepsin_D2 Cathepsin 92.0 0.67 1.5E-05 32.6 6.0 76 13-88 207-312 (325)
47 PTZ00013 plasmepsin 4 (PM4); P 91.5 0.8 1.7E-05 34.4 6.1 76 12-87 331-433 (450)
48 cd05477 gastricsin Gastricsins 91.1 3 6.5E-05 29.2 8.5 26 3-28 5-32 (318)
49 cd05476 pepsin_A_like_plant Ch 91.0 2 4.2E-05 29.4 7.3 75 3-82 3-88 (265)
50 cd05473 beta_secretase_like Be 90.8 3.1 6.7E-05 29.8 8.5 27 3-29 5-33 (364)
51 cd05470 pepsin_retropepsin_lik 90.1 0.31 6.6E-06 28.7 2.4 26 5-30 2-29 (109)
52 cd05472 cnd41_like Chloroplast 89.6 2.9 6.2E-05 29.0 7.3 78 3-82 3-89 (299)
53 cd05488 Proteinase_A_fungi Fun 89.4 5.7 0.00012 27.9 8.7 26 3-28 12-39 (320)
54 cd05486 Cathespin_E Cathepsin 89.4 3.7 8E-05 28.8 7.7 25 4-28 3-29 (316)
55 cd05490 Cathepsin_D2 Cathepsin 89.2 5 0.00011 28.1 8.4 25 3-27 8-34 (325)
56 cd06098 phytepsin Phytepsin, a 89.2 5.1 0.00011 28.1 8.4 26 3-28 12-39 (317)
57 cd05475 nucellin_like Nucellin 88.7 5.9 0.00013 27.2 8.3 41 3-43 4-51 (273)
58 PTZ00165 aspartyl protease; Pr 88.1 2.8 6E-05 31.8 6.7 23 12-34 327-349 (482)
59 cd05478 pepsin_A Pepsin A, asp 88.0 5.9 0.00013 27.7 8.0 26 3-28 12-39 (317)
60 cd05487 renin_like Renin stimu 79.3 8.3 0.00018 27.2 5.8 75 13-87 208-311 (326)
61 cd05472 cnd41_like Chloroplast 78.3 2.2 4.8E-05 29.5 2.6 21 14-34 173-193 (299)
62 KOG3048 Molecular chaperone Pr 74.2 2 4.3E-05 27.8 1.3 27 1-29 72-98 (153)
63 cd05473 beta_secretase_like Be 72.3 4.3 9.2E-05 29.1 2.8 21 14-34 213-233 (364)
64 PF14543 TAXi_N: Xylanase inhi 70.8 7.6 0.00017 24.8 3.5 24 3-26 2-27 (164)
65 cd05485 Cathepsin_D_like Cathe 67.6 9.4 0.0002 27.0 3.7 27 3-29 13-41 (329)
66 PF13856 Gifsy-2: ATP-binding 66.1 24 0.00052 20.6 6.7 21 4-24 22-42 (95)
67 cd06096 Plasmepsin_5 Plasmepsi 66.1 11 0.00024 26.5 3.9 27 3-29 5-33 (326)
68 PF03419 Peptidase_U4: Sporula 64.9 12 0.00025 26.4 3.7 33 2-34 158-201 (293)
69 cd05471 pepsin_like Pepsin-lik 61.7 11 0.00024 25.3 3.1 27 4-30 3-31 (283)
70 TIGR02854 spore_II_GA sigma-E 61.4 17 0.00036 25.7 4.0 33 2-34 159-202 (288)
71 PLN03146 aspartyl protease fam 52.5 22 0.00047 26.4 3.5 25 3-27 86-112 (431)
72 PTZ00165 aspartyl protease; Pr 52.5 22 0.00048 27.0 3.6 27 3-29 122-150 (482)
73 KOG0679 Actin-related protein 52.3 7.3 0.00016 29.1 1.0 21 8-28 150-170 (426)
74 PF14541 TAXi_C: Xylanase inhi 49.2 11 0.00024 23.8 1.4 21 14-34 31-51 (161)
75 cd05489 xylanase_inhibitor_I_l 48.4 17 0.00036 26.3 2.3 21 14-34 231-251 (362)
76 KOG4584 Uncharacterized conser 46.9 15 0.00033 26.7 1.9 22 59-80 196-217 (348)
77 COG0052 RpsB Ribosomal protein 35.1 25 0.00054 24.7 1.4 19 10-28 179-197 (252)
78 KOG1339 Aspartyl protease [Pos 32.7 35 0.00076 24.9 2.0 22 10-31 57-78 (398)
79 cd06407 PB1_NLP A PB1 domain i 31.8 66 0.0014 18.4 2.7 34 2-35 1-34 (82)
80 KOG3101 Esterase D [General fu 31.5 21 0.00046 25.0 0.6 27 8-34 211-237 (283)
81 PRK05449 aspartate alpha-decar 30.2 76 0.0016 20.0 2.9 39 4-47 6-58 (126)
82 PF11925 DUF3443: Protein of u 29.3 66 0.0014 23.9 2.9 26 4-29 246-272 (370)
83 cd06919 Asp_decarbox Aspartate 28.9 85 0.0018 19.4 2.9 39 4-47 5-57 (111)
84 TIGR03711 acc_sec_asp3 accesso 28.8 94 0.002 19.8 3.2 51 37-87 33-92 (135)
85 PF04126 Cyclophil_like: Cyclo 28.3 1.2E+02 0.0026 18.5 3.6 28 2-34 1-29 (120)
86 cd06396 PB1_NBR1 The PB1 domai 28.3 1.2E+02 0.0027 17.5 3.4 33 2-34 1-35 (81)
87 PF00564 PB1: PB1 domain; Int 27.9 1E+02 0.0022 16.8 3.1 34 1-34 1-35 (84)
88 PF04746 DUF575: Protein of un 27.8 27 0.00058 20.9 0.5 12 75-86 28-39 (101)
89 PF14612 Ino80_Iec3: IEC3 subu 27.3 26 0.00055 24.4 0.4 8 81-88 217-224 (232)
90 PF07341 DUF1473: Protein of u 25.3 46 0.001 21.6 1.3 29 53-81 5-33 (163)
91 TIGR00223 panD L-aspartate-alp 25.1 96 0.0021 19.6 2.7 39 4-47 6-58 (126)
92 PF02261 Asp_decarbox: Asparta 23.7 89 0.0019 19.4 2.3 39 4-47 6-58 (116)
93 PF00455 DeoRC: DeoR C termina 23.4 47 0.001 21.2 1.1 21 14-34 22-42 (161)
94 KOG3283 40S ribosomal protein 23.1 1E+02 0.0022 20.6 2.6 58 4-62 46-109 (200)
95 PF08922 DUF1905: Domain of un 22.6 1.4E+02 0.003 16.8 2.9 13 2-14 33-45 (80)
96 CHL00067 rps2 ribosomal protei 22.5 57 0.0012 22.4 1.5 18 10-27 184-201 (230)
97 PRK05299 rpsB 30S ribosomal pr 22.3 57 0.0012 22.8 1.4 19 10-28 180-198 (258)
98 PRK15423 hypoxanthine phosphor 21.9 46 0.00099 21.8 0.9 26 8-33 90-118 (178)
99 PF12264 Waikav_capsid_1: Waik 20.6 1.6E+02 0.0034 19.5 3.1 25 16-40 141-165 (197)
No 1
>PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases.
Probab=99.96 E-value=9.6e-29 Score=156.56 Aligned_cols=89 Identities=33% Similarity=0.567 Sum_probs=79.4
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhhee---------eEEe-cCCCeeeeeceeeeeEEEEeceeEEeeEEEcC
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL---------NVMV-ASGERFSSLGTCLQTLIKLQGVPLIVDFYLLP 70 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l---------~v~~-a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~ 70 (90)
+|+....|+++|+.+||||||||||||+++|+++ .+.+ ++|+...+.+.|..+++.++++.+..+|.|++
T Consensus 21 vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~~g~~~~~~~~~~~~~~~i~g~~~~~dl~vl~ 100 (135)
T PF08284_consen 21 VITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSAPGGSINCEGVCPDVPLSIQGHEFVVDLLVLD 100 (135)
T ss_pred eEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEecccccccccceeeeEEEEECCeEEEeeeEEec
Confidence 3677889999999999999999999999999998 2222 45666777888999999999999999999999
Q ss_pred CCCceEEeCcchhhhcCCC
Q 045784 71 FEGYDVVLDTQWLSTFGLI 89 (90)
Q Consensus 71 ~~~~dvILG~~wL~~~~p~ 89 (90)
+.++|+|||||||++|+|+
T Consensus 101 l~~~DvILGm~WL~~~~~~ 119 (135)
T PF08284_consen 101 LGGYDVILGMDWLKKHNPV 119 (135)
T ss_pred ccceeeEeccchHHhCCCE
Confidence 9999999999999999984
No 2
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=99.93 E-value=1.2e-25 Score=140.39 Aligned_cols=88 Identities=16% Similarity=0.144 Sum_probs=77.8
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhheee----------EEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcC
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKLN----------VMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLP 70 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~----------v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~ 70 (90)
.|+++++|||+++.+|+||||++|||++++|+++. +.+++++.....+.+..+++++++..+..+|.|+|
T Consensus 16 ~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~~~~~l~i~~~~~~~~~~Vl~ 95 (124)
T cd05479 16 MLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRIHLAQVKIGNLFLPCSFTVLE 95 (124)
T ss_pred EEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEEEEEEEEECCEEeeeEEEEEC
Confidence 37899999999999999999999999999999982 34455344566778888899999999999999999
Q ss_pred CCCceEEeCcchhhhcCC
Q 045784 71 FEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 71 ~~~~dvILG~~wL~~~~p 88 (90)
..++|+|||||||++++.
T Consensus 96 ~~~~d~ILG~d~L~~~~~ 113 (124)
T cd05479 96 DDDVDFLIGLDMLKRHQC 113 (124)
T ss_pred CCCcCEEecHHHHHhCCe
Confidence 999999999999999985
No 3
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=99.88 E-value=3.6e-22 Score=118.36 Aligned_cols=81 Identities=21% Similarity=0.296 Sum_probs=75.8
Q ss_pred EEEEEEECCEEEEEEEcCCCCcccccHHhhhee----------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCC
Q 045784 2 IRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL----------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPF 71 (90)
Q Consensus 2 ~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~ 71 (90)
+++++.|||+++.+|+||||++|+|+++.++++ .++.|||+.+.+.|.+ .+++.+++..+..+|+|++.
T Consensus 1 ~~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~-~~~v~~~~~~~~~~~~v~~~ 79 (91)
T cd05484 1 KTVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI-LVTVKYGGKTKVLTLYVVKN 79 (91)
T ss_pred CEEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE-EEEEEECCEEEEEEEEEEEC
Confidence 368999999999999999999999999999877 7889999999999988 78999999999999999999
Q ss_pred CCceEEeCcchhh
Q 045784 72 EGYDVVLDTQWLS 84 (90)
Q Consensus 72 ~~~dvILG~~wL~ 84 (90)
. ++.|||++||.
T Consensus 80 ~-~~~lLG~~wl~ 91 (91)
T cd05484 80 E-GLNLLGRDWLD 91 (91)
T ss_pred C-CCCccChhhcC
Confidence 8 99999999985
No 4
>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 3S8I_A 2I1A_B.
Probab=99.84 E-value=2.4e-20 Score=116.51 Aligned_cols=88 Identities=18% Similarity=0.240 Sum_probs=70.8
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhheeeE---------EecCC-CeeeeeceeeeeEEEEeceeEEeeEEEcC
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKLNV---------MVASG-ERFSSLGTCLQTLIKLQGVPLIVDFYLLP 70 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~v---------~~a~G-~~~~~~~~~~~~~i~i~~~~~~~~~~v~~ 70 (90)
+++|++++||++++|++||||.+|.||+++|+|+++ ..+-| +.....|+++.+++.+++..+++.|.|++
T Consensus 24 mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~~lid~r~~g~a~GvG~~~i~G~Ih~~~l~ig~~~~~~s~~Vle 103 (124)
T PF09668_consen 24 MLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLMRLIDKRFAGVAKGVGTQKILGRIHSVQLKIGGLFFPCSFTVLE 103 (124)
T ss_dssp --EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGGGGEEGGG-EE-------EEEEEEEEEEEEETTEEEEEEEEEET
T ss_pred eEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCChhhccccccccccCCCcCceeEEEEEEEEEECCEEEEEEEEEeC
Confidence 368999999999999999999999999999999811 11222 44567789999999999999999999999
Q ss_pred CCCceEEeCcchhhhcCC
Q 045784 71 FEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 71 ~~~~dvILG~~wL~~~~p 88 (90)
-...|++||.|||++|+-
T Consensus 104 ~~~~d~llGld~L~~~~c 121 (124)
T PF09668_consen 104 DQDVDLLLGLDMLKRHKC 121 (124)
T ss_dssp TSSSSEEEEHHHHHHTT-
T ss_pred CCCcceeeeHHHHHHhCc
Confidence 889999999999999974
No 5
>cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein. Proteins in this family have been described as probable nuclear receptor interacting proteins. The C-terminal domain of this family is homologous to the retroviral aspartyl protease domain. The domain is structurally related to one lobe of the pepsin molecule. The conserved active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=99.78 E-value=1.8e-18 Score=103.77 Aligned_cols=85 Identities=14% Similarity=0.135 Sum_probs=75.0
Q ss_pred EEEEECCEEEEEEEcCCCCcccccHHhhheeeEE----------ecC--CCeeeeeceeeeeEEEEeceeEEeeEEEcCC
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNFVRQELAVKLNVM----------VAS--GERFSSLGTCLQTLIKLQGVPLIVDFYLLPF 71 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~v~----------~a~--G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~ 71 (90)
+.+++||+|++|++||||.++.||+++|+|+.+. .|- |++..+.|+++.+++.+++..+++.|.|++.
T Consensus 1 vnCk~nG~~vkAfVDsGaQ~timS~~caercgL~r~v~~~r~~g~A~gvgt~~kiiGrih~~~ikig~~~~~CSftVld~ 80 (103)
T cd05480 1 VSCQCAGKELRALVDTGCQYNLISAACLDRLGLKERVLKAKAEEEAPSLPTSVKVIGQIERLVLQLGQLTVECSAQVVDD 80 (103)
T ss_pred CceeECCEEEEEEEecCCchhhcCHHHHHHcChHhhhhhccccccccCCCcceeEeeEEEEEEEEeCCEEeeEEEEEEcC
Confidence 4689999999999999999999999999999221 122 4456788999999999999999999999999
Q ss_pred CCceEEeCcchhhhcCC
Q 045784 72 EGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 72 ~~~dvILG~~wL~~~~p 88 (90)
...|++||.|-|++|+-
T Consensus 81 ~~~d~llGLdmLkrhqc 97 (103)
T cd05480 81 NEKNFSLGLQTLKSLKC 97 (103)
T ss_pred CCcceEeeHHHHhhcce
Confidence 99999999999999973
No 6
>PF13650 Asp_protease_2: Aspartyl protease
Probab=99.76 E-value=1.9e-17 Score=96.46 Aligned_cols=77 Identities=27% Similarity=0.304 Sum_probs=64.4
Q ss_pred EEEEECCEEEEEEEcCCCCcccccHHhhhee-----------eEEecCCCeeeeeceeeeeEEEEeceeE-EeeEEEcC-
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-----------NVMVASGERFSSLGTCLQTLIKLQGVPL-IVDFYLLP- 70 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~-~~~~~v~~- 70 (90)
|++++||+++.+|+||||+.++|++++++++ .+..++|+.....+... .+++++..+ ..++.+.+
T Consensus 1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~i~ig~~~~~~~~~~v~~~ 78 (90)
T PF13650_consen 1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKSVPISVSGAGGSVTVYRGRVD--SITIGGITLKNVPFLVVDL 78 (90)
T ss_pred CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCceeEEEEeCCCCEEEEEEEEE--EEEECCEEEEeEEEEEECC
Confidence 5789999999999999999999999999998 34567787444344443 688999887 57999999
Q ss_pred CCCceEEeCcch
Q 045784 71 FEGYDVVLDTQW 82 (90)
Q Consensus 71 ~~~~dvILG~~w 82 (90)
...+|.|||+||
T Consensus 79 ~~~~~~iLG~df 90 (90)
T PF13650_consen 79 GDPIDGILGMDF 90 (90)
T ss_pred CCCCEEEeCCcC
Confidence 667999999998
No 7
>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family. This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Sequences in the seed alignment and those scoring above the trusted cutoff are Proteobacterial; homologs scroing between trusted and noise are found in Pyrobaculum aerophilum str. IM2 (archaeal), Pirellula sp. (Planctomycetes), and Nostoc sp. PCC 7120 (Cyanobacteria).
