Citrus Sinensis ID: 047037

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80-----
Protein Sequence
MDDVCENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKCT
Secondary Structure (PSIPRED)
ccccccccccEEEEEEEEccccccEEEEEEEEccEEEEEEEEcccccccccHHHHHHccccccccccEEEEEEcccEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccccccEEEEEEEEccccccEEEEEEEEccEEEEEEEEccccccHccHHHHHHccccccccccEEEEEEcccEEEcccccc
Coil and Loop (DISEMBL)
mddvcenatpkislhdVARDQVLETMRIQGSIKGKSVVILIDsgsthnsiNAEVAQrvnlspnanNRLEIMVAFGEKLMSSGKCT
Flexible Loop (DISEMBL)
mddvcenatpkislhdvarDQVLETMriqgsikgkSVVILIDSGSTHNSINAEVAqrvnlspnanNRLEIMVAFGEKLMSSGKCT
Low Complexity Region (SEG)
MDDVCENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKCT
Disordered region (IsUnstruct)
*************LHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINA*V************RLEIMVAF***********
Disordered Region (DISOPRED)
*******ATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSS****
Disordered Region (DISEMBL)
********TPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK********
Disordered Region (DISPRO)
******NATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSS**C*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDDVCENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKCT
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	85
147863509	166	hypothetical protein VITISV_002632 [Viti	0.941	0.481	0.45	2e-11
147843077	1366	hypothetical protein VITISV_044100 [Viti	0.882	0.054	0.426	6e-09
147774273	1469	hypothetical protein VITISV_026680 [Viti	0.882	0.051	0.426	6e-09
147789424	2822	hypothetical protein VITISV_017554 [Viti	0.882	0.026	0.426	7e-09
147767540	1133	hypothetical protein VITISV_006396 [Viti	0.941	0.070	0.425	2e-08
218197921	402	hypothetical protein OsI_22431 [Oryza sa	0.988	0.208	0.404	2e-08
147811718	1365	hypothetical protein VITISV_008352 [Viti	0.894	0.055	0.421	7e-08
62734405	575	retrotransposon protein, putative, uncla	0.870	0.128	0.428	4e-07
108864287	413	retrotransposon protein, putative, uncla	0.870	0.179	0.428	4e-07
253761750	1445	hypothetical protein SORBIDRAFT_0012s014	0.835	0.049	0.380	2e-06

>gi|147863509|emb|CAN79783.1| hypothetical protein VITISV_002632 [Vitis vinifera]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/80 (45%), Positives = 54/80 (67%)

Query: 6   ENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN 65
           E+  P+ISLH +A  +   TMR+ GS+    + +LIDS STHN I+  V +RV L+   +
Sbjct: 56  EDVKPEISLHAIAGLKAPNTMRLAGSLFFHPMEVLIDSWSTHNFISVLVVERVGLNLKQD 115

Query: 66  NRLEIMVAFGEKLMSSGKCT 85
            ++E+MVA GEKL+S G+C+
Sbjct: 116 RKMEVMVASGEKLVSPGRCS 135

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147843077|emb|CAN83300.1| hypothetical protein VITISV_044100 [Vitis vinifera]

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 32/75 (42%), Positives = 45/75 (60%)

Query: 10  PKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLE 69
           P IS+H +      +TMR  G I G++VVIL+D+GSTHN ++  V QR +L  N    L 
Sbjct: 313 PGISIHALVGSPNPKTMRFLGHICGRAVVILVDTGSTHNFMDPSVIQRAHLPSNPTEGLS 372

Query: 70  IMVAFGEKLMSSGKC 84
           + VA G+ + S G C
Sbjct: 373 VKVANGQAVRSEGSC 387

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147774273|emb|CAN76793.1| hypothetical protein VITISV_026680 [Vitis vinifera]

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 32/75 (42%), Positives = 45/75 (60%)

Query: 10  PKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLE 69
           P IS+H +      +TMR  G I G++VVIL+D+GSTHN ++  V QR +L  N    L 
Sbjct: 346 PGISIHALVGSPNPKTMRFLGHICGRAVVILVDTGSTHNFMDPSVIQRAHLPSNPTEGLS 405

Query: 70  IMVAFGEKLMSSGKC 84
           + VA G+ + S G C
Sbjct: 406 VKVANGQAVRSEGSC 420

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147789424|emb|CAN66607.1| hypothetical protein VITISV_017554 [Vitis vinifera]

 Score = 64.7 bits (156), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 32/75 (42%), Positives = 45/75 (60%)

Query: 10  PKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLE 69
           P IS+H +      +TMR  G I G++VVIL+D+GSTHN ++  V QR +L  N    L 
Sbjct: 311 PGISIHALVGSPNPKTMRFLGHICGRAVVILVDTGSTHNFMDPSVIQRAHLPSNPTEGLS 370

Query: 70  IMVAFGEKLMSSGKC 84
           + VA G+ + S G C
Sbjct: 371 VKVANGQAVCSEGSC 385

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147767540|emb|CAN66709.1| hypothetical protein VITISV_006396 [Vitis vinifera]

 Score = 63.5 bits (153), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 34/80 (42%), Positives = 50/80 (62%)

Query: 6    ENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN 65
            E+  P+ISLH  A  +   T  + GS   + + +LIDSGSTHN I+  VA+ V  +   +
Sbjct: 1028 EDVKPEISLHATAGLKAPNTTTMTGSFLFQPMEVLIDSGSTHNFISVLVAECVGFNLKQD 1087

Query: 66   NRLEIMVAFGEKLMSSGKCT 85
             ++E+MVA GEKL+S G C+
Sbjct: 1088 RKMEVMVASGEKLVSLGSCS 1107

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218197921|gb|EEC80348.1| hypothetical protein OsI_22431 [Oryza sativa Indica Group]

 Score = 63.2 bits (152), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 34/84 (40%), Positives = 51/84 (60%)

Query: 2   DDVCENATPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLS 61
           DD   + T  ISLH +   +  +TMR+   I G ++  L+DSGSTH  +  E A+R+ LS
Sbjct: 149 DDSINDDTVTISLHALTGIRTSKTMRLAVIIGGVTMSALVDSGSTHTFVATEAARRLGLS 208

Query: 62  PNANNRLEIMVAFGEKLMSSGKCT 85
           P   + L +MVA G+++ SSG C+
Sbjct: 209 PTTKSGLNVMVANGDQVTSSGICS 232

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147811718|emb|CAN77256.1| hypothetical protein VITISV_008352 [Vitis vinifera]

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 32/76 (42%), Positives = 46/76 (60%)

Query: 9   TPKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRL 68
           TP ISLH +A  Q  +TM+I   I    + ILIDSGSTHN ++ + A+ + L    +   
Sbjct: 578 TPTISLHALAGVQSPQTMQIHSQIGKTPLTILIDSGSTHNFLHHKFAKIIGLKSERSCLF 637

Query: 69  EIMVAFGEKLMSSGKC 84
            ++VA GE+L S G+C
Sbjct: 638 SVVVANGERLSSLGRC 653

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|62734405|gb|AAX96514.1| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group]

 Score = 58.5 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 33/77 (42%), Positives = 52/77 (67%), Gaps = 3/77 (3%)

Query: 10  PKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQR--VNLSPNANNR 67
           P++SL+ +A      TMR+   I G+ VV L+DSGSTHN I+ E+A+   ++LSP   + 
Sbjct: 368 PRVSLNVLAGLDGANTMRLPVEIAGERVVALVDSGSTHNFIHTELARHLCLHLSP-VRHD 426

Query: 68  LEIMVAFGEKLMSSGKC 84
           L ++VA G++L+S G+C
Sbjct: 427 LYVVVANGDRLVSPGRC 443

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108864287|gb|ABA92869.2| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group]

 Score = 58.5 bits (140), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 33/77 (42%), Positives = 52/77 (67%), Gaps = 3/77 (3%)

Query: 10  PKISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQR--VNLSPNANNR 67
           P++SL+ +A      TMR+   I G+ VV L+DSGSTHN I+ E+A+   ++LSP   + 
Sbjct: 206 PRVSLNVLAGLDGANTMRLPVEIAGERVVALVDSGSTHNFIHTELARHLCLHLSP-VRHD 264