Probab=99.74 E-value=2.6e-17 Score=102.48 Aligned_cols=86 Identities=20% Similarity=0.243 Sum_probs=70.1
Q ss_pred EEEEEEECCEEEEEEEcCCCCcccccHHhhhee-----------eEEecCCCeeeeeceeeeeEEEEeceeEE-eeEEEc
Q 045784 2 IRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-----------NVMVASGERFSSLGTCLQTLIKLQGVPLI-VDFYLL 69 (90)
Q Consensus 2 ~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~-~~~~v~ 69 (90)
++++++|||+++.+|+||||++++|++++|+++ .+..|||...... ..--.+++++..+. .++.|+
T Consensus 12 ~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~~~~~~~~ta~G~~~~~~--~~l~~l~iG~~~~~nv~~~v~ 89 (121)
T TIGR02281 12 FYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRLGYTVTVSTANGQIKAAR--VTLDRVAIGGIVVNDVDAMVA 89 (121)
T ss_pred EEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccCCceEEEEeCCCcEEEEE--EEeCEEEECCEEEeCcEEEEe
Confidence 789999999999999999999999999999999 3456677643222 22235889999877 789999
Q ss_pred CCCC-ceEEeCcchhhhcCCC
Q 045784 70 PFEG-YDVVLDTQWLSTFGLI 89 (90)
Q Consensus 70 ~~~~-~dvILG~~wL~~~~p~ 89 (90)
|... .+.+|||+||+++.++
T Consensus 90 ~~~~~~~~LLGm~fL~~~~~~ 110 (121)
T TIGR02281 90 EGGALSESLLGMSFLNRLSRF 110 (121)
T ss_pred CCCcCCceEcCHHHHhccccE
Confidence 9874 5899999999998754
No 8
>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....
Probab=99.74 E-value=2.7e-17 Score=98.38 Aligned_cols=83 Identities=20% Similarity=0.301 Sum_probs=72.4
Q ss_pred EEEEEECCEEEEEEEcCCCCcccccHHhhhee--------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCc
Q 045784 3 RVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL--------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGY 74 (90)
Q Consensus 3 ~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l--------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~ 74 (90)
+++.++||+++.|||||||+.|+|+++.+.+. .+..++|.. ...+.. .+++.+++..+...|+|.+....
T Consensus 7 ~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~~~~~~~v~~~~g~~-~~~~~~-~~~v~~~~~~~~~~~~v~~~~~~ 84 (100)
T PF00077_consen 7 YITVKINGKKIKALLDTGADVSIISEKDWKKLGPPPKTSITVRGAGGSS-SILGST-TVEVKIGGKEFNHTFLVVPDLPM 84 (100)
T ss_dssp EEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSEEEEEEEEEETTEEE-EEEEEE-EEEEEETTEEEEEEEEESSTCSS
T ss_pred eEEEeECCEEEEEEEecCCCcceecccccccccccccCCceeccCCCcc-eeeeEE-EEEEEEECccceEEEEecCCCCC
Confidence 57899999999999999999999999999877 566677776 555554 68899999999999999998778
Q ss_pred eEEeCcchhhhcCC
Q 045784 75 DVVLDTQWLSTFGL 88 (90)
Q Consensus 75 dvILG~~wL~~~~p 88 (90)
| |||.|||++++.
T Consensus 85 ~-ILG~D~L~~~~~ 97 (100)
T PF00077_consen 85 N-ILGRDFLKKLNA 97 (100)
T ss_dssp E-EEEHHHHTTTTC
T ss_pred C-EeChhHHHHcCC
Confidence 8 999999999875
No 9
>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=99.69 E-value=4.5e-16 Score=91.43 Aligned_cols=82 Identities=23% Similarity=0.297 Sum_probs=68.2
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhhee----------eEEecCCCeeeeeceeeeeEEEEeceeEE-eeEEEc
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL----------NVMVASGERFSSLGTCLQTLIKLQGVPLI-VDFYLL 69 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~-~~~~v~ 69 (90)
.+.+++++|++++.+|+||||+.++|++++++++ .+..++|........ --++.+++..+. ..+.++
T Consensus 2 ~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~--~~~i~ig~~~~~~~~~~v~ 79 (96)
T cd05483 2 HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVTVQTANGRVRAARVR--LDSLQIGGITLRNVPAVVL 79 (96)
T ss_pred cEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCCCcEEEEecCCCccceEEE--cceEEECCcEEeccEEEEe
Confidence 3789999999999999999999999999999976 455566765544433 346889999876 689999
Q ss_pred CCCC--ceEEeCcchhh
Q 045784 70 PFEG--YDVVLDTQWLS 84 (90)
Q Consensus 70 ~~~~--~dvILG~~wL~ 84 (90)
+... .|.|||+|||+
T Consensus 80 d~~~~~~~gIlG~d~l~ 96 (96)
T cd05483 80 PGDALGVDGLLGMDFLR 96 (96)
T ss_pred CCcccCCceEeChHHhC
Confidence 9987 99999999985
No 10
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=99.67 E-value=5.8e-16 Score=91.02 Aligned_cols=79 Identities=24% Similarity=0.305 Sum_probs=62.5
Q ss_pred EEEEECCEEEEEEEcCCCCcccccHHhhhee-------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceE
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDV 76 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dv 76 (90)
+.++|||+|+.+|+||||+.+.|+++.++++ .+..++|..........+ .+.+++++....+.+.+- ..+.
T Consensus 1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~~~~~~~~~v~gagG~~~~~v~~~~~-~v~vg~~~~~~~~~v~~~-~~~~ 78 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQELSTTSVLIRGVSGQSQQPVTTYRT-LVDLGGHTVSHSFLVVPN-CPDP 78 (86)
T ss_pred CEEEECCEEEEEEEECCCCeEEECHHHhhhccCCCCcEEEEeCCCcccccEEEeee-EEEECCEEEEEEEEEEcC-CCCc
Confidence 4689999999999999999999999999984 677788865111111111 588999999988988884 3699
Q ss_pred EeCcchhh
Q 045784 77 VLDTQWLS 84 (90)
Q Consensus 77 ILG~~wL~ 84 (90)
|||||||+
T Consensus 79 lLG~dfL~ 86 (86)
T cd06095 79 LLGRDLLS 86 (86)
T ss_pred EechhhcC
Confidence 99999985
No 11
>cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples
Probab=99.63 E-value=8.8e-15 Score=81.96 Aligned_cols=81 Identities=37% Similarity=0.619 Sum_probs=67.1
Q ss_pred EEEEECCEEEEEEEcCCCCcccccHHhhhee-----------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCC
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-----------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFE 72 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~ 72 (90)
+.+.++|+++.+|+|+||++++++.++++++ .+..++|......+.+..+.+.+++..+...|.+.+..
T Consensus 1 ~~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 80 (92)
T cd00303 1 LKGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTIGIGGKTFTVDFYVLDLL 80 (92)
T ss_pred CEEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCcEEEEEEEEeCCEEEEEEEEEEcCC
Confidence 3577899999999999999999999999875 33455565555444445678888899999999999999
Q ss_pred CceEEeCcchhh
Q 045784 73 GYDVVLDTQWLS 84 (90)
Q Consensus 73 ~~dvILG~~wL~ 84 (90)
.+|+|||++||+
T Consensus 81 ~~~~ilG~~~l~ 92 (92)
T cd00303 81 SYDVILGRPWLE 92 (92)
T ss_pred CcCEEecccccC
Confidence 999999999985
No 12
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=99.52 E-value=2.7e-14 Score=101.67 Aligned_cols=88 Identities=18% Similarity=0.177 Sum_probs=77.4
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhheeeEE---------ecC-CCeeeeeceeeeeEEEEeceeEEeeEEEcC
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKLNVM---------VAS-GERFSSLGTCLQTLIKLQGVPLIVDFYLLP 70 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~v~---------~a~-G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~ 70 (90)
+++|.++|||+|++|++||||..+.||.+||+|+.+. .|- .....+.|+++.+.+++++..+.+.|.|++
T Consensus 235 ML~iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~rlid~r~~g~a~gvg~~ki~g~Ih~~~lki~~~~l~c~ftV~d 314 (380)
T KOG0012|consen 235 MLYINCEINGVPVKAFVDSGAQTTIMSAACAERCGLNRLIDKRFQGEARGVGTEKILGRIHQAQLKIEDLYLPCSFTVLD 314 (380)
T ss_pred EEEEEEEECCEEEEEEEcccchhhhhhHHHHHHhChHHHhhhhhhccccCCCcccccceeEEEEEEeccEeeccceEEec
Confidence 3689999999999999999999999999999999221 122 235677889999999999999999999999
Q ss_pred CCCceEEeCcchhhhcCC
Q 045784 71 FEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 71 ~~~~dvILG~~wL~~~~p 88 (90)
-...|+.||.+-|++|+-
T Consensus 315 ~~~~d~llGLd~Lrr~~c 332 (380)
T KOG0012|consen 315 RRDMDLLLGLDMLRRHQC 332 (380)
T ss_pred CCCcchhhhHHHHHhccc
Confidence 999999999999999973
No 13
>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease
Probab=99.50 E-value=6.3e-14 Score=79.99 Aligned_cols=51 Identities=29% Similarity=0.395 Sum_probs=45.7
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhhee-----------eEEecCCCeeeeeceee
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-----------NVMVASGERFSSLGTCL 51 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-----------~v~~a~G~~~~~~~~~~ 51 (90)
+|++++.|+|+++.+|+||||++|||++++|+++ .+++|||+...+.+...
T Consensus 8 ~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~~ 69 (72)
T PF13975_consen 8 LMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVAE 69 (72)
T ss_pred EEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEEE
Confidence 4889999999999999999999999999999998 67889998887766554
No 14
>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain an aspartic peptidase signature that belongs to MEROPS peptidase family A3, subfamily A3A (cauliflower mosaic virus-type endopeptidase, clan AA). Cauliflower mosaic virus belongs to the Retro-transcribing viruses, which have a double-stranded DNA genome. The genome includes an open reading frame (ORF V) that shows similarities to the pol gene of retroviruses. This ORF codes for a polyprotein that includes a reverse transcriptase, which, on the basis of a DTG triplet near the N terminus, was suggested to include an aspartic protease. The presence of an aspartic protease has been confirmed by mutational studies, implicating Asp-45 in catalysis. The protease releases itself from the polyprotein and is involved in reactions required to process the ORF IV polyprotein, which includes the viral coat protein []. The viral aspartic peptidase signature has also been found associated with a polyprotein encoded by integrated pararetrovirus-like sequences in the genome of Nicotiana tabacum (Common tobacco) []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis
Probab=99.50 E-value=2e-13 Score=91.24 Aligned_cols=79 Identities=13% Similarity=0.119 Sum_probs=68.5
Q ss_pred EEEEEEEcCCCCcccccHHhhhe-----e----eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceEEeCcc
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVK-----L----NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDVVLDTQ 81 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~-----l----~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dvILG~~ 81 (90)
..+.+++||||+.+.+++...-. . .++.||++......++.+..+.++++.|..++.-.--.+.|+|||++
T Consensus 19 ~~~~~~vDTGAt~C~~~~~iiP~e~we~~~~~i~v~~an~~~~~i~~~~~~~~i~I~~~~F~IP~iYq~~~g~d~IlG~N 98 (201)
T PF02160_consen 19 FNYHCYVDTGATICCASKKIIPEEYWEKSKKPIKVKGANGSIIQINKKAKNGKIQIADKIFRIPTIYQQESGIDIILGNN 98 (201)
T ss_pred EEEEEEEeCCCceEEecCCcCCHHHHHhCCCcEEEEEecCCceEEEEEecCceEEEccEEEeccEEEEecCCCCEEecch
Confidence 66789999999999988776633 2 78899999888889999999999999999887666668999999999
Q ss_pred hhhhcCCC
Q 045784 82 WLSTFGLI 89 (90)
Q Consensus 82 wL~~~~p~ 89 (90)
|++.++|.
T Consensus 99 F~r~y~Pf 106 (201)
T PF02160_consen 99 FLRLYEPF 106 (201)
T ss_pred HHHhcCCc
Confidence 99999984
No 15
>TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family. Members of this protein family are clan AA aspartic proteases, related to family TIGR02281. These proteins resemble retropepsins, pepsin-like proteases of retroviruses such as HIV. Members of this family are found in archaea and bacteria.
Probab=99.48 E-value=6.8e-13 Score=81.00 Aligned_cols=75 Identities=21% Similarity=0.274 Sum_probs=60.9
Q ss_pred EEEEEEEcCCCCccc-ccHHhhhee--------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceEEeCcc
Q 045784 11 KVVTVLIDSRRTHNF-VRQELAVKL--------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDVVLDTQ 81 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~-i~~~~a~~l--------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dvILG~~ 81 (90)
.++.+|+||||+..+ ++++.|+++ .+.+|||+.....- ....+.+++.+....+.+.+..+ +.+|||.
T Consensus 15 ~~v~~LVDTGat~~~~l~~~~a~~lgl~~~~~~~~~tA~G~~~~~~v--~~~~v~igg~~~~~~v~~~~~~~-~~LLG~~ 91 (107)
T TIGR03698 15 MEVRALVDTGFSGFLLVPPDIVNKLGLPELDQRRVYLADGREVLTDV--AKASIIINGLEIDAFVESLGYVD-EPLLGTE 91 (107)
T ss_pred eEEEEEEECCCCeEEecCHHHHHHcCCCcccCcEEEecCCcEEEEEE--EEEEEEECCEEEEEEEEecCCCC-ccEecHH
Confidence 489999999999998 999999999 77889997655442 34578889988766666666655 8999999
Q ss_pred hhhhcCC
Q 045784 82 WLSTFGL 88 (90)
Q Consensus 82 wL~~~~p 88 (90)
||++++.
T Consensus 92 ~L~~l~l 98 (107)
T TIGR03698 92 LLEGLGI 98 (107)
T ss_pred HHhhCCE
Confidence 9999874
No 16
>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Ty3 is a gypsy-type, retrovirus-like, element found in the budding yeast. The Ty3 aspartyl protease is required for processing of the viral polyprotein into its mature species [].
Probab=99.48 E-value=4e-13 Score=87.14 Aligned_cols=87 Identities=16% Similarity=0.197 Sum_probs=71.4
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHHhhheeeEEec----------C-CCeeeeeceeeeeEEEEeceeEEeeEEEc
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKLNVMVA----------S-GERFSSLGTCLQTLIKLQGVPLIVDFYLL 69 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~v~~a----------~-G~~~~~~~~~~~~~i~i~~~~~~~~~~v~ 69 (90)
|..+.-.++|.++.+|+||||-.|||+.+.+++|.+... . +....+.. ...+++.+++..+...++|+
T Consensus 34 T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~~~~~tsE-Av~ld~~i~n~~i~i~aYV~ 112 (177)
T PF12384_consen 34 TAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSGESATTSE-AVTLDFYIDNKLIDIAAYVT 112 (177)
T ss_pred EEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccCCceEEEE-eEEEEEEECCeEEEEEEEEe
Confidence 346778899999999999999999999999999933322 2 23333333 34688999999999999999
Q ss_pred CCCCceEEeCcchhhhcCC
Q 045784 70 PFEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 70 ~~~~~dvILG~~wL~~~~p 88 (90)
+..++|+|+|.|.|++|..
T Consensus 113 d~m~~dlIIGnPiL~ryp~ 131 (177)
T PF12384_consen 113 DNMDHDLIIGNPILDRYPT 131 (177)
T ss_pred ccCCcceEeccHHHhhhHH
Confidence 9999999999999999864
No 17
>cd06094 RP_Saci_like RP_Saci_like, retropepsin family. Retropepsin on retrotransposons with long terminal repeats (LTR) including Saci-1, -2 and -3 of Schistosoma mansoni. Retropepsins are related to fungal and mammalian pepsins. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified
Probab=99.35 E-value=5.3e-12 Score=74.64 Aligned_cols=74 Identities=18% Similarity=0.304 Sum_probs=63.8
Q ss_pred EEEEEEEcCCCCcccccHHhhhee------eEEecCCCeeeeeceeeeeEEEEece-eEEeeEEEcCCCCceEEeCcchh
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVKL------NVMVASGERFSSLGTCLQTLIKLQGV-PLIVDFYLLPFEGYDVVLDTQWL 83 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~l------~v~~a~G~~~~~~~~~~~~~i~i~~~-~~~~~~~v~~~~~~dvILG~~wL 83 (90)
-...+|+||||.+|.|.+...++. .++.|||+.+.+.|.. .+.+.+|.. ++.-.|.|.+.. ..|||.|||
T Consensus 8 s~~~fLVDTGA~vSviP~~~~~~~~~~~~~~l~AANgt~I~tyG~~-~l~ldlGlrr~~~w~FvvAdv~--~pIlGaDfL 84 (89)
T cd06094 8 SGLRFLVDTGAAVSVLPASSTKKSLKPSPLTLQAANGTPIATYGTR-SLTLDLGLRRPFAWNFVVADVP--HPILGADFL 84 (89)
T ss_pred CCcEEEEeCCCceEeeccccccccccCCceEEEeCCCCeEeeeeeE-EEEEEcCCCcEEeEEEEEcCCC--cceecHHHH
Confidence 346899999999999999998883 7889999999999865 678888875 799999998875 479999999
Q ss_pred hhcC
Q 045784 84 STFG 87 (90)
Q Consensus 84 ~~~~ 87 (90)
++|+
T Consensus 85 ~~~~ 88 (89)
T cd06094 85 QHYG 88 (89)
T ss_pred HHcC
Confidence 9986
No 18
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=99.34 E-value=3.8e-12 Score=85.12 Aligned_cols=85 Identities=22% Similarity=0.253 Sum_probs=70.3
Q ss_pred EEEEEEECCEEEEEEEcCCCCcccccHHhhhee-----------eEEecCCCeeeeeceeeeeEEEEeceeEE-eeEEEc
Q 045784 2 IRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKL-----------NVMVASGERFSSLGTCLQTLIKLQGVPLI-VDFYLL 69 (90)
Q Consensus 2 ~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l-----------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~-~~~~v~ 69 (90)
|...++|||+++.+|+|||||.-.++++-|+|+ .+.+|||+.....-.. -.+.|++.+.. .+..|.
T Consensus 106 F~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~v~TANG~~~AA~V~L--d~v~IG~I~~~nV~A~V~ 183 (215)
T COG3577 106 FEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITVSTANGRARAAPVTL--DRVQIGGIRVKNVDAMVA 183 (215)
T ss_pred EEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceEEEccCCccccceEEe--eeEEEccEEEcCchhhee
Confidence 568899999999999999999999999999999 6788999765443333 25788888876 688999
Q ss_pred CCCC-ceEEeCcchhhhcCC
Q 045784 70 PFEG-YDVVLDTQWLSTFGL 88 (90)
Q Consensus 70 ~~~~-~dvILG~~wL~~~~p 88 (90)
+.+. -...|||+||++.+-
T Consensus 184 ~~g~L~~sLLGMSfL~rL~~ 203 (215)
T COG3577 184 EDGALDESLLGMSFLNRLSG 203 (215)
T ss_pred cCCccchhhhhHHHHhhccc
Confidence 7664 669999999998763
No 19
>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identifi
Probab=99.29 E-value=4e-11 Score=71.54 Aligned_cols=74 Identities=15% Similarity=0.178 Sum_probs=63.7
Q ss_pred EEECC-EEEEEEEcCCCCcccccHHhhhee-------------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCC
Q 045784 6 GRLVH-KVVTVLIDSRRTHNFVRQELAVKL-------------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPF 71 (90)
Q Consensus 6 ~~i~~-~~~~aLiDsGA~~~~i~~~~a~~l-------------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~ 71 (90)
-.+|+ +++++++||||+.|.|+.+..+++ .++.+||+.+...|.+ .+++.+++..+..+|+|++.
T Consensus 3 ~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~~-~~~v~~~~~~~~~~f~Vvd~ 81 (93)
T cd05481 3 MKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGGV-KLKCRYRNPKYNLTFQVVKE 81 (93)
T ss_pred eEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEEE-EEEEEECCcEEEEEEEEECC
Confidence 46788 999999999999999999999875 5888999999999884 78999999999999999997
Q ss_pred CCceEEeCcc
Q 045784 72 EGYDVVLDTQ 81 (90)
Q Consensus 72 ~~~dvILG~~ 81 (90)
.+. -|||.+
T Consensus 82 ~~~-~lLG~~ 90 (93)
T cd05481 82 EGP-PLLGAK 90 (93)
T ss_pred CCC-ceEccc
Confidence 744 445653
No 20
>cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases. This is a subfamily of retropepsins. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This gro
Probab=98.74 E-value=1.7e-07 Score=55.42 Aligned_cols=78 Identities=13% Similarity=0.062 Sum_probs=57.6
Q ss_pred EEEECCEEEEEEEcCCCCcccccHHhhhee--------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceE
Q 045784 5 IGRLVHKVVTVLIDSRRTHNFVRQELAVKL--------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDV 76 (90)
Q Consensus 5 ~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l--------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dv 76 (90)
..+++|++..+|+||||..++|++....+. .+.-..| ..... ....+.+++.++.....+.+.+.....-
T Consensus 2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~p~~w~~~~~~~~i~GIGG-~~~~~-~~~~v~i~i~~~~~~g~vlv~~~~~P~n 79 (87)
T cd05482 2 TLYINGKLFEGLLDTGADVSIIAENDWPKNWPIQPAPSNLTGIGG-AITPS-QSSVLLLEIDGEGHLGTILVYVLSLPVN 79 (87)
T ss_pred EEEECCEEEEEEEccCCCCeEEcccccCCCCccCCCCeEEEeccc-eEEEE-EEeeEEEEEcCCeEEEEEEEccCCCccc
Confidence 467899999999999999999998766543 2333333 22222 2336789999998889999998745567
Q ss_pred EeCcchhh
Q 045784 77 VLDTQWLS 84 (90)
Q Consensus 77 ILG~~wL~ 84 (90)
|+|.|.|+
T Consensus 80 llGRd~L~ 87 (87)
T cd05482 80 LWGRDILS 87 (87)
T ss_pred EEccccCC
Confidence 89999874
No 21
>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.7e-06 Score=53.99 Aligned_cols=72 Identities=21% Similarity=0.206 Sum_probs=55.9
Q ss_pred EEEEEcCCCC-cccccHHhhhee--------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceEEeCcchh
Q 045784 13 VTVLIDSRRT-HNFVRQELAVKL--------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDVVLDTQWL 83 (90)
Q Consensus 13 ~~aLiDsGA~-~~~i~~~~a~~l--------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dvILG~~wL 83 (90)
..+|||||++ --.++++.|+++ ++..++|+...+. .....++++|.+...-..+.+....+ ++|++||
T Consensus 27 ~~~LiDTGFtg~lvlp~~vaek~~~~~~~~~~~~~a~~~~v~t~--V~~~~iki~g~e~~~~Vl~s~~~~~~-liG~~~l 103 (125)
T COG5550 27 YDELIDTGFTGYLVLPPQVAEKLGLPLFSTIRIVLADGGVVKTS--VALATIKIDGVEKVAFVLASDNLPEP-LIGVNLL 103 (125)
T ss_pred eeeEEecCCceeEEeCHHHHHhcCCCccCChhhhhhcCCEEEEE--EEEEEEEECCEEEEEEEEccCCCccc-chhhhhh
Confidence 3359999999 788999999999 4556776655442 44567889998877777777777777 9999999
Q ss_pred hhcC
Q 045784 84 STFG 87 (90)
Q Consensus 84 ~~~~ 87 (90)
+..+
T Consensus 104 k~l~ 107 (125)
T COG5550 104 KLLG 107 (125)
T ss_pred hhcc
Confidence 9765
No 22
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=98.29 E-value=3e-06 Score=54.74 Aligned_cols=25 Identities=32% Similarity=0.465 Sum_probs=23.2
Q ss_pred CEEEEEEEcCCCCcccccHHhhhee
Q 045784 10 HKVVTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~~~a~~l 34 (90)
-+++.+|+||||+.|||++++|+++
T Consensus 10 ~~~~~~LlDsGSq~SfIt~~la~~L 34 (164)
T PF05585_consen 10 QVEARALLDSGSQRSFITESLANKL 34 (164)
T ss_pred EEEEEEEEecCCchhHHhHHHHHHh
Confidence 3678899999999999999999999
No 23
>PF05618 Zn_protease: Putative ATP-dependant zinc protease; InterPro: IPR008503 This family consists of several hypothetical proteins from different archaeal and bacterial species.; PDB: 2PMA_B.
Probab=97.56 E-value=0.00043 Score=44.06 Aligned_cols=77 Identities=16% Similarity=0.141 Sum_probs=48.3
Q ss_pred CEEEEEEEcCCCCcccccHHhhhee------eEEe-----c--CCCeeeee------------------ceeeeeEEEEe
Q 045784 10 HKVVTVLIDSRRTHNFVRQELAVKL------NVMV-----A--SGERFSSL------------------GTCLQTLIKLQ 58 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~~~a~~l------~v~~-----a--~G~~~~~~------------------~~~~~~~i~i~ 58 (90)
|..+.|-+||||..|-|+..=.+.+ .|+. . .+....+. ..+-+..+.++
T Consensus 14 ~~~~~aKiDTGA~tSSLhA~~I~~ferdg~~~VrF~~~~~~~~~~~~~~~e~p~~~~~~Ik~s~g~~e~R~VV~~~~~lg 93 (138)
T PF05618_consen 14 GLTIKAKIDTGAKTSSLHATDIEEFERDGEKWVRFTVHDPDNEEKEGVTFEAPVVRRRKIKSSNGESERRPVVETTLCLG 93 (138)
T ss_dssp TEEEEEEE-TT-SSEEEE-EEEEEEEETTEEEEEE----EEEETTEEEEEEEEEECEEE---------CCEEEEEEEEET
T ss_pred CCEEEEEEcCCCcccceeecceEEeeeCCceEEEEecccccCCCcceEEEEEEeEeEEEEEcCCCceeEeeEEEEEEEEC
Confidence 5568999999999999988777765 2222 1 11111111 12235678899
Q ss_pred ceeEEeeEEEcCC--CCceEEeC-cchhhhc
Q 045784 59 GVPLIVDFYLLPF--EGYDVVLD-TQWLSTF 86 (90)
Q Consensus 59 ~~~~~~~~~v~~~--~~~dvILG-~~wL~~~ 86 (90)
+..+..+|.+.+= ..|+++|| ..||+..
T Consensus 94 ~~~~~~e~tL~dR~~m~yp~LlGrR~~l~~~ 124 (138)
T PF05618_consen 94 GKTWKIEFTLTDRSNMKYPMLLGRRNFLRGR 124 (138)
T ss_dssp TEEEEEEEEEE-S--SS-SEEE-HHHHHHTT
T ss_pred CEEEEEEEEEcCCCcCcCCEEEEehHHhcCC
Confidence 9999999999985 45999999 9998753
No 24
>PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. This entry represents a small family of fungal retroviral aspartyl peptidases.
Probab=97.13 E-value=0.0017 Score=39.53 Aligned_cols=63 Identities=16% Similarity=0.195 Sum_probs=42.2
Q ss_pred EEEEEEcCCCCcccccHHhhheeeEEe--------cCC-CeeeeeceeeeeEEEEeceeEEeeEEEcCCCCc
Q 045784 12 VVTVLIDSRRTHNFVRQELAVKLNVMV--------ASG-ERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGY 74 (90)
Q Consensus 12 ~~~aLiDsGA~~~~i~~~~a~~l~v~~--------a~G-~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~ 74 (90)
.+..|||+||..|.|.++.++.+.+.. .+| -+-.+..+...+.+.++|.....+|+|..--..
T Consensus 47 sipclidtgaq~niiteetvrahklptrpw~~sviyggvyp~kinrkt~kl~i~lngisikteflvvkkfsh 118 (137)
T PF12382_consen 47 SIPCLIDTGAQVNIITEETVRAHKLPTRPWSQSVIYGGVYPNKINRKTIKLNINLNGISIKTEFLVVKKFSH 118 (137)
T ss_pred cceeEEccCceeeeeehhhhhhccCCCCcchhheEeccccccccccceEEEEEEecceEEEEEEEEEEeccC
Confidence 356899999999999999998872221 111 111222233456678889999999998864433
No 25
>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]
Probab=97.12 E-value=0.0022 Score=41.60 Aligned_cols=76 Identities=22% Similarity=0.276 Sum_probs=54.9
Q ss_pred EEEEEEEcCCCCcccccHHhhhee---------------------------------eEEecCCCeeeeeceeeeeEEEE
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVKL---------------------------------NVMVASGERFSSLGTCLQTLIKL 57 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~l---------------------------------~v~~a~G~~~~~~~~~~~~~i~i 57 (90)
....|-+||||..|-++..=...+ .++-++|...+. ..+-...+.+
T Consensus 38 ~~~kAkiDTGA~TSsL~A~dI~~fkRdGe~WVRF~~~~~~~~~~~~~~~e~pvi~~ikvR~s~~~~~e~-RpVV~~~l~l 116 (162)
T COG4067 38 IQLKAKIDTGAVTSSLSASDIERFKRDGERWVRFRLADTDNLDQRSEECEAPVIRKIKVRSSSGSRAER-RPVVRLTLCL 116 (162)
T ss_pred ceeeeeecccceeeeEEeecceeeeeCCceEEEEEeecccCccccceeeccceEEEEEEecCCCCcccc-ccEEEEEEee
Confidence 557899999999999998777666 112233332221 1233467889
Q ss_pred eceeEEeeEEEcCCC--CceEEeCcchhhhcC
Q 045784 58 QGVPLIVDFYLLPFE--GYDVVLDTQWLSTFG 87 (90)
Q Consensus 58 ~~~~~~~~~~v~~~~--~~dvILG~~wL~~~~ 87 (90)
|+...+.+|...+-. .|+++||.-+|++..
T Consensus 117 G~~~~~~E~tLtDR~~m~Yp~LlGrk~l~~~~ 148 (162)
T COG4067 117 GGRILPIEFTLTDRSNMRYPVLLGRKALRHFG 148 (162)
T ss_pred CCeeeeEEEEeecccccccceEecHHHHhhCC
Confidence 999999999999854 599999999999843
No 26
>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=96.15 E-value=0.043 Score=37.57 Aligned_cols=71 Identities=15% Similarity=0.181 Sum_probs=43.3
Q ss_pred EEEEEcCCCCcccccHHhhheeeEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCC-CCceEEeCcchhhhcC
Q 045784 13 VTVLIDSRRTHNFVRQELAVKLNVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPF-EGYDVVLDTQWLSTFG 87 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~-~~~dvILG~~wL~~~~ 87 (90)
..+++|||++..++.++....+.+...+|........- .-+.. +....+ +-.++. .....|||.+||+.+.