Query: 68  LEIMVAFGEKLMSSGKC 84
           L ++VA G++L+S G+C
Sbjct: 265 LYVVVANGDRLVSPGRC 281

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|253761750|ref|XP_002489250.1| hypothetical protein SORBIDRAFT_0012s014620 [Sorghum bicolor] gi|241947110|gb|EES20255.1| hypothetical protein SORBIDRAFT_0012s014620 [Sorghum bicolor]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/71 (38%), Positives = 45/71 (63%)

Query: 12  ISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIM 71
           +SLH  A  +   TM +   IKG+ V+ L+D+GSTHN ++  + +R+ L P+  ++L + 
Sbjct: 796 VSLHAFAGIRTTNTMLLPVLIKGECVLALLDTGSTHNFLSGAIMERLGLVPDGGDQLRVT 855

Query: 72  VAFGEKLMSSG 82
           VA G+KL  +G
Sbjct: 856 VANGDKLRCAG 866

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	85
cd00303	92	cd00303, retropepsin_like, Retropepsins; pepsin-li	4e-08
pfam13975	72	pfam13975, gag-asp_proteas, gag-polyprotein putati	5e-06
cd05483	96	cd05483, retropepsin_like_bacteria, Bacterial aspa	1e-05
pfam13650	89	pfam13650, Asp_protease_2, Aspartyl protease	1e-05
COG3577	215	COG3577, COG3577, Predicted aspartyl protease [Gen	0.004

>gnl|CDD|133136 cd00303, retropepsin_like, Retropepsins; pepsin-like aspartate proteases

 Score = 45.8 bits (109), Expect = 4e-08
 Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN-ANNRLEIMVAFGEKLMSSGKC 84
          ++G I G  V  L+DSG++ N I+  +A+++ L P      L++  A G  + + G  
Sbjct: 1  LKGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVI 58

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 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. Length = 92

>gnl|CDD|206145 pfam13975, gag-asp_proteas, gag-polyprotein putative aspartyl protease

 Score = 40.0 bits (94), Expect = 5e-06
 Identities = 13/38 (34%), Positives = 23/38 (60%)

Query: 25 TMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSP 62
           + ++ SI G  V  L+D+G+TH+ I+  +A R+ L  
Sbjct: 8  LVTVEVSIGGVEVKALVDTGATHSFISESLAARLGLPL 45

This family of putative aspartyl proteases is found pre-dominantly in retroviral proteins. Length = 72

>gnl|CDD|133150 cd05483, retropepsin_like_bacteria, Bacterial aspartate proteases, retropepsin-like protease family

 Score = 39.5 bits (93), Expect = 1e-05
 Identities = 13/51 (25%), Positives = 27/51 (52%)

Query: 25 TMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG 75
             +  +I G+ V  L+D+G++   I+ E+A+R+ L      ++ +  A G
Sbjct: 2  HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVTVQTANG 52

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. Length = 96

>gnl|CDD|222288 pfam13650, Asp_protease_2, Aspartyl protease

 Score = 39.2 bits (92), Expect = 1e-05
 Identities = 13/56 (23%), Positives = 27/56 (48%)

Query: 28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGK 83
          +  +I GK V  L+D+G++   ++  +A+R+ L P       +  A G    +  +
Sbjct: 1  VPVTINGKPVRFLLDTGASGTLLSRSLAERLGLKPTKLTIGRVSTANGTVRAALVR 56

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. Length = 89

>gnl|CDD|226106 COG3577, COG3577, Predicted aspartyl protease [General function prediction only]

 Score = 33.9 bits (78), Expect = 0.004
 Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 1/50 (2%)

Query: 28  IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANN-RLEIMVAFGE 76
             G + GK V  L+D+G+T  ++N E A+R+ +  N+ +  + +  A G 
Sbjct: 108 ANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITVSTANGR 157

Length = 215

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	85
PF13975	72	gag-asp_proteas: gag-polyprotein putative aspartyl	99.77
cd05484	91	retropepsin_like_LTR_2 Retropepsins_like_LTR, peps	99.64
PF08284	135	RVP_2: Retroviral aspartyl protease; InterPro: IPR	99.63
cd05479	124	RP_DDI RP_DDI; retropepsin-like domain of DNA dama	99.61
TIGR02281	121	clan_AA_DTGA clan AA aspartic protease, TIGR02281	99.49
COG3577	215	Predicted aspartyl protease [General function pred	99.37
PF13650	90	Asp_protease_2: Aspartyl protease	99.34
cd05483	96	retropepsin_like_bacteria Bacterial aspartate prot	99.32
cd06095	86	RP_RTVL_H_like Retropepsin of the RTVL_H family of	98.99
TIGR03698	107	clan_AA_DTGF clan AA aspartic protease, AF_0612 fa	98.86
cd05481	93	retropepsin_like_LTR_1 Retropepsins_like_LTR; peps	98.75
PF00077	100	RVP: Retroviral aspartyl protease The Prosite entr	98.72
cd00303	92	retropepsin_like Retropepsins; pepsin-like asparta	98.61
PF09668	124	Asp_protease: Aspartyl protease; InterPro: IPR0191	98.59
PF12384	177	Peptidase_A2B: Ty3 transposon peptidase; InterPro:	98.54
cd05480	103	NRIP_C NRIP_C; putative nuclear receptor interacti	98.24
cd06094	89	RP_Saci_like RP_Saci_like, retropepsin family. Ret	98.05
PF05585	164	DUF1758: Putative peptidase (DUF1758); InterPro: I	98.04
KOG0012	380	consensus DNA damage inducible protein [Replicatio	97.43
COG5550	125	Predicted aspartyl protease [Posttranslational mod	97.19
PF02160	201	Peptidase_A3: Cauliflower mosaic virus peptidase (	97.09
cd05482	87	HIV_retropepsin_like Retropepsins, pepsin-like asp	96.26
PF12382	137	Peptidase_A2E: Retrotransposon peptidase; InterPro	91.1
PF00026	317	Asp: Eukaryotic aspartyl protease The Prosite entr	90.37
cd05470	109	pepsin_retropepsin_like Cellular and retroviral pe	89.5
cd05474	295	SAP_like SAPs, pepsin-like proteinases secreted fr	89.45
cd06096	326	Plasmepsin_5 Plasmepsins are a class of aspartic p	86.64
cd05476	265	pepsin_A_like_plant Chroloplast Nucleoids DNA-bind	86.6
cd06097	278	Aspergillopepsin_like Aspergillopepsin_like, aspar	86.36
cd06096	326	Plasmepsin_5 Plasmepsins are a class of aspartic p	85.98
cd05475	273	nucellin_like Nucellins, plant aspartic proteases	85.69
cd05476	265	pepsin_A_like_plant Chroloplast Nucleoids DNA-bind	85.17
cd05487	326	renin_like Renin stimulates production of angioten	85.01
cd06098	317	phytepsin Phytepsin, a plant homolog of mammalian	84.58
COG0282	396	ackA Acetate kinase [Energy production and convers	84.38
cd05478	317	pepsin_A Pepsin A, aspartic protease produced in g	83.18
cd06097	278	Aspergillopepsin_like Aspergillopepsin_like, aspar	82.44
PTZ00147	453	plasmepsin-1; Provisional	81.98
cd06396	81	PB1_NBR1 The PB1 domain is an essential part of NB	81.94
cd05490	325	Cathepsin_D2 Cathepsin_D2, pepsin family of protei	81.78
PTZ00013	450	plasmepsin 4 (PM4); Provisional	81.6
cd05472	299	cnd41_like Chloroplast Nucleoids DNA-binding Prote	81.41
cd05477	318	gastricsin Gastricsins, asparate proteases produce	80.81
cd05477	318	gastricsin Gastricsins, asparate proteases produce	80.61
cd05473	364	beta_secretase_like Beta-secretase, aspartic-acid	80.59

>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease

Probab=99.77  E-value=3.2e-18  Score=101.41  Aligned_cols=65  Identities=28%  Similarity=0.356  Sum_probs=61.0