T Consensus 177 ~~ai~DTGTs~~~lp~~~~P~i~~~f~~~~~~~i~~~~--y~~~~-~~~~~C-~~~~~~~~~~~~ilG~~fl~~~~ 248 (265)
T cd05476 177 GGTIIDSGTTLTYLPDPAYPDLTLHFDGGADLELPPEN--YFVDV-GEGVVC-LAILSSSSGGVSILGNIQQQNFL 248 (265)
T ss_pred CcEEEeCCCcceEcCccccCCEEEEECCCCEEEeCccc--EEEEC-CCCCEE-EEEecCCCCCcEEEChhhcccEE
Confidence 34899999999999999887677777766544433211 11111 111122 122232 3456899999999864
No 27
>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=95.90 E-value=0.0093 Score=41.11 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=20.9
Q ss_pred EEEEEEEcCCCCcccccHHhhhee
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~l 34 (90)
....++||||++..++.++.++++
T Consensus 197 ~~~~~iiDSGTs~~~lP~~~~~~l 220 (278)
T cd06097 197 SGFSAIADTGTTLILLPDAIVEAY 220 (278)
T ss_pred CCceEEeecCCchhcCCHHHHHHH
Confidence 456799999999999999888877
No 28
>PF03539 Spuma_A9PTase: Spumavirus aspartic protease (A9); InterPro: IPR001641 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A9 (spumapepsin family, clan AA). Foamy viruses are single-stranded enveloped retroviruses that have been noted to infect monkeys, cats and humans. In the human virus, the aspartic protease is encoded by the retroviral gag gene [], and in monkeys by the pol gene []. At present, the virus has not been proven to cause any particular disease. However, studies have shown Human foamy virus causes neurological disorders in infected mice []. It is not clear whether the Foamy virus/spumavirus proteases share a common evolutionary origin with other aspartic proteases. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 2JYS_A.
Probab=95.38 E-value=0.27 Score=31.90 Aligned_cols=73 Identities=15% Similarity=0.220 Sum_probs=46.3
Q ss_pred ECCEEEEEEEcCCCCcccccHHhhhee------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceEEe---
Q 045784 8 LVHKVVTVLIDSRRTHNFVRQELAVKL------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDVVL--- 78 (90)
Q Consensus 8 i~~~~~~aLiDsGA~~~~i~~~~a~~l------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dvIL--- 78 (90)
+.|..+.+.-||||+...|.+.|...- .+..-.|++.. .+.-+++.++|+...++..--++ |.+|
T Consensus 1 ikg~~l~~~wDsga~ITCiP~~fl~~E~Pi~~~~i~Tihg~~~~---~vYYl~fKi~grkv~aEVi~s~~---dy~li~p 74 (163)
T PF03539_consen 1 IKGTKLKGHWDSGAQITCIPESFLEEEQPIGKTLIKTIHGEKEQ---DVYYLTFKINGRKVEAEVIASPY---DYILISP 74 (163)
T ss_dssp ETTEEEEEEE-TT-SSEEEEGGGTTT---SEEEEEE-SS-EEEE---EEEEEEEEESS-EEEEEEEEESS---SSEEE-T
T ss_pred CCCceeeEEecCCCeEEEccHHHhCccccccceEEEEecCceec---cEEEEEEEEcCeEEEEEEecCcc---ceEEEcc
Confidence 457788999999999999999998876 45555665443 33457899999988888776653 3222
Q ss_pred -Ccchhhhc
Q 045784 79 -DTQWLSTF 86 (90)
Q Consensus 79 -G~~wL~~~ 86 (90)
-.||+++.
T Consensus 75 ~diPw~~~~ 83 (163)
T PF03539_consen 75 SDIPWYKKK 83 (163)
T ss_dssp TT-HHHHS-
T ss_pred cccccccCC
Confidence 34677654
No 29
>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=95.38 E-value=0.13 Score=36.05 Aligned_cols=75 Identities=12% Similarity=0.116 Sum_probs=45.4
Q ss_pred EEEEcCCCCcccccHHhhhee----eEEe-cCCC-eeeeec--eeeeeEEEEeceeEEee-------------EEEcCC-
Q 045784 14 TVLIDSRRTHNFVRQELAVKL----NVMV-ASGE-RFSSLG--TCLQTLIKLQGVPLIVD-------------FYLLPF- 71 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l----~v~~-a~G~-~~~~~~--~~~~~~i~i~~~~~~~~-------------~~v~~~- 71 (90)
.+++|||++..++.++..+++ .... ..|. ...|.. ..+.+.+.+++.++... +-+.+.
T Consensus 203 ~~iiDSGtt~~~lP~~~~~~l~~~~~~~~~~~~~~~~~C~~~~~~p~l~~~f~g~~~~v~~~~y~~~~~~~C~~~i~~~~ 282 (318)
T cd05477 203 QAIVDTGTSLLTAPQQVMSTLMQSIGAQQDQYGQYVVNCNNIQNLPTLTFTINGVSFPLPPSAYILQNNGYCTVGIEPTY 282 (318)
T ss_pred eeeECCCCccEECCHHHHHHHHHHhCCccccCCCEEEeCCccccCCcEEEEECCEEEEECHHHeEecCCCeEEEEEEecc
Confidence 589999999999999999988 1111 1122 223321 12456677777655432 112111
Q ss_pred -----CCceEEeCcchhhhcCC
Q 045784 72 -----EGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 72 -----~~~dvILG~~wL~~~~p 88 (90)
+....|||.+||+.+..
T Consensus 283 ~~~~~~~~~~ilG~~fl~~~y~ 304 (318)
T cd05477 283 LPSQNGQPLWILGDVFLRQYYS 304 (318)
T ss_pred cCCCCCCceEEEcHHHhhheEE
Confidence 12458999999998753
No 30
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=95.20 E-value=0.063 Score=37.06 Aligned_cols=76 Identities=11% Similarity=0.119 Sum_probs=45.1
Q ss_pred EEEEEEcCCCCcccccHHhhhee----eEE-ecCCCeeeeece--eeeeEEEEeceeEE-----------------eeEE
Q 045784 12 VVTVLIDSRRTHNFVRQELAVKL----NVM-VASGERFSSLGT--CLQTLIKLQGVPLI-----------------VDFY 67 (90)
Q Consensus 12 ~~~aLiDsGA~~~~i~~~~a~~l----~v~-~a~G~~~~~~~~--~~~~~i~i~~~~~~-----------------~~~~ 67 (90)
+..|++|||++...+..+..+++ ... ..+.-.+.|... .+.+.+.+++..+. +-+.
T Consensus 199 ~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~~~~~~~c~~~~~~p~l~f~~~~~~~~i~~~~~~~~~~~~~~~~C~~~ 278 (317)
T PF00026_consen 199 GQQAILDTGTSYIYLPRSIFDAIIKALGGSYSDGVYSVPCNSTDSLPDLTFTFGGVTFTIPPSDYIFKIEDGNGGYCYLG 278 (317)
T ss_dssp EEEEEEETTBSSEEEEHHHHHHHHHHHTTEEECSEEEEETTGGGGSEEEEEEETTEEEEEEHHHHEEEESSTTSSEEEES
T ss_pred ceeeecccccccccccchhhHHHHhhhcccccceeEEEecccccccceEEEeeCCEEEEecchHhcccccccccceeEee
Confidence 46899999999999999999988 111 111112232211 23444455443321 2222
Q ss_pred EcC----CCCceEEeCcchhhhcC
Q 045784 68 LLP----FEGYDVVLDTQWLSTFG 87 (90)
Q Consensus 68 v~~----~~~~dvILG~~wL~~~~ 87 (90)
+.+ ......|||++||+++-
T Consensus 279 i~~~~~~~~~~~~iLG~~fl~~~y 302 (317)
T PF00026_consen 279 IQPMDSSDDSDDWILGSPFLRNYY 302 (317)
T ss_dssp EEEESSTTSSSEEEEEHHHHTTEE
T ss_pred eecccccccCCceEecHHHhhceE
Confidence 222 34578999999999864
No 31
>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=95.17 E-value=0.16 Score=35.72 Aligned_cols=83 Identities=11% Similarity=0.121 Sum_probs=51.1
Q ss_pred EEECCEEE------EEEEcCCCCcccccHHhhhee----eEEe-cCCC-eeeeec--eeeeeEEEEeceeEEee------
Q 045784 6 GRLVHKVV------TVLIDSRRTHNFVRQELAVKL----NVMV-ASGE-RFSSLG--TCLQTLIKLQGVPLIVD------ 65 (90)
Q Consensus 6 ~~i~~~~~------~aLiDsGA~~~~i~~~~a~~l----~v~~-a~G~-~~~~~~--~~~~~~i~i~~~~~~~~------ 65 (90)
..+|++.+ .+++|||++..++.++..+++ .... .+|. .+.|.. ..+.+.+.+++..+..+
T Consensus 194 v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~~~~~~~~~~~~~~~~C~~~~~~P~~~f~f~g~~~~i~~~~y~~ 273 (317)
T cd05478 194 VTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQSDIGASQNQNGEMVVNCSSISSMPDVVFTINGVQYPLPPSAYIL 273 (317)
T ss_pred EEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHHHhCCccccCCcEEeCCcCcccCCcEEEEECCEEEEECHHHhee
Confidence 46777655 589999999999999998887 1111 1222 233332 23456677777655422
Q ss_pred -------EEEcCCC-CceEEeCcchhhhcCC
Q 045784 66 -------FYLLPFE-GYDVVLDTQWLSTFGL 88 (90)
Q Consensus 66 -------~~v~~~~-~~dvILG~~wL~~~~p 88 (90)
..+.+.. ....|||-.||+.+..
T Consensus 274 ~~~~~C~~~~~~~~~~~~~IlG~~fl~~~y~ 304 (317)
T cd05478 274 QDQGSCTSGFQSMGLGELWILGDVFIRQYYS 304 (317)
T ss_pred cCCCEEeEEEEeCCCCCeEEechHHhcceEE
Confidence 1222322 2458999999998653
No 32
>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=95.09 E-value=0.044 Score=38.74 Aligned_cols=72 Identities=14% Similarity=0.080 Sum_probs=40.9
Q ss_pred EEEEEEEcCCCCcccccHHhhhee-------eEEecCCCeeeeeceeeeeEEEEeceeEEeeEEEcCCCCceEEeCcchh
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVKL-------NVMVASGERFSSLGTCLQTLIKLQGVPLIVDFYLLPFEGYDVVLDTQWL 83 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~l-------~v~~a~G~~~~~~~~~~~~~i~i~~~~~~~~~~v~~~~~~dvILG~~wL 83 (90)
....+++|||.+..++.++..+++ .+...+|..+..... +.-+...+.. + +.......--.|||-+||
T Consensus 230 ~~~~aivDSGTs~~~lp~~~~~~l~~~~P~i~~~f~~g~~~~i~p~--~y~~~~~~~~--c-~~~~~~~~~~~ILG~~fl 304 (326)
T cd06096 230 KGLGMLVDSGSTLSHFPEDLYNKINNFFPTITIIFENNLKIDWKPS--SYLYKKESFW--C-KGGEKSVSNKPILGASFF 304 (326)
T ss_pred cCCCEEEeCCCCcccCCHHHHHHHHhhcCcEEEEEcCCcEEEECHH--HhccccCCce--E-EEEEecCCCceEEChHHh
Confidence 345689999999999999999987 334444444432211 1111111111 1 111122223579999999
Q ss_pred hhcC
Q 045784 84 STFG 87 (90)
Q Consensus 84 ~~~~ 87 (90)
+.+-
T Consensus 305 r~~y 308 (326)
T cd06096 305 KNKQ 308 (326)
T ss_pred cCcE
Confidence 9864
No 33
>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=94.91 E-value=0.12 Score=35.66 Aligned_cols=77 Identities=16% Similarity=0.164 Sum_probs=45.5
Q ss_pred EEEEEEEcCCCCcccccHHhhhee----eEEecC--C-Ceeeeecee-eeeEEEEeceeEEee-----------------
Q 045784 11 KVVTVLIDSRRTHNFVRQELAVKL----NVMVAS--G-ERFSSLGTC-LQTLIKLQGVPLIVD----------------- 65 (90)
Q Consensus 11 ~~~~aLiDsGA~~~~i~~~~a~~l----~v~~a~--G-~~~~~~~~~-~~~~i~i~~~~~~~~----------------- 65 (90)
....+++|||++..++.++..+++ ...... + ....|.... +.+.+.+++..+..+
T Consensus 177 ~~~~~iiDSGt~~~~lP~~~~~~l~~~~~~~~~~~~~~~~~~C~~~~~p~i~f~f~g~~~~i~~~~~~~~~~~~~~~~~~ 256 (295)
T cd05474 177 KNLPALLDSGTTLTYLPSDIVDAIAKQLGATYDSDEGLYVVDCDAKDDGSLTFNFGGATISVPLSDLVLPASTDDGGDGA 256 (295)
T ss_pred CCccEEECCCCccEeCCHHHHHHHHHHhCCEEcCCCcEEEEeCCCCCCCEEEEEECCeEEEEEHHHhEeccccCCCCCCC
Confidence 446899999999999999999988 111111 1 112221111 356666666444321
Q ss_pred --EEEcCCCCceEEeCcchhhhcC
Q 045784 66 --FYLLPFEGYDVVLDTQWLSTFG 87 (90)
Q Consensus 66 --~~v~~~~~~dvILG~~wL~~~~ 87 (90)
+.+.+......|||..||+.+.
T Consensus 257 C~~~i~~~~~~~~iLG~~fl~~~y 280 (295)
T cd05474 257 CYLGIQPSTSDYNILGDTFLRSAY 280 (295)
T ss_pred eEEEEEeCCCCcEEeChHHhhcEE
Confidence 2222333245899999999874
No 34
>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=94.70 E-value=0.6 Score=32.10 Aligned_cols=73 Identities=18% Similarity=0.181 Sum_probs=49.5
Q ss_pred EEEEEECC--EEEEEEEcCCCCcccccHHhhheeeEEecCCCeeeeeceeeeeEEEEeceeEE-eeEEEcC-CCCceEEe
Q 045784 3 RVIGRLVH--KVVTVLIDSRRTHNFVRQELAVKLNVMVASGERFSSLGTCLQTLIKLQGVPLI-VDFYLLP-FEGYDVVL 78 (90)
Q Consensus 3 ~v~~~i~~--~~~~aLiDsGA~~~~i~~~~a~~l~v~~a~G~~~~~~~~~~~~~i~i~~~~~~-~~~~v~~-~~~~dvIL 78 (90)
.++..|.. ++..+++||||+..++. ...+..++|... .|....=.+.+++.... ..|-+.. ....|-||
T Consensus 4 ~~~i~iGtp~q~~~v~~DTgS~~~wv~-----~~~~~Y~~g~~~--~G~~~~D~v~~g~~~~~~~~fg~~~~~~~~~Gil 76 (295)
T cd05474 4 SAELSVGTPPQKVTVLLDTGSSDLWVP-----DFSISYGDGTSA--SGTWGTDTVSIGGATVKNLQFAVANSTSSDVGVL 76 (295)
T ss_pred EEEEEECCCCcEEEEEEeCCCCcceee-----eeEEEeccCCcE--EEEEEEEEEEECCeEecceEEEEEecCCCCccee
Confidence 46677776 99999999999999999 457777776433 23333335667766543 3454443 34588888
Q ss_pred Ccch
Q 045784 79 DTQW 82 (90)
Q Consensus 79 G~~w 82 (90)
|..+
T Consensus 77 GLg~ 80 (295)
T cd05474 77 GIGL 80 (295)
T ss_pred eECC
Confidence 8765
No 35
>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=94.63 E-value=0.21 Score=35.08 Aligned_cols=75 Identities=12% Similarity=0.172 Sum_probs=45.1
Q ss_pred EEEEcCCCCcccccHHhhhee----eEEecCCC-eeeeec--eeeeeEEEEeceeEEee---EEE--------------c
Q 045784 14 TVLIDSRRTHNFVRQELAVKL----NVMVASGE-RFSSLG--TCLQTLIKLQGVPLIVD---FYL--------------L 69 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l----~v~~a~G~-~~~~~~--~~~~~~i~i~~~~~~~~---~~v--------------~ 69 (90)
.+++|||++..++.++..+++ .....+|. ...|.. ..+.+.+.+++..+... +.+ .