Q ss_pred             cCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCC-cEEEEeCCCCEEEEeeEe
Q 047037           20 DQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANN-RLEIMVAFGEKLMSSGKC   84 (85)
Q Consensus        20 ~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~-~~~V~~anG~~~~~~g~c   84 (85)
                      ...++.|++.+.|+|+.+.+|||||||||||+.++|+|||++..+.. +.+|++|||....+.|..
T Consensus         3 ~~~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~   68 (72)
T PF13975_consen    3 TPDPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVA   68 (72)
T ss_pred             cccCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEE
Confidence            45689999999999999999999999999999999999999999975 999999999999998875

>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases

Probab=99.64  E-value=1.6e-15  Score=92.52  Aligned_cols=59  Identities=20%  Similarity=0.305  Sum_probs=55.0

Q ss_pred             EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037           26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC   84 (85)
Q Consensus        26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c   84 (85)
                      +++++.|||+++.+||||||+++||+++++++++++.......++++|||+.+.+.|+|
T Consensus         1 ~~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~   59 (91)
T cd05484           1 KTVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI   59 (91)
T ss_pred             CEEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE
Confidence            36889999999999999999999999999999999985568899999999999999986

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

>PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses)

Probab=99.63  E-value=1.2e-15  Score=100.20  Aligned_cols=65  Identities=22%  Similarity=0.341  Sum_probs=57.6

Q ss_pred             cCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEEEeeEeC
Q 047037           20 DQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLMSSGKCT   85 (85)
Q Consensus        20 ~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~~~g~c~   85 (85)
                      ...+..|.....|+++++.+|||||||||||++++|+++++++++. .++.|.. +|..+.|.+.|+
T Consensus        16 ~~~~~vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~-~g~~~~~~~~~~   81 (135)
T PF08284_consen   16 EESPDVITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSA-PGGSINCEGVCP   81 (135)
T ss_pred             cCCCCeEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEec-ccccccccceee
Confidence            3578999999999999999999999999999999999999999995 7777775 566788888774

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.

>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein

Probab=99.61  E-value=4.1e-15  Score=95.84  Aligned_cols=63  Identities=17%  Similarity=0.208  Sum_probs=55.0

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC   84 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c   84 (85)
                      ...+|++.++|||+++.+|||||||||||++++|+|+|++.....++.++++++....+.++|
T Consensus        13 ~~~~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~   75 (124)
T cd05479          13 KVPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRI   75 (124)
T ss_pred             eeeEEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEE
Confidence            357899999999999999999999999999999999999987667788777775556777776

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.

>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family

Probab=99.49  E-value=4e-13  Score=86.55  Aligned_cols=61  Identities=26%  Similarity=0.368  Sum_probs=54.8

Q ss_pred             CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccC-CCcEEEEeCCCCEEEEe
Q 047037           21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNA-NNRLEIMVAFGEKLMSS   81 (85)
Q Consensus        21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~-~~~~~V~~anG~~~~~~   81 (85)
                      ...++|++.++|||+++.||||||||+++|++++|+++|++... ..+..+.+|||......
T Consensus         7 ~~~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~~~~~~~~ta~G~~~~~~   68 (121)
T TIGR02281         7 DGDGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRLGYTVTVSTANGQIKAAR   68 (121)
T ss_pred             cCCCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccCCceEEEEeCCCcEEEEE
Confidence            46799999999999999999999999999999999999998866 47899999999876543

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).

>COG3577 Predicted aspartyl protease [General function prediction only]

Probab=99.37  E-value=3.7e-12  Score=89.01  Aligned_cols=65  Identities=26%  Similarity=0.390  Sum_probs=58.3

Q ss_pred             eeEEEeccccCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEE
Q 047037           11 KISLHDVARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLM   79 (85)
Q Consensus        11 ~iSl~A~~g~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~   79 (85)
                      ++++++    +..+||.+.|.|||+.|.+|||||||-..++++.|+|+|+.+... .++.|.+|||+...
T Consensus        95 ~v~Lak----~~~GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~v~TANG~~~A  160 (215)
T COG3577          95 EVSLAK----SRDGHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTITVSTANGRARA  160 (215)
T ss_pred             EEEEEe----cCCCcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceEEEccCCcccc
Confidence            455544    457999999999999999999999999999999999999999985 99999999998654

>PF13650 Asp_protease_2: Aspartyl protease

Probab=99.34  E-value=1.2e-11  Score=73.55  Aligned_cols=56  Identities=25%  Similarity=0.439  Sum_probs=48.9

Q ss_pred             EEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCC-CcEEEEeCCCCEEEEeeE
Q 047037           28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNAN-NRLEIMVAFGEKLMSSGK   83 (85)
Q Consensus        28 ~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~-~~~~V~~anG~~~~~~g~   83 (85)
                      +.+.|||+++.+||||||++++|++++|++++++..+. .+..+..+||+.....+.
T Consensus         1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~   57 (90)
T PF13650_consen    1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKSVPISVSGAGGSVTVYRGR   57 (90)
T ss_pred             CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCceeEEEEeCCCCEEEEEEE
Confidence            46889999999999999999999999999999998876 378999999996554443

>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family

Probab=99.32  E-value=1.7e-11  Score=73.49  Aligned_cols=60  Identities=22%  Similarity=0.383  Sum_probs=53.0

Q ss_pred             CeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeE
Q 047037           24 ETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGK   83 (85)
Q Consensus        24 ~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~   83 (85)
                      +++.+.+.||++++.+||||||++++|+.++|+++++......+.+++.++|........
T Consensus         1 ~~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~   60 (96)
T cd05483           1 GHFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVTVQTANGRVRAARVR   60 (96)
T ss_pred             CcEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCCCcEEEEecCCCccceEEE
Confidence            478999999999999999999999999999999999855556889999999988776553

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.

>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements

Probab=98.99  E-value=1.6e-09  Score=65.58  Aligned_cols=47  Identities=19%  Similarity=0.422  Sum_probs=41.6

Q ss_pred             EEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037           28 IQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEK   77 (85)
Q Consensus        28 ~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~   77 (85)
                      +...|||+++.+||||||+++.|++++|+++   .....+..++.++|..
T Consensus         1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~---~~~~~~~~v~gagG~~   47 (86)
T cd06095           1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQ---ELSTTSVLIRGVSGQS   47 (86)
T ss_pred             CEEEECCEEEEEEEECCCCeEEECHHHhhhc---cCCCCcEEEEeCCCcc
Confidence            3578999999999999999999999999998   2334899999999985

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

>TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family

Probab=98.86  E-value=1.2e-08  Score=64.40  Aligned_cols=44  Identities=16%  Similarity=0.292  Sum_probs=38.6

Q ss_pred             CEEEEEEEeCCCCcee-eCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037           34 GKSVVILIDSGSTHNS-INAEVAQRVNLSPNANNRLEIMVAFGEKLM   79 (85)
Q Consensus        34 g~~v~~LiDSGat~~F-i~~~~a~~l~l~~~~~~~~~V~~anG~~~~   79 (85)
                      ..++.+|||||||+.+ |++++|+++|++..  ...++++|||....
T Consensus        14 ~~~v~~LVDTGat~~~~l~~~~a~~lgl~~~--~~~~~~tA~G~~~~   58 (107)
T TIGR03698        14 FMEVRALVDTGFSGFLLVPPDIVNKLGLPEL--DQRRVYLADGREVL   58 (107)
T ss_pred             ceEEEEEEECCCCeEEecCHHHHHHcCCCcc--cCcEEEecCCcEEE
Confidence            4589999999999998 99999999999875  57799999997544

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.