T Consensus 200 ~aiiDTGTs~~~lP~~~~~~l~~~~~~~~~~~~~~~~C~~~~~~p~i~f~f~g~~~~l~~~~y~~~~~~~~~~~C~~~~~ 279 (316)
T cd05486 200 QAIVDTGTSLITGPSGDIKQLQNYIGATATDGEYGVDCSTLSLMPSVTFTINGIPYSLSPQAYTLEDQSDGGGYCSSGFQ 279 (316)
T ss_pred EEEECCCcchhhcCHHHHHHHHHHhCCcccCCcEEEeccccccCCCEEEEECCEEEEeCHHHeEEecccCCCCEEeeEEE
Confidence 699999999999999988777 22222332 223332 23456777777654421 111 1
Q ss_pred CC-----CCceEEeCcchhhhcCC
Q 045784 70 PF-----EGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 70 ~~-----~~~dvILG~~wL~~~~p 88 (90)
.+ .+...|||-.||+++-.
T Consensus 280 ~~~~~~~~~~~~ILGd~flr~~y~ 303 (316)
T cd05486 280 GLDIPPPAGPLWILGDVFIRQYYS 303 (316)
T ss_pred ECCCCCCCCCeEEEchHHhcceEE
Confidence 11 12247999999998753
No 36
>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077.; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....
Probab=94.63 E-value=0.32 Score=33.51 Aligned_cols=78 Identities=17% Similarity=0.214 Sum_probs=47.8
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHHh-------hhee-----------------eEEecCCCeeeeeceeeeeEEE
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQEL-------AVKL-----------------NVMVASGERFSSLGTCLQTLIK 56 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~~-------a~~l-----------------~v~~a~G~~~~~~~~~~~~~i~ 56 (90)
.++..|. .++..+++|||++..++...- ..+. .+..++|. ..|....=.+.
T Consensus 3 ~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~~~~~~~~~y~~~~S~t~~~~~~~~~~~y~~g~---~~G~~~~D~v~ 79 (317)
T PF00026_consen 3 YINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSCSSCASSGFYNPSKSSTFSNQGKPFSISYGDGS---VSGNLVSDTVS 79 (317)
T ss_dssp EEEEEETTTTEEEEEEEETTBSSEEEEBTTECSHTHHCTSC-BBGGGSTTEEEEEEEEEEEETTEE---EEEEEEEEEEE
T ss_pred EEEEEECCCCeEEEEEEecccceeeeceeccccccccccccccccccccccccceeeeeeeccCcc---cccccccceEe
Confidence 5677787 899999999999998887421 1111 23334443 33444444677
Q ss_pred EeceeEE-eeEEEcCC--------CCceEEeCcchh
Q 045784 57 LQGVPLI-VDFYLLPF--------EGYDVVLDTQWL 83 (90)
Q Consensus 57 i~~~~~~-~~~~v~~~--------~~~dvILG~~wL 83 (90)
+++.... ..|..... ..+|-|||+.+-
T Consensus 80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg~~ 115 (317)
T PF00026_consen 80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLGFP 115 (317)
T ss_dssp ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-SSG
T ss_pred eeeccccccceeccccccccccccccccccccccCC
Confidence 7877655 45544433 347888888753
No 37
>PTZ00147 plasmepsin-1; Provisional
Probab=94.52 E-value=0.34 Score=36.34 Aligned_cols=77 Identities=13% Similarity=0.134 Sum_probs=45.3
Q ss_pred EEEEEEcCCCCcccccHHhhhee--eE---Eec-CCC-eeeee-ceeeeeEEEEeceeEEee---------------E--
Q 045784 12 VVTVLIDSRRTHNFVRQELAVKL--NV---MVA-SGE-RFSSL-GTCLQTLIKLQGVPLIVD---------------F-- 66 (90)
Q Consensus 12 ~~~aLiDsGA~~~~i~~~~a~~l--~v---~~a-~G~-~~~~~-~~~~~~~i~i~~~~~~~~---------------~-- 66 (90)
...|++|||.+..++.++.++++ .+ ... .+. ...|. ...+.+.+.+++..+..+ +
T Consensus 332 ~~~aIiDSGTsli~lP~~~~~ai~~~l~~~~~~~~~~y~~~C~~~~lP~~~f~f~g~~~~L~p~~yi~~~~~~~~~~C~~ 411 (453)
T PTZ00147 332 KANVIVDSGTSVITVPTEFLNKFVESLDVFKVPFLPLYVTTCNNTKLPTLEFRSPNKVYTLEPEYYLQPIEDIGSALCML 411 (453)
T ss_pred ceeEEECCCCchhcCCHHHHHHHHHHhCCeecCCCCeEEEeCCCCCCCeEEEEECCEEEEECHHHheeccccCCCcEEEE
Confidence 46799999999999999998877 11 111 111 12332 223456666666544211 1
Q ss_pred EEcC--CCCceEEeCcchhhhcCC
Q 045784 67 YLLP--FEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 67 ~v~~--~~~~dvILG~~wL~~~~p 88 (90)
-+.+ ......|||..||+++-.
T Consensus 412 ~i~~~~~~~~~~ILGd~FLr~~Yt 435 (453)
T PTZ00147 412 NIIPIDLEKNTFILGDPFMRKYFT 435 (453)
T ss_pred EEEECCCCCCCEEECHHHhccEEE
Confidence 1222 222357999999998753
No 38
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=94.45 E-value=0.49 Score=35.46 Aligned_cols=76 Identities=17% Similarity=0.297 Sum_probs=45.6
Q ss_pred EEEEEC--CEEEEEEEcCCCCcccccHHhhhe--------e---------------eEEecCCCeeeeeceeeeeEEEEe
Q 045784 4 VIGRLV--HKVVTVLIDSRRTHNFVRQELAVK--------L---------------NVMVASGERFSSLGTCLQTLIKLQ 58 (90)
Q Consensus 4 v~~~i~--~~~~~aLiDsGA~~~~i~~~~a~~--------l---------------~v~~a~G~~~~~~~~~~~~~i~i~ 58 (90)
.+..|. .++..+++||||+..++...-... . .+..++|. ..|....=.+.++
T Consensus 141 ~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C~~~~C~~~~~yd~s~SsT~~~~~~~~~i~YG~Gs---v~G~~~~Dtv~iG 217 (450)
T PTZ00013 141 GEGEVGDNHQKFMLIFDTGSANLWVPSKKCDSIGCSIKNLYDSSKSKSYEKDGTKVDITYGSGT---VKGFFSKDLVTLG 217 (450)
T ss_pred EEEEECCCCeEEEEEEeCCCCceEEecccCCccccccCCCccCccCcccccCCcEEEEEECCce---EEEEEEEEEEEEC
Confidence 345555 799999999999999986432211 0 23344443 2344333356777
Q ss_pred ceeEEeeEEEc-C---------CCCceEEeCcch
Q 045784 59 GVPLIVDFYLL-P---------FEGYDVVLDTQW 82 (90)
Q Consensus 59 ~~~~~~~~~v~-~---------~~~~dvILG~~w 82 (90)
+......|... + ...+|-|||+.|
T Consensus 218 ~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~ 251 (450)
T PTZ00013 218 HLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGW 251 (450)
T ss_pred CEEEccEEEEEEeccccccceecccccceecccC
Confidence 76655444332 1 124789999976
No 39
>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an
Probab=94.44 E-value=0.36 Score=34.17 Aligned_cols=76 Identities=12% Similarity=0.117 Sum_probs=45.0
Q ss_pred EEEEEcCCCCcccccHHhhhee----e-EEecCCC-eeeeec--eeeeeEEEEeceeEEee---EE--------------
Q 045784 13 VTVLIDSRRTHNFVRQELAVKL----N-VMVASGE-RFSSLG--TCLQTLIKLQGVPLIVD---FY-------------- 67 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l----~-v~~a~G~-~~~~~~--~~~~~~i~i~~~~~~~~---~~-------------- 67 (90)
..+++|||++..++.++.++.+ . ....++. .+.|.. ..+.+.+.++++.+..+ +.
T Consensus 211 ~~~iiDSGtt~~~lP~~~~~~l~~~~~~~~~~~~~~~~~C~~~~~~p~i~f~fgg~~~~i~~~~yi~~~~~~~~~~C~~~ 290 (329)
T cd05485 211 CQAIADTGTSLIAGPVDEIEKLNNAIGAKPIIGGEYMVNCSAIPSLPDITFVLGGKSFSLTGKDYVLKVTQMGQTICLSG 290 (329)
T ss_pred cEEEEccCCcceeCCHHHHHHHHHHhCCccccCCcEEEeccccccCCcEEEEECCEEeEEChHHeEEEecCCCCCEEeee
Confidence 3699999999999999988877 1 1112221 123321 22456677777655422 11
Q ss_pred EcC-----CCCceEEeCcchhhhcCC
Q 045784 68 LLP-----FEGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 68 v~~-----~~~~dvILG~~wL~~~~p 88 (90)
+.+ ..+...|||..||+.+-.
T Consensus 291 ~~~~~~~~~~~~~~IlG~~fl~~~y~ 316 (329)
T cd05485 291 FMGIDIPPPAGPLWILGDVFIGKYYT 316 (329)
T ss_pred EEECcCCCCCCCeEEEchHHhccceE
Confidence 111 112358999999998753
No 40
>PTZ00147 plasmepsin-1; Provisional
Probab=94.39 E-value=0.56 Score=35.19 Aligned_cols=76 Identities=14% Similarity=0.236 Sum_probs=46.4
Q ss_pred EEEEEC--CEEEEEEEcCCCCcccccHHhhh------e--e---------------eEEecCCCeeeeeceeeeeEEEEe
Q 045784 4 VIGRLV--HKVVTVLIDSRRTHNFVRQELAV------K--L---------------NVMVASGERFSSLGTCLQTLIKLQ 58 (90)
Q Consensus 4 v~~~i~--~~~~~aLiDsGA~~~~i~~~~a~------~--l---------------~v~~a~G~~~~~~~~~~~~~i~i~ 58 (90)
.+..|. .++..+++||||+..++...-.. . . .+...+|. ..|....=.+.++
T Consensus 142 ~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~Gs---vsG~~~~DtVtiG 218 (453)
T PTZ00147 142 GEAKLGDNGQKFNFIFDTGSANLWVPSIKCTTEGCETKNLYDSSKSKTYEKDGTKVEMNYVSGT---VSGFFSKDLVTIG 218 (453)
T ss_pred EEEEECCCCeEEEEEEeCCCCcEEEeecCCCcccccCCCccCCccCcceEECCCEEEEEeCCCC---EEEEEEEEEEEEC
Confidence 455665 78999999999999998643211 0 0 34445553 2344433356777
Q ss_pred ceeEEeeEEEcC----------CCCceEEeCcch
Q 045784 59 GVPLIVDFYLLP----------FEGYDVVLDTQW 82 (90)
Q Consensus 59 ~~~~~~~~~v~~----------~~~~dvILG~~w 82 (90)
+...+..|.... ....|-|||+.|
T Consensus 219 ~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~ 252 (453)
T PTZ00147 219 NLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGW 252 (453)
T ss_pred CEEEEEEEEEEEeccCcccccccccccceecccC
Confidence 766554443321 124789999987
No 41
>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins. Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro
Probab=93.76 E-value=0.44 Score=33.53 Aligned_cols=22 Identities=9% Similarity=0.087 Sum_probs=19.8
Q ss_pred EEEEEcCCCCcccccHHhhhee
Q 045784 13 VTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l 34 (90)
..|++|||++..+..+++++++
T Consensus 211 ~~aivDTGTs~~~lP~~~~~~i 232 (317)
T cd06098 211 CAAIADSGTSLLAGPTTIVTQI 232 (317)
T ss_pred cEEEEecCCcceeCCHHHHHhh
Confidence 4699999999999999998876
No 42
>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=93.33 E-value=0.091 Score=35.57 Aligned_cols=25 Identities=8% Similarity=0.069 Sum_probs=22.5
Q ss_pred CEEEEEEEcCCCCcccccHHhhhee
Q 045784 10 HKVVTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~~~a~~l 34 (90)
.....++||||++..++.++..+++
T Consensus 200 ~~~~~~iiDsGt~~~~lp~~~~~~l 224 (283)
T cd05471 200 SGGGGAIVDSGTSLIYLPSSVYDAI 224 (283)
T ss_pred CCCcEEEEecCCCCEeCCHHHHHHH
Confidence 3467899999999999999999988
No 43
>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=93.32 E-value=0.36 Score=33.98 Aligned_cols=75 Identities=13% Similarity=0.191 Sum_probs=44.9
Q ss_pred EEEEEcCCCCcccccHHhhhee--eEE--e-cCCC-eeeeec--eeeeeEEEEeceeEEee---E----------EEcC-
Q 045784 13 VTVLIDSRRTHNFVRQELAVKL--NVM--V-ASGE-RFSSLG--TCLQTLIKLQGVPLIVD---F----------YLLP- 70 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l--~v~--~-a~G~-~~~~~~--~~~~~~i~i~~~~~~~~---~----------~v~~- 70 (90)
..+++|||++..++.++.++.+ .+. . .++. .+.|.. ..+.+.+.+++..+... + .+.+
T Consensus 206 ~~~ivDSGtt~~~lp~~~~~~l~~~~~~~~~~~~~~~~~C~~~~~~P~i~f~f~g~~~~i~~~~y~~~~~g~C~~~~~~~ 285 (320)
T cd05488 206 TGAAIDTGTSLIALPSDLAEMLNAEIGAKKSWNGQYTVDCSKVDSLPDLTFNFDGYNFTLGPFDYTLEVSGSCISAFTGM 285 (320)
T ss_pred CeEEEcCCcccccCCHHHHHHHHHHhCCccccCCcEEeeccccccCCCEEEEECCEEEEECHHHheecCCCeEEEEEEEC
Confidence 4689999999999999998887 111 1 1221 123321 13456677777655422 1 1111
Q ss_pred -C---CCceEEeCcchhhhcC
Q 045784 71 -F---EGYDVVLDTQWLSTFG 87 (90)
Q Consensus 71 -~---~~~dvILG~~wL~~~~ 87 (90)
. .+...|||..||+.+-
T Consensus 286 ~~~~~~~~~~ilG~~fl~~~y 306 (320)
T cd05488 286 DFPEPVGPLAIVGDAFLRKYY 306 (320)
T ss_pred cCCCCCCCeEEEchHHhhheE
Confidence 1 1235899999998764
No 44
>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=92.90 E-value=1.3 Score=30.49 Aligned_cols=27 Identities=7% Similarity=0.080 Sum_probs=22.1
Q ss_pred EEEEEECC--EEEEEEEcCCCCcccccHH
Q 045784 3 RVIGRLVH--KVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 3 ~v~~~i~~--~~~~aLiDsGA~~~~i~~~ 29 (90)
.++..|++ ++..+++||||+..++..+
T Consensus 2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~ 30 (278)
T cd06097 2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSS 30 (278)
T ss_pred eeeEEECCCCcEEEEEEeCCCCceeEeeC
Confidence 35667777 9999999999999988644
No 45
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=92.47 E-value=2.4 Score=29.91 Aligned_cols=26 Identities=12% Similarity=0.054 Sum_probs=21.4
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
.++..|. .++..+++|||++..++..