>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats

Probab=98.75  E-value=4.5e-08  Score=60.48  Aligned_cols=55  Identities=18%  Similarity=0.213  Sum_probs=48.3

Q ss_pred             EEECC-EEEEEEEeCCCCceeeCHHHHHhcC---CcccCCCcEEEEeCCCCEEEEeeEe
Q 047037           30 GSIKG-KSVVILIDSGSTHNSINAEVAQRVN---LSPNANNRLEIMVAFGEKLMSSGKC   84 (85)
Q Consensus        30 g~i~g-~~v~~LiDSGat~~Fi~~~~a~~l~---l~~~~~~~~~V~~anG~~~~~~g~c   84 (85)
                      -.|+| +++.+++||||+.|.|+.++.++++   .+.-...+++++.+||..+...|.+
T Consensus         3 ~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~~   61 (93)
T cd05481           3 MKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGGV   61 (93)
T ss_pred             eEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEEE
Confidence            35788 9999999999999999999999998   4555567899999999999999854

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

>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

Probab=98.72  E-value=2.7e-08  Score=60.90  Aligned_cols=54  Identities=20%  Similarity=0.273  Sum_probs=46.4

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeE
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGK   83 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~   83 (85)
                      ++...++|+++.+||||||+.++|+++.+.....+  ......+..++|.. ...+.
T Consensus         7 ~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~--~~~~~~v~~~~g~~-~~~~~   60 (100)
T PF00077_consen    7 YITVKINGKKIKALLDTGADVSIISEKDWKKLGPP--PKTSITVRGAGGSS-SILGS   60 (100)
T ss_dssp             EEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE--EEEEEEEEETTEEE-EEEEE
T ss_pred             eEEEeECCEEEEEEEecCCCcceeccccccccccc--ccCCceeccCCCcc-eeeeE
Confidence            56789999999999999999999999999888765  45788999999987 66554

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 ....

>cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases

Probab=98.61  E-value=3.1e-07  Score=51.51  Aligned_cols=54  Identities=30%  Similarity=0.439  Sum_probs=44.8

Q ss_pred             EEEECCEEEEEEEeCCCCceeeCHHHHHhcCC-cccCCCcEEEEeCCCCEEEEee
Q 047037           29 QGSIKGKSVVILIDSGSTHNSINAEVAQRVNL-SPNANNRLEIMVAFGEKLMSSG   82 (85)
Q Consensus        29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l-~~~~~~~~~V~~anG~~~~~~g   82 (85)
                      ...++|+++.+|+|+||++++++..+++++++ +.....+..+..++|......+
T Consensus         2 ~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   56 (92)
T cd00303           2 KGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLG   56 (92)
T ss_pred             EEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCc
Confidence            46788999999999999999999999999988 4444688888998887655443

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

>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.59  E-value=1.4e-07  Score=61.53  Aligned_cols=40  Identities=23%  Similarity=0.395  Sum_probs=32.4

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCc
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLS   61 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~   61 (85)
                      ....+++...|||+++.++|||||-+|.|+.++|+|+||.
T Consensus        21 ~v~mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~   60 (124)
T PF09668_consen   21 QVSMLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLM   60 (124)
T ss_dssp             -----EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGG
T ss_pred             CcceEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCCh
Confidence            4578999999999999999999999999999999999986

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.

>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.54  E-value=6.7e-07  Score=61.02  Aligned_cols=54  Identities=22%  Similarity=0.326  Sum_probs=49.9

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCC
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFG   75 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG   75 (85)
                      -.++..+.-.++|.++.+|+||||-.+||+..++++|+|+.-..+|++++.+-+
T Consensus        31 vg~T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs   84 (177)
T PF12384_consen   31 VGKTAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVS   84 (177)
T ss_pred             cCcEEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeecc
Confidence            358999999999999999999999999999999999999999999999887653

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 [].

>cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein

Probab=98.24  E-value=2.1e-06  Score=54.26  Aligned_cols=33  Identities=30%  Similarity=0.439  Sum_probs=31.2

Q ss_pred             EEEECCEEEEEEEeCCCCceeeCHHHHHhcCCc
Q 047037           29 QGSIKGKSVVILIDSGSTHNSINAEVAQRVNLS   61 (85)
Q Consensus        29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~   61 (85)
                      ...+||+++.++|||||-+|.||+..|+|+||.
T Consensus         2 nCk~nG~~vkAfVDsGaQ~timS~~caercgL~   34 (103)
T cd05480           2 SCQCAGKELRALVDTGCQYNLISAACLDRLGLK   34 (103)
T ss_pred             ceeECCEEEEEEEecCCchhhcCHHHHHHcChH
Confidence            457999999999999999999999999999987

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.

>cd06094 RP_Saci_like RP_Saci_like, retropepsin family

Probab=98.05  E-value=8.9e-06  Score=50.35  Aligned_cols=45  Identities=18%  Similarity=0.304  Sum_probs=38.1

Q ss_pred             EEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEEeeEe
Q 047037           36 SVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKC   84 (85)
Q Consensus        36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~~g~c   84 (85)
                      .+.+||||||.++.|+....++.    ....++.++.|||..+..-|..
T Consensus         9 ~~~fLVDTGA~vSviP~~~~~~~----~~~~~~~l~AANgt~I~tyG~~   53 (89)
T cd06094           9 GLRFLVDTGAAVSVLPASSTKKS----LKPSPLTLQAANGTPIATYGTR   53 (89)
T ss_pred             CcEEEEeCCCceEeecccccccc----ccCCceEEEeCCCCeEeeeeeE
Confidence            47899999999999999988864    3346889999999999987753

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

>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []

Probab=98.04  E-value=7.7e-06  Score=54.44  Aligned_cols=39  Identities=28%  Similarity=0.329  Sum_probs=32.7

Q ss_pred             EEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeC
Q 047037           35 KSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVA   73 (85)
Q Consensus        35 ~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~a   73 (85)
                      +.+.+|+||||..+||.+++|++|+|+......+.+.+.
T Consensus        11 ~~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~   49 (164)
T PF05585_consen   11 VEARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTF   49 (164)
T ss_pred             EEEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEecc
Confidence            468889999999999999999999999887665555544

However, it seems likely that these proteins act as aspartic peptidases.

>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]

Probab=97.43  E-value=0.00017  Score=54.36  Aligned_cols=42  Identities=26%  Similarity=0.411  Sum_probs=38.0

Q ss_pred             CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcc
Q 047037           21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSP   62 (85)
Q Consensus        21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~   62 (85)
                      ..-..+++...|||++|.++|||||-.+-||...|+|+||.-
T Consensus       231 ~~v~ML~iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~r  272 (380)
T KOG0012|consen  231 TQVTMLYINCEINGVPVKAFVDSGAQTTIMSAACAERCGLNR  272 (380)
T ss_pred             ccceEEEEEEEECCEEEEEEEcccchhhhhhHHHHHHhChHH
Confidence            345678999999999999999999999999999999999753

>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.002  Score=42.10  Aligned_cols=55  Identities=22%  Similarity=0.211  Sum_probs=39.5

Q ss_pred             CeEEEEEEE---CCEEEEEEEeCCCC-ceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037           24 ETMRIQGSI---KGKSVVILIDSGST-HNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS   80 (85)
Q Consensus        24 ~~~~~~g~i---~g~~v~~LiDSGat-~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~   80 (85)
                      .++.++...   +.+....|||||+| ...|++++|++++++..  ...++..|+|..+..
T Consensus        11 ~~v~~~f~~~~~Gd~~~~~LiDTGFtg~lvlp~~vaek~~~~~~--~~~~~~~a~~~~v~t   69 (125)
T COG5550          11 VTVPVTFRLPGQGDFVYDELIDTGFTGYLVLPPQVAEKLGLPLF--STIRIVLADGGVVKT   69 (125)
T ss_pred             eeEEEEEEecCCCcEEeeeEEecCCceeEEeCHHHHHhcCCCcc--CChhhhhhcCCEEEE
Confidence            445555554   33445559999999 88999999999998887  445566667666554

>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=97.09  E-value=0.0015  Score=45.77  Aligned_cols=57  Identities=14%  Similarity=0.162  Sum_probs=39.4

Q ss_pred             EEEEEECC---EEEEEEEeCCCCceeeCHHHHHhcCCcccC-CCcEEEEeCCCCEEEEeeEeC
Q 047037           27 RIQGSIKG---KSVVILIDSGSTHNSINAEVAQRVNLSPNA-NNRLEIMVAFGEKLMSSGKCT   85 (85)
Q Consensus        27 ~~~g~i~g---~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~-~~~~~V~~anG~~~~~~g~c~   85 (85)
                      +++-.+.|   ..+..+||||||.+.++....-.--  .+. ..++.|+.|||....-.-+|+
T Consensus         8 ~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~--we~~~~~i~v~~an~~~~~i~~~~~   68 (201)
T PF02160_consen    8 KVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEY--WEKSKKPIKVKGANGSIIQINKKAK   68 (201)
T ss_pred             EEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHH--HHhCCCcEEEEEecCCceEEEEEec
Confidence            33444444   4577899999999998887662221  122 378999999999877766663

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

>cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases

Probab=96.26  E-value=0.006  Score=37.41  Aligned_cols=27  Identities=26%  Similarity=0.197  Sum_probs=23.5

Q ss_pred             EEEECCEEEEEEEeCCCCceeeCHHHH
Q 047037           29 QGSIKGKSVVILIDSGSTHNSINAEVA   55 (85)
Q Consensus        29 ~g~i~g~~v~~LiDSGat~~Fi~~~~a   55 (85)
                      +-.|+|+.+.+|+||||-++.|++..-
T Consensus         2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~   28 (87)
T cd05482           2 TLYINGKLFEGLLDTGADVSIIAENDW   28 (87)
T ss_pred             EEEECCEEEEEEEccCCCCeEEccccc
Confidence            457899999999999999999997543

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

>PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=91.10  E-value=0.2  Score=32.14  Aligned_cols=30  Identities=30%  Similarity=0.376  Sum_probs=27.0

Q ss_pred             EEEEEEeCCCCceeeCHHHHHhcCCcccCC
Q 047037           36 SVVILIDSGSTHNSINAEVAQRVNLSPNAN   65 (85)
Q Consensus        36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~   65 (85)
                      .+.-|||+||-.|.|.++.++...||..+.
T Consensus        47 sipclidtgaq~niiteetvrahklptrpw   76 (137)
T PF12382_consen   47 SIPCLIDTGAQVNIITEETVRAHKLPTRPW   76 (137)
T ss_pred             cceeEEccCceeeeeehhhhhhccCCCCcc
Confidence            367799999999999999999999998874

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.

>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077

Probab=90.37  E-value=0.65  Score=32.67  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.6

Q ss_pred             EEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           26 MRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      |.+...|+  ++++.++|||||+..|+..
T Consensus         2 Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~   30 (317)
T PF00026_consen    2 YYINVTIGTPPQTFRVLIDTGSSDTWVPS   30 (317)
T ss_dssp             EEEEEEETTTTEEEEEEEETTBSSEEEEB
T ss_pred             eEEEEEECCCCeEEEEEEecccceeeece
Confidence            56677887  8999999999999999984

; 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 ....

>cd05470 pepsin_retropepsin_like Cellular and retroviral pepsin-like aspartate proteases

Probab=89.50  E-value=0.52  Score=28.43  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             EECC--EEEEEEEeCCCCceeeCHHHHH
Q 047037           31 SIKG--KSVVILIDSGSTHNSINAEVAQ   56 (85)
Q Consensus        31 ~i~g--~~v~~LiDSGat~~Fi~~~~a~   56 (85)
                      .|+.  +++.+++||||+..++...-..
T Consensus         4 ~vGtP~q~~~~~~DTGSs~~Wv~~~~c~   31 (109)
T cd05470           4 GIGTPPQTFNVLLDTGSSNLWVPSVDCQ   31 (109)
T ss_pred             EeCCCCceEEEEEeCCCCCEEEeCCCCC
Confidence            4554  8899999999999999876543

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

>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins

Probab=89.45  E-value=1.8  Score=30.46  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=22.7

Q ss_pred             EEEEEEECC--EEEEEEEeCCCCceeeC
Q 047037           26 MRIQGSIKG--KSVVILIDSGSTHNSIN   51 (85)
Q Consensus        26 ~~~~g~i~g--~~v~~LiDSGat~~Fi~   51 (85)
                      |.+...|+.  +++.+++||||+..+|.
T Consensus         3 Y~~~i~iGtp~q~~~v~~DTgS~~~wv~   30 (295)
T cd05474           3 YSAELSVGTPPQKVTVLLDTGSSDLWVP   30 (295)
T ss_pred             EEEEEEECCCCcEEEEEEeCCCCcceee
Confidence            556677777  89999999999999999

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

>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite

Probab=86.64  E-value=1.2  Score=32.18  Aligned_cols=41  Identities=22%  Similarity=0.280  Sum_probs=31.2

Q ss_pred             EEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEE
Q 047037           36 SVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLM   79 (85)
Q Consensus        36 ~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~   79 (85)
                      ...++||||.|..+++.++.+++.-.+   +.+.+...+|..+.
T Consensus       231 ~~~aivDSGTs~~~lp~~~~~~l~~~~---P~i~~~f~~g~~~~  271 (326)
T cd06096         231 GLGMLVDSGSTLSHFPEDLYNKINNFF---PTITIIFENNLKID  271 (326)
T ss_pred             CCCEEEeCCCCcccCCHHHHHHHHhhc---CcEEEEEcCCcEEE
Confidence            455899999999999999998874333   66777777665554

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

>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants

Probab=86.60  E-value=1.7  Score=30.47  Aligned_cols=18  Identities=28%  Similarity=0.300  Sum_probs=16.2

Q ss_pred             EEEEeCCCCceeeCHHHH
Q 047037           38 VILIDSGSTHNSINAEVA   55 (85)
Q Consensus        38 ~~LiDSGat~~Fi~~~~a   55 (85)
                      .++||||+|..++++.+.
T Consensus       178 ~ai~DTGTs~~~lp~~~~  195 (265)
T cd05476         178 GTIIDSGTTLTYLPDPAY  195 (265)
T ss_pred             cEEEeCCCcceEcCcccc
Confidence            389999999999998887

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

>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin

Probab=86.36  E-value=0.98  Score=31.84  Aligned_cols=27  Identities=15%  Similarity=0.146  Sum_probs=21.9

Q ss_pred             EEEEEECC--EEEEEEEeCCCCceeeCHH
Q 047037           27 RIQGSIKG--KSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        27 ~~~g~i~g--~~v~~LiDSGat~~Fi~~~   53 (85)
                      .+.-.|+.  +++.+++||||+..|+...
T Consensus         2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~   30 (278)
T cd06097           2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSS   30 (278)
T ss_pred             eeeEEECCCCcEEEEEEeCCCCceeEeeC
Confidence            34556666  8999999999999999765

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-

>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite

Probab=85.98  E-value=1.7  Score=31.46  Aligned_cols=30  Identities=20%  Similarity=0.195  Sum_probs=24.4

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      +-|.+.-.|+  .+++.+++||||+..+++-.
T Consensus         2 ~~Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~   33 (326)
T cd06096           2 AYYFIDIFIGNPPQKQSLILDTGSSSLSFPCS   33 (326)
T ss_pred             ceEEEEEEecCCCeEEEEEEeCCCCceEEecC
Confidence            3466677777  68999999999999999764

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

>cd05475 nucellin_like Nucellins, plant aspartic proteases specifically expressed in nucellar cells during degradation

Probab=85.69  E-value=1.5  Score=31.02  Aligned_cols=27  Identities=22%  Similarity=0.201  Sum_probs=22.4

Q ss_pred             eEEEEEEEC--CEEEEEEEeCCCCceeeC
Q 047037           25 TMRIQGSIK--GKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        25 ~~~~~g~i~--g~~v~~LiDSGat~~Fi~   51 (85)
                      .|.+.-.|+  .+.+.+++||||++.+|.
T Consensus         2 ~Y~~~i~iGtP~q~~~v~~DTGS~~~Wv~   30 (273)
T cd05475           2 YYYVTINIGNPPKPYFLDIDTGSDLTWLQ   30 (273)
T ss_pred             ceEEEEEcCCCCeeEEEEEccCCCceEEe
Confidence            356666776  788999999999999995

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

>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants

Probab=85.17  E-value=2.7  Score=29.39  Aligned_cols=27  Identities=19%  Similarity=0.253  Sum_probs=21.3

Q ss_pred             EEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           26 MRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      |.+.-.|+  .+++.+++||||++.++..
T Consensus         2 Y~~~i~iGtP~q~~~v~~DTGSs~~wv~~   30 (265)
T cd05476           2 YLVTLSIGTPPQPFSLIVDTGSDLTWTQC   30 (265)
T ss_pred             eEEEEecCCCCcceEEEecCCCCCEEEcC
Confidence            34455566  6789999999999999974

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

>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure

Probab=85.01  E-value=2  Score=31.06  Aligned_cols=30  Identities=13%  Similarity=0.117  Sum_probs=25.3