T Consensus 10 ~~~i~iGtP~q~~~v~~DTGSs~~Wv~~ 37 (326)
T cd05487 10 YGEIGIGTPPQTFKVVFDTGSSNLWVPS 37 (326)
T ss_pred EEEEEECCCCcEEEEEEeCCccceEEcc
Confidence 4556666 7999999999999999963
No 46
>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=92.03 E-value=0.67 Score=32.57 Aligned_cols=76 Identities=14% Similarity=0.133 Sum_probs=44.7
Q ss_pred EEEEEcCCCCcccccHHhhhee-----eEEecCCC-eeeeec--eeeeeEEEEeceeEEee---EE--------------
Q 045784 13 VTVLIDSRRTHNFVRQELAVKL-----NVMVASGE-RFSSLG--TCLQTLIKLQGVPLIVD---FY-------------- 67 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l-----~v~~a~G~-~~~~~~--~~~~~~i~i~~~~~~~~---~~-------------- 67 (90)
..|+||||++..++.++.++++ .....+|. .+.|.. ..+.+.+.+++..+..+ ++
T Consensus 207 ~~aiiDSGTt~~~~p~~~~~~l~~~~~~~~~~~~~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~y~~~~~~~~~~~C~~~ 286 (325)
T cd05490 207 CEAIVDTGTSLITGPVEEVRALQKAIGAVPLIQGEYMIDCEKIPTLPVISFSLGGKVYPLTGEDYILKVSQRGTTICLSG 286 (325)
T ss_pred CEEEECCCCccccCCHHHHHHHHHHhCCccccCCCEEecccccccCCCEEEEECCEEEEEChHHeEEeccCCCCCEEeeE
Confidence 4799999999999999988877 11111221 233321 22446666776644321 11
Q ss_pred Ec--CC---CCceEEeCcchhhhcCC
Q 045784 68 LL--PF---EGYDVVLDTQWLSTFGL 88 (90)
Q Consensus 68 v~--~~---~~~dvILG~~wL~~~~p 88 (90)
+. +. .+...|||..||+++-.
T Consensus 287 ~~~~~~~~~~~~~~ilGd~flr~~y~ 312 (325)
T cd05490 287 FMGLDIPPPAGPLWILGDVFIGRYYT 312 (325)
T ss_pred EEECCCCCCCCceEEEChHhheeeEE
Confidence 11 11 12357999999998743
No 47
>PTZ00013 plasmepsin 4 (PM4); Provisional
Probab=91.49 E-value=0.8 Score=34.36 Aligned_cols=76 Identities=16% Similarity=0.118 Sum_probs=44.0
Q ss_pred EEEEEEcCCCCcccccHHhhhee--eEEe----cCCC-eeeee-ceeeeeEEEEeceeEEe-----------------eE
Q 045784 12 VVTVLIDSRRTHNFVRQELAVKL--NVMV----ASGE-RFSSL-GTCLQTLIKLQGVPLIV-----------------DF 66 (90)
Q Consensus 12 ~~~aLiDsGA~~~~i~~~~a~~l--~v~~----a~G~-~~~~~-~~~~~~~i~i~~~~~~~-----------------~~ 66 (90)
...|++|||++..++.++.++++ .+.. ..+. ...|. ...+.+.+.+++..+.. -+
T Consensus 331 ~~~aIlDSGTSli~lP~~~~~~i~~~l~~~~~~~~~~y~~~C~~~~lP~i~F~~~g~~~~L~p~~Yi~~~~~~~~~~C~~ 410 (450)
T PTZ00013 331 KANVIVDSGTTTITAPSEFLNKFFANLNVIKVPFLPFYVTTCDNKEMPTLEFKSANNTYTLEPEYYMNPLLDVDDTLCMI 410 (450)
T ss_pred ccceEECCCCccccCCHHHHHHHHHHhCCeecCCCCeEEeecCCCCCCeEEEEECCEEEEECHHHheehhccCCCCeeEE
Confidence 35699999999999999988877 2211 1111 12232 12344556666544321 12
Q ss_pred EEcCC--CCceEEeCcchhhhcC
Q 045784 67 YLLPF--EGYDVVLDTQWLSTFG 87 (90)
Q Consensus 67 ~v~~~--~~~dvILG~~wL~~~~ 87 (90)
.+.+. .+...|||-.||+++-
T Consensus 411 ~i~~~~~~~~~~ILGd~FLr~~Y 433 (450)
T PTZ00013 411 TMLPVDIDDNTFILGDPFMRKYF 433 (450)
T ss_pred EEEECCCCCCCEEECHHHhccEE
Confidence 22222 2235899999999864
No 48
>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=91.12 E-value=3 Score=29.18 Aligned_cols=26 Identities=15% Similarity=0.046 Sum_probs=21.2
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
..+..|. .+++.+++||||+..++..
T Consensus 5 ~~~i~iGtP~q~~~v~~DTGS~~~wv~~ 32 (318)
T cd05477 5 YGEISIGTPPQNFLVLFDTGSSNLWVPS 32 (318)
T ss_pred EEEEEECCCCcEEEEEEeCCCccEEEcc
Confidence 4556666 4899999999999999874
No 49
>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=90.97 E-value=2 Score=29.38 Aligned_cols=75 Identities=12% Similarity=0.081 Sum_probs=46.5
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHHhhheeeEEecCCCeeeeeceeeeeEEEEece--eEE-eeEEEcCC------
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQELAVKLNVMVASGERFSSLGTCLQTLIKLQGV--PLI-VDFYLLPF------ 71 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~~a~~l~v~~a~G~~~~~~~~~~~~~i~i~~~--~~~-~~~~v~~~------ 71 (90)
.++..|. .++..+++||||+..++.. ....+...+|+.. .|....=.+.+++. ... ..|-+...
T Consensus 3 ~~~i~iGtP~q~~~v~~DTGSs~~wv~~---~~~~~~Y~dg~~~--~G~~~~D~v~~g~~~~~~~~~~Fg~~~~~~~~~~ 77 (265)
T cd05476 3 LVTLSIGTPPQPFSLIVDTGSDLTWTQC---CSYEYSYGDGSST--SGVLATETFTFGDSSVSVPNVAFGCGTDNEGGSF 77 (265)
T ss_pred EEEEecCCCCcceEEEecCCCCCEEEcC---CceEeEeCCCcee--eeeEEEEEEEecCCCCccCCEEEEecccccCCcc
Confidence 4556666 6899999999999999864 3345566655433 33333335666665 222 33444432
Q ss_pred CCceEEeCcch
Q 045784 72 EGYDVVLDTQW 82 (90)
Q Consensus 72 ~~~dvILG~~w 82 (90)
...|-|||+.+
T Consensus 78 ~~~~GIlGLg~ 88 (265)
T cd05476 78 GGADGILGLGR 88 (265)
T ss_pred CCCCEEEECCC
Confidence 24889999875
No 50
>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=90.84 E-value=3.1 Score=29.80 Aligned_cols=27 Identities=11% Similarity=0.107 Sum_probs=21.5
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~ 29 (90)
.++..|. .++..+++||||+..++..+
T Consensus 5 ~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~ 33 (364)
T cd05473 5 YIEMLIGTPPQKLNILVDTGSSNFAVAAA 33 (364)
T ss_pred EEEEEecCCCceEEEEEecCCcceEEEcC
Confidence 4556666 58999999999999988654
No 51
>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=90.13 E-value=0.31 Score=28.65 Aligned_cols=26 Identities=15% Similarity=0.110 Sum_probs=21.0
Q ss_pred EEEECC--EEEEEEEcCCCCcccccHHh
Q 045784 5 IGRLVH--KVVTVLIDSRRTHNFVRQEL 30 (90)
Q Consensus 5 ~~~i~~--~~~~aLiDsGA~~~~i~~~~ 30 (90)
+..|.. +++.+++||||+..++..+-
T Consensus 2 ~i~vGtP~q~~~~~~DTGSs~~Wv~~~~ 29 (109)
T cd05470 2 EIGIGTPPQTFNVLLDTGSSNLWVPSVD 29 (109)
T ss_pred EEEeCCCCceEEEEEeCCCCCEEEeCCC
Confidence 456665 99999999999998887653
No 52
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=89.62 E-value=2.9 Score=28.99 Aligned_cols=78 Identities=17% Similarity=0.074 Sum_probs=45.8
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHHhhheeeEEecCCCeeeeeceeeeeEEEEece-eEE-eeEEEcCC-----CC
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQELAVKLNVMVASGERFSSLGTCLQTLIKLQGV-PLI-VDFYLLPF-----EG 73 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~~a~~l~v~~a~G~~~~~~~~~~~~~i~i~~~-~~~-~~~~v~~~-----~~ 73 (90)
.++..|. .++..+++||||+..++..+-.....+...+|... .|....=++.+++. ..+ ..|-+... ..
T Consensus 3 ~~~i~iGtP~q~~~v~~DTGSs~~Wv~c~~c~~~~i~Yg~Gs~~--~G~~~~D~v~ig~~~~~~~~~Fg~~~~~~~~~~~ 80 (299)
T cd05472 3 VVTVGLGTPARDQTVIVDTGSDLTWVQCQPCCLYQVSYGDGSYT--TGDLATDTLTLGSSDVVPGFAFGCGHDNEGLFGG 80 (299)
T ss_pred EEEEecCCCCcceEEEecCCCCcccccCCCCCeeeeEeCCCceE--EEEEEEEEEEeCCCCccCCEEEECCccCCCccCC
Confidence 4556666 58999999999999998432112336677777643 23332224555654 322 23333321 14
Q ss_pred ceEEeCcch
Q 045784 74 YDVVLDTQW 82 (90)
Q Consensus 74 ~dvILG~~w 82 (90)
.|-|||+.+
T Consensus 81 ~~GilGLg~ 89 (299)
T cd05472 81 AAGLLGLGR 89 (299)
T ss_pred CCEEEECCC
Confidence 788999875
No 53
>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily. Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro
Probab=89.36 E-value=5.7 Score=27.91 Aligned_cols=26 Identities=15% Similarity=0.103 Sum_probs=21.1
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
.++..|+ .++..+++|||++..++..
T Consensus 12 ~~~i~iGtp~q~~~v~~DTGSs~~wv~~ 39 (320)
T cd05488 12 FTDITLGTPPQKFKVILDTGSSNLWVPS 39 (320)
T ss_pred EEEEEECCCCcEEEEEEecCCcceEEEc
Confidence 4566666 5999999999999998864
No 54
>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=89.36 E-value=3.7 Score=28.76 Aligned_cols=25 Identities=16% Similarity=0.117 Sum_probs=20.0
Q ss_pred EEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 4 VIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 4 v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
.+..|. .++..+++||||+..++..
T Consensus 3 ~~i~iGtP~Q~~~v~~DTGSs~~Wv~s 29 (316)
T cd05486 3 GQISIGTPPQNFTVIFDTGSSNLWVPS 29 (316)
T ss_pred EEEEECCCCcEEEEEEcCCCccEEEec
Confidence 455565 6889999999999998864
No 55
>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases. Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank
Probab=89.24 E-value=5 Score=28.15 Aligned_cols=25 Identities=16% Similarity=0.085 Sum_probs=20.6
Q ss_pred EEEEEEC--CEEEEEEEcCCCCccccc
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVR 27 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~ 27 (90)
.++..|. .++..+++||||+..++.
T Consensus 8 ~~~i~iGtP~q~~~v~~DTGSs~~Wv~ 34 (325)
T cd05490 8 YGEIGIGTPPQTFTVVFDTGSSNLWVP 34 (325)
T ss_pred EEEEEECCCCcEEEEEEeCCCccEEEE
Confidence 4566776 489999999999999985
No 56
>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=89.20 E-value=5.1 Score=28.13 Aligned_cols=26 Identities=15% Similarity=0.057 Sum_probs=21.2
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
.++..|. .++..+++||||+..++..
T Consensus 12 ~~~i~iGtP~Q~~~v~~DTGSs~lWv~~ 39 (317)
T cd06098 12 FGEIGIGTPPQKFTVIFDTGSSNLWVPS 39 (317)
T ss_pred EEEEEECCCCeEEEEEECCCccceEEec
Confidence 4566676 6899999999999988865
No 57
>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=88.73 E-value=5.9 Score=27.21 Aligned_cols=41 Identities=15% Similarity=0.117 Sum_probs=27.6
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHH-----hhheeeEEecCCCe
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQE-----LAVKLNVMVASGER 43 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~-----~a~~l~v~~a~G~~ 43 (90)
.++..|. .++..+++||||+..++.-+ +.....+..++|+.
T Consensus 4 ~~~i~iGtP~q~~~v~~DTGS~~~Wv~c~~~c~~c~c~~~i~Ygd~~~ 51 (273)
T cd05475 4 YVTINIGNPPKPYFLDIDTGSDLTWLQCDAPCTGCQCDYEIEYADGGS 51 (273)
T ss_pred EEEEEcCCCCeeEEEEEccCCCceEEeCCCCCCCCcCccEeEeCCCCc
Confidence 4556666 78999999999999999531 11223666665543
No 58
>PTZ00165 aspartyl protease; Provisional
Probab=88.09 E-value=2.8 Score=31.77 Aligned_cols=23 Identities=13% Similarity=-0.008 Sum_probs=20.3
Q ss_pred EEEEEEcCCCCcccccHHhhhee
Q 045784 12 VVTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 12 ~~~aLiDsGA~~~~i~~~~a~~l 34 (90)
...|++|||++.....++.++++
T Consensus 327 ~~~aIiDTGTSli~lP~~~~~~i 349 (482)
T PTZ00165 327 KCKAAIDTGSSLITGPSSVINPL 349 (482)
T ss_pred ceEEEEcCCCccEeCCHHHHHHH
Confidence 34699999999999999998877
No 59
>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=88.04 E-value=5.9 Score=27.74 Aligned_cols=26 Identities=15% Similarity=0.097 Sum_probs=21.0
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~ 28 (90)
.++..|. .++..+++||||+..++..
T Consensus 12 ~~~i~vGtp~q~~~v~~DTGS~~~wv~~ 39 (317)
T cd05478 12 YGTISIGTPPQDFTVIFDTGSSNLWVPS 39 (317)
T ss_pred EEEEEeCCCCcEEEEEEeCCCccEEEec
Confidence 3456666 5899999999999999864
No 60
>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure. Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r
Probab=79.27 E-value=8.3 Score=27.15 Aligned_cols=75 Identities=16% Similarity=0.119 Sum_probs=43.4
Q ss_pred EEEEEcCCCCcccccHHhhhee----eEEecCCC-eeeeec--eeeeeEEEEeceeEEee---------------E--EE
Q 045784 13 VTVLIDSRRTHNFVRQELAVKL----NVMVASGE-RFSSLG--TCLQTLIKLQGVPLIVD---------------F--YL 68 (90)
Q Consensus 13 ~~aLiDsGA~~~~i~~~~a~~l----~v~~a~G~-~~~~~~--~~~~~~i~i~~~~~~~~---------------~--~v 68 (90)
..+++|||++..+..++..+++ ......+. ...|.. ..+.+.+.+++..+... + .+
T Consensus 208 ~~aiiDSGts~~~lP~~~~~~l~~~~~~~~~~~~y~~~C~~~~~~P~i~f~fgg~~~~v~~~~yi~~~~~~~~~~C~~~~ 287 (326)
T cd05487 208 CTAVVDTGASFISGPTSSISKLMEALGAKERLGDYVVKCNEVPTLPDISFHLGGKEYTLSSSDYVLQDSDFSDKLCTVAF 287 (326)
T ss_pred CEEEECCCccchhCcHHHHHHHHHHhCCcccCCCEEEeccccCCCCCEEEEECCEEEEeCHHHhEEeccCCCCCEEEEEE
Confidence 3589999999999999988877 11111121 233332 12445666666544321 1 11
Q ss_pred cCC-----CCceEEeCcchhhhcC
Q 045784 69 LPF-----EGYDVVLDTQWLSTFG 87 (90)
Q Consensus 69 ~~~-----~~~dvILG~~wL~~~~ 87 (90)
... .+...|||..||+.+-
T Consensus 288 ~~~~~~~~~~~~~ilG~~flr~~y 311 (326)
T cd05487 288 HAMDIPPPTGPLWVLGATFIRKFY 311 (326)
T ss_pred EeCCCCCCCCCeEEEehHHhhccE
Confidence 111 1124799999999864
No 61
>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=78.29 E-value=2.2 Score=29.54 Aligned_cols=21 Identities=24% Similarity=0.178 Sum_probs=19.4
Q ss_pred EEEEcCCCCcccccHHhhhee
Q 045784 14 TVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l 34 (90)
.+++|||++..++.++..+++
T Consensus 173 ~~ivDSGTt~~~lp~~~~~~l 193 (299)
T cd05472 173 GVIIDSGTVITRLPPSAYAAL 193 (299)
T ss_pred CeEEeCCCcceecCHHHHHHH
Confidence 589999999999999998887
No 62
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=74.18 E-value=2 Score=27.76 Aligned_cols=27 Identities=26% Similarity=0.395 Sum_probs=22.5
Q ss_pred CEEEEEEECCEEEEEEEcCCCCcccccHH
Q 045784 1 MIRVIGRLVHKVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 1 ~~~v~~~i~~~~~~aLiDsGA~~~~i~~~ 29 (90)
.|+|+|+++. +-++|||.| |-.||..+
T Consensus 72 SlYVPGkl~d-~~k~lVDIG-TGYyVEK~ 98 (153)
T KOG3048|consen 72 SLYVPGKLSD-NSKFLVDIG-TGYYVEKD 98 (153)
T ss_pred ceeccceecc-ccceeEecc-CceEEeec
Confidence 4789999988 889999999 77777544
No 63
>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=72.27 E-value=4.3 Score=29.10 Aligned_cols=21 Identities=14% Similarity=0.091 Sum_probs=19.4
Q ss_pred EEEEcCCCCcccccHHhhhee
Q 045784 14 TVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l 34 (90)
.+++|||++..++.++..+++
T Consensus 213 ~~ivDSGTs~~~lp~~~~~~l 233 (364)
T cd05473 213 KAIVDSGTTNLRLPVKVFNAA 233 (364)
T ss_pred cEEEeCCCcceeCCHHHHHHH
Confidence 489999999999999998887
No 64
>PF14543 TAXi_N: Xylanase inhibitor N-terminal; PDB: 3HD8_A 3VLB_A 3VLA_A 3AUP_D 1T6G_A 1T6E_X 2B42_A.
Probab=70.75 E-value=7.6 Score=24.82 Aligned_cols=24 Identities=13% Similarity=0.198 Sum_probs=18.6
Q ss_pred EEEEEECC--EEEEEEEcCCCCcccc
Q 045784 3 RVIGRLVH--KVVTVLIDSRRTHNFV 26 (90)
Q Consensus 3 ~v~~~i~~--~~~~aLiDsGA~~~~i 26 (90)
.++..|.. ++..+.+|||++..++
T Consensus 2 ~~~~~iGtP~~~~~lvvDtgs~l~W~ 27 (164)
T PF14543_consen 2 YVSVSIGTPPQPFSLVVDTGSDLTWV 27 (164)
T ss_dssp EEEEECTCTTEEEEEEEETT-SSEEE
T ss_pred EEEEEeCCCCceEEEEEECCCCceEE
Confidence 45666665 7999999999999886
No 65
>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=67.59 E-value=9.4 Score=26.98 Aligned_cols=27 Identities=11% Similarity=0.135 Sum_probs=21.9
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~ 29 (90)
.++..|. .++..+++||||+..++...
T Consensus 13 ~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~ 41 (329)
T cd05485 13 YGVITIGTPPQSFKVVFDTGSSNLWVPSK 41 (329)
T ss_pred EEEEEECCCCcEEEEEEcCCCccEEEecC
Confidence 4567777 58999999999999888753
No 66
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=66.11 E-value=24 Score=20.55 Aligned_cols=21 Identities=10% Similarity=0.009 Sum_probs=15.5
Q ss_pred EEEEECCEEEEEEEcCCCCcc
Q 045784 4 VIGRLVHKVVTVLIDSRRTHN 24 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~ 24 (90)
-...|||+++.+.+|......
T Consensus 22 ~~~~InG~~~~~v~d~~~~~~ 42 (95)
T PF13856_consen 22 EEHTINGKPYRAVFDEPELEE 42 (95)
T ss_dssp EEEEETTEEEEEEEGGGT---
T ss_pred CeEEECCEEEEEEECCchhhh
Confidence 467899999999999874444
No 67
>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=66.08 E-value=11 Score=26.50 Aligned_cols=27 Identities=4% Similarity=-0.102 Sum_probs=21.3
Q ss_pred EEEEEEC--CEEEEEEEcCCCCcccccHH
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~~~ 29 (90)
.++..|. .++..+++||||+..++...
T Consensus 5 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~ 33 (326)
T cd06096 5 FIDIFIGNPPQKQSLILDTGSSSLSFPCS 33 (326)
T ss_pred EEEEEecCCCeEEEEEEeCCCCceEEecC
Confidence 4556666 58999999999999987653
No 68
>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=64.89 E-value=12 Score=26.37 Aligned_cols=33 Identities=24% Similarity=0.154 Sum_probs=23.0
Q ss_pred EEEEEEECCEE--EEEEEcCCCCc---------ccccHHhhhee
Q 045784 2 IRVIGRLVHKV--VTVLIDSRRTH---------NFVRQELAVKL 34 (90)
Q Consensus 2 ~~v~~~i~~~~--~~aLiDsGA~~---------~~i~~~~a~~l 34 (90)
..++..++|+. ++||+|||.+. .+++.+.++++
T Consensus 158 ~~v~i~~~~~~~~~~allDTGN~L~DPitg~PV~Vve~~~~~~~ 201 (293)
T PF03419_consen 158 YPVTIEIGGKKIELKALLDTGNQLRDPITGRPVIVVEYEALEKL 201 (293)
T ss_pred EEEEEEECCEEEEEEEEEECCCcccCCCCCCcEEEEEHHHHHhh
Confidence 45677778765 56999999764 36666666655
No 69
>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=61.72 E-value=11 Score=25.29 Aligned_cols=27 Identities=11% Similarity=0.030 Sum_probs=20.6
Q ss_pred EEEEECC--EEEEEEEcCCCCcccccHHh
Q 045784 4 VIGRLVH--KVVTVLIDSRRTHNFVRQEL 30 (90)
Q Consensus 4 v~~~i~~--~~~~aLiDsGA~~~~i~~~~ 30 (90)
++..|.. ++..+++|||++..++..+-
T Consensus 3 ~~i~iGtp~q~~~l~~DTGS~~~wv~~~~ 31 (283)
T cd05471 3 GEITIGTPPQKFSVIFDTGSSLLWVPSSN 31 (283)
T ss_pred EEEEECCCCcEEEEEEeCCCCCEEEecCC
Confidence 4555654 58999999999998886653
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=61.40 E-value=17 Score=25.75 Aligned_cols=33 Identities=12% Similarity=0.019 Sum_probs=22.0
Q ss_pred EEEEEEECCEE--EEEEEcCCCCc---------ccccHHhhhee
Q 045784 2 IRVIGRLVHKV--VTVLIDSRRTH---------NFVRQELAVKL 34 (90)
Q Consensus 2 ~~v~~~i~~~~--~~aLiDsGA~~---------~~i~~~~a~~l 34 (90)
..++..++|+. +++|+|||.+. ..++.+.++++
T Consensus 159 ~~v~i~~~g~~~~~~alvDTGN~L~DPlT~~PV~Ive~~~~~~~ 202 (288)
T TIGR02854 159 YELEICLDGKKVTIKGFLDTGNQLRDPLTKLPVIVVEYDSLKSI 202 (288)
T ss_pred EEEEEEECCEEEEEEEEEecCCcccCCCCCCCEEEEEHHHhhhh
Confidence 35667778755 57999999763 45555555544
No 71
>PLN03146 aspartyl protease family protein; Provisional
Probab=52.48 E-value=22 Score=26.43 Aligned_cols=25 Identities=4% Similarity=-0.049 Sum_probs=19.8
Q ss_pred EEEEEEC--CEEEEEEEcCCCCccccc
Q 045784 3 RVIGRLV--HKVVTVLIDSRRTHNFVR 27 (90)
Q Consensus 3 ~v~~~i~--~~~~~aLiDsGA~~~~i~ 27 (90)
.++..|. .++..+++|||++..++.
T Consensus 86 ~v~i~iGTPpq~~~vi~DTGS~l~Wv~ 112 (431)
T PLN03146 86 LMNISIGTPPVPILAIADTGSDLIWTQ 112 (431)
T ss_pred EEEEEcCCCCceEEEEECCCCCcceEc
Confidence 4555665 478889999999999985
No 72
>PTZ00165 aspartyl protease; Provisional
Probab=52.47 E-value=22 Score=26.98 Aligned_cols=27 Identities=11% Similarity=0.081 Sum_probs=21.4
Q ss_pred EEEEEECC--EEEEEEEcCCCCcccccHH
Q 045784 3 RVIGRLVH--KVVTVLIDSRRTHNFVRQE 29 (90)
Q Consensus 3 ~v~~~i~~--~~~~aLiDsGA~~~~i~~~ 29 (90)
..+..|.. ++..+++||||+.-++...
T Consensus 122 ~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~ 150 (482)
T PTZ00165 122 FGEIQVGTPPKSFVVVFDTGSSNLWIPSK 150 (482)
T ss_pred EEEEEeCCCCceEEEEEeCCCCCEEEEch
Confidence 34566665 8999999999999988653
No 73
>KOG0679 consensus Actin-related protein - Arp4p/Act3p [Cytoskeleton]
Probab=52.25 E-value=7.3 Score=29.12 Aligned_cols=21 Identities=19% Similarity=0.235 Sum_probs=17.3
Q ss_pred ECCEEEEEEEcCCCCcccccH
Q 045784 8 LVHKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 8 i~~~~~~aLiDsGA~~~~i~~ 28 (90)
=+|+....++|+||+++-+++
T Consensus 150 A~GrstalVvDiGa~~~svsP 170 (426)
T KOG0679|consen 150 ANGRSTALVVDIGATHTSVSP 170 (426)
T ss_pred hcCCCceEEEEecCCCceeee
Confidence 368899999999999986654
No 74
>PF14541 TAXi_C: Xylanase inhibitor C-terminal; PDB: 3AUP_D 3HD8_A 1T6G_A 1T6E_X 2B42_A 3VLB_A 3VLA_A.
Probab=49.22 E-value=11 Score=23.79 Aligned_cols=21 Identities=24% Similarity=0.284 Sum_probs=17.7
Q ss_pred EEEEcCCCCcccccHHhhhee
Q 045784 14 TVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l 34 (90)
.++||||++..++.+..-+.+
T Consensus 31 ~~iiDSGT~~T~L~~~~y~~l 51 (161)
T PF14541_consen 31 GTIIDSGTTYTYLPPPVYDAL 51 (161)
T ss_dssp SEEE-SSSSSEEEEHHHHHHH
T ss_pred CEEEECCCCccCCcHHHHHHH
Confidence 367999999999999988888
No 75
>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=48.38 E-value=17 Score=26.35 Aligned_cols=21 Identities=10% Similarity=0.146 Sum_probs=18.8
Q ss_pred EEEEcCCCCcccccHHhhhee
Q 045784 14 TVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l 34 (90)
.++||||.+..++.++..+.+
T Consensus 231 g~iiDSGTs~t~lp~~~y~~l 251 (362)
T cd05489 231 GVKLSTVVPYTVLRSDIYRAF 251 (362)
T ss_pred cEEEecCCceEEECHHHHHHH
Confidence 489999999999999888877
No 76
>KOG4584 consensus Uncharacterized conserved protein [General function prediction only]
Probab=46.87 E-value=15 Score=26.65 Aligned_cols=22 Identities=27% Similarity=0.548 Sum_probs=17.5
Q ss_pred ceeEEeeEEEcCCCCceEEeCc
Q 045784 59 GVPLIVDFYLLPFEGYDVVLDT 80 (90)
Q Consensus 59 ~~~~~~~~~v~~~~~~dvILG~ 80 (90)
+.++.+-..-.+-.|+|+|||+
T Consensus 196 ~~p~K~~lif~DNSG~DvILGi 217 (348)
T KOG4584|consen 196 GKPHKCALIFVDNSGFDVILGI 217 (348)
T ss_pred CCCcceEEEEecCCCcceeeee
Confidence 4566666777788999999997
No 77
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=35.10 E-value=25 Score=24.71 Aligned_cols=19 Identities=21% Similarity=0.123 Sum_probs=16.9
Q ss_pred CEEEEEEEcCCCCcccccH
Q 045784 10 HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~ 28 (90)
|.|+.|++||-+.-..||-
T Consensus 179 gIPVvAlvDTn~dpd~VD~ 197 (252)
T COG0052 179 GIPVVALVDTNCDPDGVDY 197 (252)
T ss_pred CCCEEEEecCCCCCccCce
Confidence 6799999999999888874
No 78
>KOG1339 consensus Aspartyl protease [Posttranslational modification, protein turnover, chaperones]
Probab=32.66 E-value=35 Score=24.89 Aligned_cols=22 Identities=18% Similarity=0.184 Sum_probs=18.0
Q ss_pred CEEEEEEEcCCCCcccccHHhh
Q 045784 10 HKVVTVLIDSRRTHNFVRQELA 31 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~~~a 31 (90)
.++..+++|||++..++.-...
T Consensus 57 pq~f~v~~DTGS~~lWV~c~~c 78 (398)
T KOG1339|consen 57 PQSFTVVLDTGSDLLWVPCAPC 78 (398)
T ss_pred CeeeEEEEeCCCCceeeccccc
Confidence 4779999999999998877444
No 79
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=31.84 E-value=66 Score=18.41 Aligned_cols=34 Identities=15% Similarity=0.224 Sum_probs=29.8
Q ss_pred EEEEEEECCEEEEEEEcCCCCcccccHHhhheee
Q 045784 2 IRVIGRLVHKVVTVLIDSRRTHNFVRQELAVKLN 35 (90)
Q Consensus 2 ~~v~~~i~~~~~~aLiDsGA~~~~i~~~~a~~l~ 35 (90)
|+|++..|+.-.++-+.+..+..=+-++++++++
T Consensus 1 ~~vK~~~~~d~~r~~l~~~~~~~~L~~~i~~r~~ 34 (82)
T cd06407 1 VRVKATYGEEKIRFRLPPSWGFTELKQEIAKRFK 34 (82)
T ss_pred CEEEEEeCCeEEEEEcCCCCCHHHHHHHHHHHhC
Confidence 6899999999999999999888888888888774
No 80
>KOG3101 consensus Esterase D [General function prediction only]
Probab=31.54 E-value=21 Score=24.98 Aligned_cols=27 Identities=22% Similarity=0.233 Sum_probs=20.4
Q ss_pred ECCEEEEEEEcCCCCcccccHHhhhee
Q 045784 8 LVHKVVTVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 8 i~~~~~~aLiDsGA~~~~i~~~~a~~l 34 (90)
.++.+..+|||.|+..+|..+++.-..
T Consensus 211 y~~~~~~ilIdqG~~D~Fl~~qLlPe~ 237 (283)
T KOG3101|consen 211 YRGVGDDILIDQGAADNFLAEQLLPEN 237 (283)
T ss_pred cCCCCccEEEecCccchhhhhhcChHH
Confidence 345566799999999999986665544
No 81
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=30.22 E-value=76 Score=20.00 Aligned_cols=39 Identities=21% Similarity=0.372 Sum_probs=26.8
Q ss_pred EEEEECCEEEEEEEcCCCCccc-----ccHHhhhee---------eEEecCCCeeeee
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNF-----VRQELAVKL---------NVMVASGERFSSL 47 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~-----i~~~~a~~l---------~v~~a~G~~~~~~ 47 (90)
+++|+....+ |+|..+| ||+++.++- -+.+.||.+.++.
T Consensus 6 LksKiHratV-----T~a~L~Y~GSitID~~Ll~aagi~p~E~V~V~Nv~NG~Rf~TY 58 (126)
T PRK05449 6 LKSKIHRATV-----TEADLNYEGSITIDEDLLDAAGILENEKVQIVNVNNGARFETY 58 (126)
T ss_pred hhhcccceEE-----eccccccceeEEECHHHHHhcCCCCCCEEEEEECCCCcEEEEE
Confidence 4566666666 7887776 678888777 3455678887663
No 82
>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=29.25 E-value=66 Score=23.93 Aligned_cols=26 Identities=12% Similarity=0.160 Sum_probs=21.1
Q ss_pred EEEEECCEEEEE-EEcCCCCcccccHH
Q 045784 4 VIGRLVHKVVTV-LIDSRRTHNFVRQE 29 (90)
Q Consensus 4 v~~~i~~~~~~a-LiDsGA~~~~i~~~ 29 (90)
+....||+.... .||||+...|....