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...+.+.-.|+  .+.+.+++||||+..+|..
T Consensus         6 ~~~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   37 (326)
T cd05487           6 DTQYYGEIGIGTPPQTFKVVFDTGSSNLWVPS   37 (326)
T ss_pred             CCeEEEEEEECCCCcEEEEEEeCCccceEEcc
Confidence            35667777787  7999999999999999975

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

>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins

Probab=84.58  E-value=2.3  Score=30.65  Aligned_cols=31  Identities=13%  Similarity=0.115  Sum_probs=26.0

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus         8 ~~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~   40 (317)
T cd06098           8 DAQYFGEIGIGTPPQKFTVIFDTGSSNLWVPSS   40 (317)
T ss_pred             CCEEEEEEEECCCCeEEEEEECCCccceEEecC
Confidence            35677788887  78999999999999999764

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

>COG0282 ackA Acetate kinase [Energy production and conversion]

Probab=84.38  E-value=0.51  Score=36.25  Aligned_cols=37  Identities=14%  Similarity=0.246  Sum_probs=34.1

Q ss_pred             CCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEEEE
Q 047037           44 GSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMS   80 (85)
Q Consensus        44 Gat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~~~   80 (85)
                      |-||.|++.+.|+.||-|++..+-+...++||.+++.
T Consensus       179 GtSh~YVs~~aa~~L~k~~~~l~~I~~HLGNGASicA  215 (396)
T COG0282         179 GTSHKYVSQRAAEILGKPLEDLNLITCHLGNGASICA  215 (396)
T ss_pred             ccchHHHHHHHHHHhCCCccccCEEEEEecCchhhhh
Confidence            7799999999999999999999999999999987754

>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals

Probab=83.18  E-value=2.7  Score=30.23  Aligned_cols=31  Identities=16%  Similarity=0.090  Sum_probs=25.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.++|||||+..++...
T Consensus         8 ~~~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~   40 (317)
T cd05478           8 DMEYYGTISIGTPPQDFTVIFDTGSSNLWVPSV   40 (317)
T ss_pred             CCEEEEEEEeCCCCcEEEEEEeCCCccEEEecC
Confidence            45677777887  68899999999999999754

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

>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin

Probab=82.44  E-value=0.99  Score=31.82  Aligned_cols=23  Identities=13%  Similarity=0.226  Sum_probs=19.5

Q ss_pred             EEEEEEeCCCCceeeCHHHHHhc
Q 047037           36 SVVILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        36 ~v~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      ...++||||++..+++..+++++
T Consensus       198 ~~~~iiDSGTs~~~lP~~~~~~l  220 (278)
T cd06097         198 GFSAIADTGTTLILLPDAIVEAY  220 (278)
T ss_pred             CceEEeecCCchhcCCHHHHHHH
Confidence            45689999999999998877665

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-

>PTZ00147 plasmepsin-1; Provisional

Probab=81.98  E-value=2.9  Score=32.40  Aligned_cols=31  Identities=13%  Similarity=0.154  Sum_probs=26.5

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAEV   54 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~   54 (85)
                      ..+.....|+  .+++.+++||||+..++...-
T Consensus       138 ~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~  170 (453)
T PTZ00147        138 VMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIK  170 (453)
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCCcEEEeecC
Confidence            5677788888  899999999999999997543

>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

Probab=81.94  E-value=5.9  Score=24.01  Aligned_cols=47  Identities=21%  Similarity=0.294  Sum_probs=37.5

Q ss_pred             EEEEEEECCEEEEEEEeCCC--CceeeCHHHHHhcCCcccCCCcEEEEeCCCCE
Q 047037           26 MRIQGSIKGKSVVILIDSGS--THNSINAEVAQRVNLSPNANNRLEIMVAFGEK   77 (85)
Q Consensus        26 ~~~~g~i~g~~v~~LiDSGa--t~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~   77 (85)
                      ++++...+|..+.+.++..+  +..=+...++++++++     ++.++-.|-+-
T Consensus         1 V~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~-----~f~lKYlDde~   49 (81)
T cd06396           1 VNLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN-----DIQIKYVDEEN   49 (81)
T ss_pred             CEEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC-----cceeEEEcCCC
Confidence            36889999999999999955  6666788999999988     66666666443

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.

>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases

Probab=81.78  E-value=3  Score=29.99  Aligned_cols=29  Identities=14%  Similarity=0.187  Sum_probs=24.0

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+  .+++.+++||||+..++..
T Consensus         5 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   35 (325)
T cd05490           5 AQYYGEIGIGTPPQTFTVVFDTGSSNLWVPS   35 (325)
T ss_pred             CEEEEEEEECCCCcEEEEEEeCCCccEEEEc
Confidence            4567777777  4889999999999999964

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

>PTZ00013 plasmepsin 4 (PM4); Provisional

Probab=81.60  E-value=3.1  Score=32.23  Aligned_cols=32  Identities=13%  Similarity=0.260  Sum_probs=26.0

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHHHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAEVA   55 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~a   55 (85)
                      ..+.....|+  ++++.+++||||+..++...-.
T Consensus       137 ~~Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C  170 (450)
T PTZ00013        137 IMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKC  170 (450)
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCCceEEecccC
Confidence            4566677887  8999999999999999976543

>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase

Probab=81.41  E-value=1.9  Score=30.65  Aligned_cols=21  Identities=19%  Similarity=0.335  Sum_probs=17.7

Q ss_pred             EEEEeCCCCceeeCHHHHHhc
Q 047037           38 VILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        38 ~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      .++||||+|..++++.+.+++
T Consensus       173 ~~ivDSGTt~~~lp~~~~~~l  193 (299)
T cd05472         173 GVIIDSGTVITRLPPSAYAAL  193 (299)
T ss_pred             CeEEeCCCcceecCHHHHHHH
Confidence            479999999999998777654

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

>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa

Probab=80.81  E-value=3.5  Score=29.57  Aligned_cols=29  Identities=21%  Similarity=0.242  Sum_probs=23.2

Q ss_pred             eEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           25 TMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        25 ~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      .|...-.|+  .+++.++|||||+..++...
T Consensus         3 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~   33 (318)
T cd05477           3 SYYGEISIGTPPQNFLVLFDTGSSNLWVPSV   33 (318)
T ss_pred             EEEEEEEECCCCcEEEEEEeCCCccEEEccC
Confidence            355566666  48999999999999999853

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

>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa

Probab=80.61  E-value=2.6  Score=30.26  Aligned_cols=28  Identities=18%  Similarity=0.412  Sum_probs=22.2

Q ss_pred             EECCEEE-------EEEEeCCCCceeeCHHHHHhc
Q 047037           31 SIKGKSV-------VILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        31 ~i~g~~v-------~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      .++++.+       .++||||.|..++++.+.+++
T Consensus       189 ~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l  223 (318)
T cd05477         189 QINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTL  223 (318)
T ss_pred             EECCEEecccCCCceeeECCCCccEECCHHHHHHH
Confidence            5666543       589999999999999888764

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

>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease

Probab=80.59  E-value=2.7  Score=30.90  Aligned_cols=28  Identities=29%  Similarity=0.389  Sum_probs=22.7

Q ss_pred             EEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           26 MRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        26 ~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      |.+.-.|+  .+++.+++||||+..++...
T Consensus         4 Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~   33 (364)
T cd05473           4 YYIEMLIGTPPQKLNILVDTGSSNFAVAAA   33 (364)
T ss_pred             eEEEEEecCCCceEEEEEecCCcceEEEcC
Confidence            55666676  58999999999999999753

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	85
3s8i_A	148	Protein DDI1 homolog 1; protease, structural genom	2e-04

>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens} Length = 148

 Score = 36.6 bits (84), Expect = 2e-04
 Identities = 10/60 (16%), Positives = 22/60 (36%)

Query: 26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKLMSSGKCT 85
          + I   + G  +   +DSG+    ++   A+R N+    + R   +          G+  
Sbjct: 25 LYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVGTQRIIGRVH 84

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	85
3s8i_A	148	Protein DDI1 homolog 1; protease, structural genom	99.38
2i1a_A	148	DNA damage-inducible protein DDI1; acid protease f	99.15
3slz_A	132	GAG-Pro-POL polyprotein; beta sheet and dimer, pro	97.8
1fmb_A	104	EIAV protease; hydrolase (acid proteinase), RNA-di	97.76
3ec0_A	99	Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1	96.73
2hs1_A	99	HIV-1 protease; ultra-high resolution active site	96.57
2hah_A	116	Protease, retropepsin; retroviral, aspartyl, hydro	96.08
3ka2_A	203	[L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro	95.89
3sqf_A	114	Protease; folded monomer, retropepsin, D-type retr	95.43
2rsp_A	124	RSV protease; hydrolase(aspartyl proteinase); 2.00	94.74
1lya_A	97	Cathepsin D; lysosomal aspartic protease; HET: NAG	93.95
3ka2_A	203	[L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro	93.82
3liy_A	116	Protease; hydrolase, hydrolase-hydrolase inhibitor	91.48
1bxo_A	323	Protein (penicillopepsin); hydrolase, phosphonate	89.83
1izd_A	323	Aspartic proteinase; sugar binding, acid protease,	89.79
2apr_A	325	Rhizopuspepsin; hydrolase (aspartic proteinase); 1	89.38
1b5f_A	239	Protein (cardosin A); hydrolase, aspartic proteina	89.24
1ibq_A	325	Aspergillopepsin; aspartic proteinase, hydrolase;	89.19
3c9x_A	329	Trichoderma reesei aspartic protease; aspartic pro	89.09
1oew_A	329	Endothiapepsin; hydrolase, aspartic proteinase mec	88.61
1mpp_A	361	Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomu	87.38
1yg9_A	330	Aspartic protease BLA G 2; allegren, hydrolase, al	87.33
1wkr_A	340	Polyporopepsin; hydrolase, hydrolase-hydrolase inh	87.26
1dpj_A	329	Proteinase A; proteinase A, hydrolase-hydrolase in	87.22
2qzx_A	342	Candidapepsin-5; aspartic proteinase, aspartyl pro	86.91
2qp8_A	395	Beta-secretase 1; BACE1, protease, alternative spl	86.79
3aup_A	403	SBG7S, BG, basic 7S globulin; pepsin-like fold, pl	86.59
3fv3_A	339	SAPP1P-secreted aspartic protease 1; secreted aspa	86.41
1j71_A	334	Candidapepsin, aspartic proteinase; candida tropic	86.39
2ewy_A	383	Beta-secretase 2; BACE2, aspartic protease, hydrol	85.99
1am5_A	324	Pepsin, acid proteinase; aspartyl protease, hydrol	85.88
3cms_A	323	Chymosin B; hydrolase, acid proteinase; 2.00A {Bos	85.85
3vf3_A	402	Beta-secretase 1; structure-based drug design, hyd	85.5
3pvk_A	342	Candidapepsin-2; hydrolase; 1.27A {Candida albican	85.38
1htr_B	329	Gastricsin; aspartyl protease; 1.62A {Homo sapiens	84.84
3k1w_A	341	Renin; protease, alternative splicing, aspartyl pr	84.22
4aa9_A	320	Chymosin; hydrolase, aspartic peptidase, rennet; H	84.04
1b5f_A	239	Protein (cardosin A); hydrolase, aspartic proteina	83.88
2bju_A	453	Plasmepsin II; aspartic proteinase, drug design, m	83.45
2x0b_A	383	Renin; hydrolase-hormone complex, hydrolase hormon	82.5
3lpj_A	455	Beta-secretase 1; alzheimer'S, aspartyl protease,	82.32
3qvc_A	451	Histo-aspartic protease; HAP, plasmepsin, zymogen,	81.25
3cms_A	323	Chymosin B; hydrolase, acid proteinase; 2.00A {Bos	81.24
1tzs_A	351	Cathepsin E; hydrolase, aspartic protease, activat	80.82
1qdm_A	478	Prophytepsin; aspartic proteinases, saposin-like d	80.08
3aup_A	403	SBG7S, BG, basic 7S globulin; pepsin-like fold, pl	80.01

>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens}

Probab=99.38  E-value=4.3e-13  Score=88.21  Aligned_cols=43  Identities=19%  Similarity=0.339  Sum_probs=39.2

Q ss_pred             CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037           21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN   63 (85)
Q Consensus        21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~   63 (85)
                      ....++++.+.|||+++.+||||||+++||++++|+|+||+..
T Consensus        20 ~~~~~l~v~~~Ing~~v~~LVDTGAs~s~Is~~~A~rlGL~~~   62 (148)
T 3s8i_A           20 GQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRL   62 (148)
T ss_dssp             --CCCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHTTCGGG
T ss_pred             cccCEEEEEEEECCEEEEEEEeCCCCcEeeCHHHHHHcCCccc
Confidence            4568999999999999999999999999999999999999864

>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae}

Probab=99.15  E-value=3.8e-11  Score=77.53  Aligned_cols=44  Identities=18%  Similarity=0.289  Sum_probs=40.2

Q ss_pred             CcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccC
Q 047037           21 QVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNA   64 (85)
Q Consensus        21 ~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~   64 (85)
                      ...+++++.+.|||+++.+||||||++++|++++|+++|++...
T Consensus        22 ~~~~~~~v~v~InG~~~~~LvDTGAs~s~is~~~a~~lgl~~~~   65 (148)
T 2i1a_A           22 TQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTGLSRMI   65 (148)
T ss_dssp             -CCCCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHHTGGGGC
T ss_pred             cccceEEEEEEECCEEEEEEEECCCCccccCHHHHHHcCCCccC
Confidence            45789999999999999999999999999999999999997654

>3slz_A GAG-Pro-POL polyprotein; beta sheet and dimer, protease, peptide inhibitor, TL-3 PEPS virus, hydrolase-hydrolase inhibitor complex; HET: 3TL; 1.40A {Dg-75 murine leukemia virus} PDB: 3nr6_A* 3sm1_A* 3sm2_A* 4exh_A*

Probab=97.80  E-value=1.2e-05  Score=51.92  Aligned_cols=55  Identities=20%  Similarity=0.274  Sum_probs=41.9

Q ss_pred             cccCcCCeEEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcccCCCcEEEEeCCCCEE
Q 047037           18 ARDQVLETMRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPNANNRLEIMVAFGEKL   78 (85)
Q Consensus        18 ~g~~~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~~~~~~~V~~anG~~~   78 (85)
                      .|..+.+--.+..+|||+++.+|+||||+.+.|+...+.     . ..++..|..+||...
T Consensus        15 ~~~d~~~RP~v~i~I~G~~~~~LlDTGAd~tVl~~~~~p-----~-~~~p~~I~GiGG~i~   69 (132)
T 3slz_A           15 QGQEPPPEPRITLKVGGQPVTFLVDTGAQHSVLTQNPGP-----L-SDKSAWVQGATGGKR   69 (132)
T ss_dssp             ---CCCCSSEEEEEETTEEEEEEECTTCSSCEECSCCCS-----E-EEEEEEEECSSCEEE
T ss_pred             cCCCccCCCEEEEEECCEEEEEEEeCCCCeEEEccccCC-----C-CCCceEEEccCCEEE
Confidence            344556667788999999999999999999999986544     1 135788999999755

>1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA polymerase, AS protease, endonuclease, polyprotein; HET: HYB; 1.80A {Equine infectious anemia virus} SCOP: b.50.1.1 PDB: 2fmb_A*

Probab=97.76  E-value=4.7e-05  Score=47.26  Aligned_cols=38  Identities=13%  Similarity=0.213  Sum_probs=34.9

Q ss_pred             EEEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCccc
Q 047037           26 MRIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSPN   63 (85)
Q Consensus        26 ~~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~~   63 (85)
                      ..+..+|+|+.+.+|+||||-.+.|+.+...++++|-.
T Consensus         9 P~v~v~I~Gq~~e~LLDTGAD~TVl~~~~w~~i~lp~~   46 (104)
T 1fmb_A            9 PTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRGR   46 (104)
T ss_dssp             CEEEEEETTEEEEEEECTTCSSCEEEHHHHHHCSSCCC
T ss_pred             CEEEEEECCEEEEEEeccCCCcEEEccccCcccCCCCc
Confidence            45778999999999999999999999999999998876

>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human immunodeficiency virus type 2} SCOP: b.50.1.1 PDB: 1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A* 3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A 3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...