T Consensus 246 ~tt~~~G~t~~~sf~DSGSNg~fF~d~ 272 (370)
T PF11925_consen 246 FTTTFNGQTYSASFFDSGSNGYFFPDS 272 (370)
T ss_pred EEEEecCceeeeeeEecCCceeeccCC
Confidence 456778888887 99999999998843
No 83
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=28.92 E-value=85 Score=19.36 Aligned_cols=39 Identities=21% Similarity=0.386 Sum_probs=26.5
Q ss_pred EEEEECCEEEEEEEcCCCCccc-----ccHHhhhee---------eEEecCCCeeeee
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNF-----VRQELAVKL---------NVMVASGERFSSL 47 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~-----i~~~~a~~l---------~v~~a~G~~~~~~ 47 (90)
+++|+....+ |+|..+| ||+++.+.- -+.+.||.+.++.
T Consensus 5 LksKiHratV-----T~a~L~YeGSitID~~Ll~aagi~~~E~V~I~Nv~NG~Rf~TY 57 (111)
T cd06919 5 LKSKIHRATV-----TEADLNYEGSITIDEDLLEAAGILPYEKVLVVNVNNGARFETY 57 (111)
T ss_pred hhhcccceEE-----eccccccceeEEECHHHHHhcCCCCCCEEEEEECCCCcEEEEE
Confidence 4556666666 7777776 678888776 3455678887663
No 84
>TIGR03711 acc_sec_asp3 accessory Sec system protein Asp3. This protein is designated Asp3 because, along with SecY2, SecA2, and other proteins it is part of the accessory Sec system. The system is involved in the export of serine-rich glycoproteins important for virulence in a number of Gram-positive species, including Streptococcus gordonii and Staphylococcus aureus. This protein family is assigned to transport rather than glycosylation function, but the specific molecular role is unknown.
Probab=28.83 E-value=94 Score=19.78 Aligned_cols=51 Identities=16% Similarity=0.168 Sum_probs=29.7
Q ss_pred EecCCCeeeeec---------eeeeeEEEEeceeEEeeEEEcCCCCceEEeCcchhhhcC
Q 045784 37 MVASGERFSSLG---------TCLQTLIKLQGVPLIVDFYLLPFEGYDVVLDTQWLSTFG 87 (90)
Q Consensus 37 ~~a~G~~~~~~~---------~~~~~~i~i~~~~~~~~~~v~~~~~~dvILG~~wL~~~~ 87 (90)
.++.|+.+.... ..+++|+--+|+.+...+.+--.+.--+.|-+.|+.+++
T Consensus 33 lMpsG~~I~~W~S~~nyq~~r~~P~LPlLk~g~~Y~i~~n~~~~P~~s~~~ki~F~dr~~ 92 (135)
T TIGR03711 33 LMPSGETIHTWSSLTNYQAARTVPSLPLLKRGQTYKLSLNADASPEGSVYLKITFFDRQG 92 (135)
T ss_pred CCCCCCEEEEEEeeecccccCCCCCCcEEcCCCEEEEEEeeeeCCCceEEEEEEEeccCC
Confidence 456677665432 235677777787776555443333445666666666654
No 85
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=28.25 E-value=1.2e+02 Score=18.48 Aligned_cols=28 Identities=14% Similarity=0.129 Sum_probs=21.0
Q ss_pred EEEEEEECCEEEEEE-EcCCCCcccccHHhhhee
Q 045784 2 IRVIGRLVHKVVTVL-IDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 2 ~~v~~~i~~~~~~aL-iDsGA~~~~i~~~~a~~l 34 (90)
|+|+..++++.+.|- .|+ --..+++++|
T Consensus 1 mkI~i~i~~~~~~a~L~d~-----~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITIGGQEIEAELNDS-----PTARAFAAQL 29 (120)
T ss_dssp EEEEEEETTEEEEEEEETT-----HHHHHHHHC-
T ss_pred CeEEEEECCEEEEEEECCC-----HHHHHHHHhC
Confidence 799999999999864 455 4556777777
No 86
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=28.25 E-value=1.2e+02 Score=17.50 Aligned_cols=33 Identities=9% Similarity=0.105 Sum_probs=25.8
Q ss_pred EEEEEEECCEEEEEEEcCCCCc--ccccHHhhhee
Q 045784 2 IRVIGRLVHKVVTVLIDSRRTH--NFVRQELAVKL 34 (90)
Q Consensus 2 ~~v~~~i~~~~~~aLiDsGA~~--~~i~~~~a~~l 34 (90)
+++++..+|..+.+.++..+.. .=+.+++++++
T Consensus 1 V~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf 35 (81)
T cd06396 1 VNLKVTYNGESQSFLVSDSENTTWASVEAMVKVSF 35 (81)
T ss_pred CEEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHh
Confidence 4799999999999999996644 44556677766
No 87
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=27.92 E-value=1e+02 Score=16.81 Aligned_cols=34 Identities=18% Similarity=0.218 Sum_probs=26.7
Q ss_pred CEEEEEEECCEEEE-EEEcCCCCcccccHHhhhee
Q 045784 1 MIRVIGRLVHKVVT-VLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 1 ~~~v~~~i~~~~~~-aLiDsGA~~~~i~~~~a~~l 34 (90)
|++++...++.... +-+..+.+..-+-..+++++
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~ 35 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKF 35 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHH
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHh
Confidence 78999999998888 77777776666666666665
No 88
>PF04746 DUF575: Protein of unknown function (DUF575); InterPro: IPR006835 This represents a conserved region found in a number of Chlamydophila pneumoniae proteins.
Probab=27.82 E-value=27 Score=20.95 Aligned_cols=12 Identities=25% Similarity=0.733 Sum_probs=9.2
Q ss_pred eEEeCcchhhhc
Q 045784 75 DVVLDTQWLSTF 86 (90)
Q Consensus 75 dvILG~~wL~~~ 86 (90)
.++.|++||-..
T Consensus 28 hiv~GieWLvS~ 39 (101)
T PF04746_consen 28 HIVMGIEWLVSR 39 (101)
T ss_pred eEEeehHHHHHH
Confidence 367899999654
No 89
>PF14612 Ino80_Iec3: IEC3 subunit of the Ino80 complex, chromatin re-modelling
Probab=27.29 E-value=26 Score=24.37 Aligned_cols=8 Identities=25% Similarity=0.642 Sum_probs=7.3
Q ss_pred chhhhcCC
Q 045784 81 QWLSTFGL 88 (90)
Q Consensus 81 ~wL~~~~p 88 (90)
+||++|.|
T Consensus 217 NWLRKh~P 224 (232)
T PF14612_consen 217 NWLRKHQP 224 (232)
T ss_pred HHHHhcCC
Confidence 79999987
No 90
>PF07341 DUF1473: Protein of unknown function (DUF1473); InterPro: IPR009941 This entry represents a family of hypothetical proteins of around 150 residues in length found in Borrelia species. The function of this family is unknown.
Probab=25.33 E-value=46 Score=21.56 Aligned_cols=29 Identities=17% Similarity=0.198 Sum_probs=23.7
Q ss_pred eEEEEeceeEEeeEEEcCCCCceEEeCcc
Q 045784 53 TLIKLQGVPLIVDFYLLPFEGYDVVLDTQ 81 (90)
Q Consensus 53 ~~i~i~~~~~~~~~~v~~~~~~dvILG~~ 81 (90)
+++--.++++.-.+.++|+=.+|-|||.|
T Consensus 5 lkILTk~Kt~~y~lk~ipvY~WDsiLGFd 33 (163)
T PF07341_consen 5 LKILTKNKTYTYDLKDIPVYEWDSILGFD 33 (163)
T ss_pred eeeeecCcceeeeccccchhhhhhhcccc
Confidence 44555677888889999999999999984
No 91
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=25.13 E-value=96 Score=19.56 Aligned_cols=39 Identities=28% Similarity=0.470 Sum_probs=26.1
Q ss_pred EEEEECCEEEEEEEcCCCCccc-----ccHHhhhee---------eEEecCCCeeeee
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNF-----VRQELAVKL---------NVMVASGERFSSL 47 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~-----i~~~~a~~l---------~v~~a~G~~~~~~ 47 (90)
+++|+....+ |+|..+| ||+++.+.- -+.+.||.+.++.
T Consensus 6 LksKIHratV-----T~a~L~Y~GSItID~~Lm~aagi~p~E~V~V~Nv~NG~Rf~TY 58 (126)
T TIGR00223 6 LQGKLHRATV-----THANLNYEGSITIDEDLLDAAGILENEKVDIVNVNNGKRFSTY 58 (126)
T ss_pred hhhhhcceEE-----eccccccceeEEECHHHHHhcCCCCCCEEEEEECCCCcEEEEE
Confidence 4556666666 7777776 678887776 3455678887663
No 92
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=23.66 E-value=89 Score=19.41 Aligned_cols=39 Identities=23% Similarity=0.433 Sum_probs=23.1
Q ss_pred EEEEECCEEEEEEEcCCCCccc-----ccHHhhhee------e---EEecCCCeeeee
Q 045784 4 VIGRLVHKVVTVLIDSRRTHNF-----VRQELAVKL------N---VMVASGERFSSL 47 (90)
Q Consensus 4 v~~~i~~~~~~aLiDsGA~~~~-----i~~~~a~~l------~---v~~a~G~~~~~~ 47 (90)
+++|+....+ |+|..+| ||+++.+.- . +.+.||.+.++.
T Consensus 6 LksKiHratV-----T~a~L~Y~GSitID~~Ll~aagi~p~E~V~V~Nv~nG~Rf~TY 58 (116)
T PF02261_consen 6 LKSKIHRATV-----TEADLNYEGSITIDEDLLDAAGILPYEQVQVVNVNNGERFETY 58 (116)
T ss_dssp EEEEEEEEE-------EEETTSTSCEEEEHHHHHHCT--TTBEEEEEETTT--EEEEE
T ss_pred hhhhhcceEE-----eccccccceeeEECHHHHHHcCCCcCCEEEEEECCCCcEEEEE
Confidence 5667766666 7777666 678887776 3 345668887663
No 93
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=23.42 E-value=47 Score=21.19 Aligned_cols=21 Identities=29% Similarity=0.222 Sum_probs=18.9
Q ss_pred EEEEcCCCCcccccHHhhhee
Q 045784 14 TVLIDSRRTHNFVRQELAVKL 34 (90)
Q Consensus 14 ~aLiDsGA~~~~i~~~~a~~l 34 (90)
.+.+|+|++...+-+.+.++.
T Consensus 22 ~Ifld~GtT~~~la~~L~~~~ 42 (161)
T PF00455_consen 22 TIFLDSGTTTLELAKYLPDKK 42 (161)
T ss_pred EEEEECchHHHHHHHHhhcCC
Confidence 478999999999999999985
No 94
>KOG3283 consensus 40S ribosomal protein S8 [Translation, ribosomal structure and biogenesis]
Probab=23.12 E-value=1e+02 Score=20.60 Aligned_cols=58 Identities=16% Similarity=0.176 Sum_probs=32.8
Q ss_pred EEEEECCEEEEEE-EcCCCCcccccHHhhheee---EEe--cCCCeeeeeceeeeeEEEEeceeE
Q 045784 4 VIGRLVHKVVTVL-IDSRRTHNFVRQELAVKLN---VMV--ASGERFSSLGTCLQTLIKLQGVPL 62 (90)
Q Consensus 4 v~~~i~~~~~~aL-iDsGA~~~~i~~~~a~~l~---v~~--a~G~~~~~~~~~~~~~i~i~~~~~ 62 (90)
|+++-.|+...|| +|+| ..|+.|+.+.++-. |.. .|.+-+.+..-...+-+.++..+|
T Consensus 46 VRvRGGN~KyrALRlD~G-nfsw~Se~~trktri~dvvY~~snneLVRT~TL~k~aiV~ida~Pf 109 (200)
T KOG3283|consen 46 VRVRGGNKKYRALRLDMG-NFSWGSEGTTRKTRILDVVYHPSNNELVRTNTLTKSAIVQIDAAPF 109 (200)
T ss_pred EEecCCchhhheeeeccC-cccccccceeeeeeeeeeEecCCccceeeecchhhceEEEeccchH
Confidence 4445455556654 8999 78899998888772 221 234444443323333455555544
No 95
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=22.60 E-value=1.4e+02 Score=16.85 Aligned_cols=13 Identities=15% Similarity=0.107 Sum_probs=11.2
Q ss_pred EEEEEEECCEEEE
Q 045784 2 IRVIGRLVHKVVT 14 (90)
Q Consensus 2 ~~v~~~i~~~~~~ 14 (90)
++|+|+||+++..
T Consensus 33 v~V~~tI~g~~~~ 45 (80)
T PF08922_consen 33 VPVRGTIDGHPWR 45 (80)
T ss_dssp EEEEEEETTEEEE
T ss_pred eEEEEEECCEEEE
Confidence 6899999998876
No 96
>CHL00067 rps2 ribosomal protein S2
Probab=22.53 E-value=57 Score=22.35 Aligned_cols=18 Identities=6% Similarity=0.111 Sum_probs=15.6
Q ss_pred CEEEEEEEcCCCCccccc
Q 045784 10 HKVVTVLIDSRRTHNFVR 27 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~ 27 (90)
|.|+.+++||-+.-++|+
T Consensus 184 ~IPvIaivDTn~~p~~id 201 (230)
T CHL00067 184 GIPTISILDTNCDPDLAD 201 (230)
T ss_pred CCCEEEEEeCCCCccccc
Confidence 679999999999888774
No 97
>PRK05299 rpsB 30S ribosomal protein S2; Provisional
Probab=22.29 E-value=57 Score=22.80 Aligned_cols=19 Identities=16% Similarity=0.102 Sum_probs=16.1
Q ss_pred CEEEEEEEcCCCCcccccH
Q 045784 10 HKVVTVLIDSRRTHNFVRQ 28 (90)
Q Consensus 10 ~~~~~aLiDsGA~~~~i~~ 28 (90)
|.|+.+++||-+.-++|+-
T Consensus 180 ~IPiIaivDTn~dp~~Idy 198 (258)
T PRK05299 180 GIPVVAIVDTNCDPDGVDY 198 (258)
T ss_pred CCCEEEEeeCCCCCcccce
Confidence 6799999999998887763
No 98
>PRK15423 hypoxanthine phosphoribosyltransferase; Provisional
Probab=21.89 E-value=46 Score=21.84 Aligned_cols=26 Identities=35% Similarity=0.422 Sum_probs=18.7
Q ss_pred ECCEEEEE---EEcCCCCcccccHHhhhe
Q 045784 8 LVHKVVTV---LIDSRRTHNFVRQELAVK 33 (90)
Q Consensus 8 i~~~~~~a---LiDsGA~~~~i~~~~a~~ 33 (90)
++|+.+.. ++|||.|...+.+.+-.+
T Consensus 90 v~gk~VLlVDDIiDTG~TL~~l~~~l~~~ 118 (178)
T PRK15423 90 IRGKDVLIVEDIIDSGNTLSKVREILSLR 118 (178)
T ss_pred CCCCEEEEEeeecCchHHHHHHHHHHHhC
Confidence 55666553 689999999888776553
No 99
>PF12264 Waikav_capsid_1: Waikavirus capsid protein 1; InterPro: IPR024379 This entry represents capsid protein 1 of Rice tungro spherical virus [].
Probab=20.59 E-value=1.6e+02 Score=19.55 Aligned_cols=25 Identities=20% Similarity=0.126 Sum_probs=14.0
Q ss_pred EEcCCCCcccccHHhhheeeEEecC
Q 045784 16 LIDSRRTHNFVRQELAVKLNVMVAS 40 (90)
Q Consensus 16 LiDsGA~~~~i~~~~a~~l~v~~a~ 40 (90)
+-=||++|||-.-...+-..+.+.|
T Consensus 141 iC~SGSE~S~~~~G~L~I~~~NvL~ 165 (197)
T PF12264_consen 141 ICLSGSEHSFGRMGILKICCLNVLN 165 (197)
T ss_pred eeecCCcccccccceEEEEEeeecc
Confidence 3447888887655544444444444
Done!