Probab=96.73  E-value=0.0022  Score=39.45  Aligned_cols=25  Identities=24%  Similarity=0.547  Sum_probs=23.2

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeC
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      .++-+|+|+.+.+|+||||.++.|+
T Consensus        10 ~vti~I~Gq~~e~LLDTGAD~TVl~   34 (99)
T 3ec0_A           10 VVTAYIEGQPVEVLLDTGADDSIVA   34 (99)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEES
T ss_pred             eEEEEECCEEEEEEEecCCCceEEc
Confidence            5678999999999999999999996

>2hs1_A HIV-1 protease; ultra-high resolution active site surface binding site, HYDR; HET: 017; 0.84A {Human immunodeficiency virus 1} PDB: 3nu4_A* 3tl9_A* 3tkw_A* 3tkg_A* 3ndu_A* 3ndt_A* 3k4v_A* 3a2o_A* 1fgc_C* 2a1e_A* 2aod_A* 2aoi_A* 2aoj_A* 2hb3_A* 2ien_A* 1sdt_A* 2z4o_A* 2zye_A* 2nmw_A* 3b7v_A* ...

Probab=96.57  E-value=0.0029  Score=38.88  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=23.9

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeCH
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~~   52 (85)
                      .++.+|+|+.+.+|+||||-+++|+.
T Consensus        10 ~vtvkI~Gq~~eaLLDTGAD~TVl~~   35 (99)
T 2hs1_A           10 LVTIKIGGQLKEALLDTGADDTIIEE   35 (99)
T ss_dssp             EEEEEETTEEEEEEECTTCSSEEESC
T ss_pred             EEEEEECCEEEEEEeccCCCcEEEec
Confidence            46789999999999999999999995

>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase complex; HET: 3TL; 1.70A {Feline immunodeficiency virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A* 4fiv_A* 1fiv_A* 1b11_A*

Probab=96.08  E-value=0.0065  Score=38.23  Aligned_cols=28  Identities=18%  Similarity=0.335  Sum_probs=24.5

Q ss_pred             CeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           24 ETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        24 ~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      +.+.  .+|+|+.+.+|+||||-++.|+..
T Consensus        14 rP~v--ikI~Gq~~eaLLDTGAD~TVi~~~   41 (116)
T 2hah_A           14 PEIL--IFVNGYPIKFLLDTGADITVLNRR   41 (116)
T ss_dssp             CEEE--EEETTEEEEEEECTTCSSCEEEGG
T ss_pred             CCEE--EEECCEEEEEEecCCCCcEEEccc
Confidence            4444  999999999999999999999964

>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...

Probab=95.89  E-value=0.01  Score=40.73  Aligned_cols=26  Identities=23%  Similarity=0.307  Sum_probs=24.0

Q ss_pred             EEEEEEECCEEEEEEEeCCCCceeeC
Q 047037           26 MRIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        26 ~~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      -.++.+|+|+.+.+|+||||.++.|.
T Consensus         9 P~vtv~I~Gq~~e~LLDTGAD~TVl~   34 (203)
T 3ka2_A            9 PLVTIRIGGQLKEALLDTGADDTVIE   34 (203)
T ss_dssp             CEEEEEETTEEEEEEECTTCSSCEEC
T ss_pred             CeEEEEECCEEEEEEEecCCCceEEe
Confidence            36778999999999999999999998

>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A

Probab=95.43  E-value=0.019  Score=36.13  Aligned_cols=26  Identities=19%  Similarity=0.199  Sum_probs=23.2

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeCH
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~~   52 (85)
                      .++.+|+|+.+.+|+||||-.+.|..
T Consensus        11 ~vti~I~Gq~~eaLLDTGADdTVi~~   36 (114)
T 3sqf_A           11 SLTLWLDDKMFTGLINTGADVTIIKL   36 (114)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEEEG
T ss_pred             eEEEEECCEEEEEEEccCCCceEEec
Confidence            45689999999999999999999974

>2rsp_A RSV protease; hydrolase(aspartyl proteinase); 2.00A {Rous sarcoma virus} SCOP: b.50.1.1 PDB: 1mvp_A 1bai_A*

Probab=94.74  E-value=0.019  Score=36.49  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=19.9

Q ss_pred             ECCEEEEEEEeCCCCceeeCH
Q 047037           32 IKGKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        32 i~g~~v~~LiDSGat~~Fi~~   52 (85)
                      |+|+.+.+|+||||.+++|..
T Consensus        27 i~gq~~eaLLDTGAD~TVl~~   47 (124)
T 2rsp_A           27 QRSVYITALLDSGADITIISE   47 (124)
T ss_dssp             CSEEEEEEEECTTCSSCEEET
T ss_pred             CCCEEEEEEecCCCCcEEEec
Confidence            899999999999999999985

>1lya_A Cathepsin D; lysosomal aspartic protease; HET: NAG BMA MAN; 2.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 1lyb_A* 1lyw_A*

Probab=93.95  E-value=0.14  Score=30.44  Aligned_cols=32  Identities=13%  Similarity=0.102  Sum_probs=27.7

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        11 ~~~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~   44 (97)
T 1lya_A           11 MDAQYYGEIGIGTPPQCFTVVFDTGSSNLWVPSI   44 (97)
T ss_dssp             TTTEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCCeEEEEEEECCCCeEEEEEEeCCCCceEEeEc
Confidence            346788899999  99999999999999998753

>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...

Probab=93.82  E-value=0.081  Score=36.17  Aligned_cols=26  Identities=23%  Similarity=0.307  Sum_probs=23.5

Q ss_pred             EEEEEEECCEEEEEEEeCCCCceeeC
Q 047037           26 MRIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        26 ~~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      -.+..+|+|+.+.+|+||||.++.|.
T Consensus       113 P~~~iki~Gq~~e~LlDTGAD~TVl~  138 (203)
T 3ka2_A          113 PLVTIRIGGQLKEALLDTGADDTVIE  138 (203)
T ss_dssp             CEEEEEETTEEEEEEECTTCSSCEEC
T ss_pred             CcEEEEECCEEEeeeecccCCceeee
Confidence            35678999999999999999999995

>3liy_A Protease; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.86A {Human t-lymphotropic virus 1} PDB: 2b7f_A* 3liq_A* 3lit_A* 3liv_A* 3lix_A* 3lin_A*

Probab=91.48  E-value=0.16  Score=31.95  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=22.7

Q ss_pred             EEEEEEC-----CEEEEEEEeCCCCceeeCH
Q 047037           27 RIQGSIK-----GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        27 ~~~g~i~-----g~~v~~LiDSGat~~Fi~~   52 (85)
                      .+..+|+     |+.+.+|+||||..+.|..
T Consensus        12 lvtikI~~~~~~Gq~~eaLLDTGADdTVl~~   42 (116)
T 3liy_A           12 VIKAQVDTQTSHPKTIEALLDTGADMTVIPI   42 (116)
T ss_dssp             EEEEEEECSSSCCEEEEEEECTTBSSCEEEG
T ss_pred             eEEEEEccccCCCeEeEEEeccCCCccEEec
Confidence            4567888     9999999999999999974

>1bxo_A Protein (penicillopepsin); hydrolase, phosphonate inhibitors, macrocycle; HET: MAN PP7; 0.95A {Penicillium janthinellum} SCOP: b.50.1.2 PDB: 1apu_E* 1apv_E* 1apw_E* 1apt_E* 1bxq_A* 1ppk_E* 1ppl_E* 1ppm_E* 2wea_A* 2web_A* 2wec_A* 2wed_A* 3app_A

Probab=89.83  E-value=0.5  Score=32.99  Aligned_cols=32  Identities=19%  Similarity=0.151  Sum_probs=28.2

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+.+++.+++||||+..++...
T Consensus        13 ~~~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~   44 (323)
T 1bxo_A           13 NDEEYITPVTIGGTTLNLNFDTGSADLWVFST   44 (323)
T ss_dssp             GGSCEEEEEEETTEEEEEEEETTCCCEEECBT
T ss_pred             CCCEEEEEEEECCEEEEEEEeCCCcceEEecC
Confidence            45678889999999999999999999999754

>1izd_A Aspartic proteinase; sugar binding, acid protease, hydrolase; HET: MAN; 1.90A {Aspergillus oryzae} SCOP: b.50.1.2 PDB: 1ize_A*

Probab=89.79  E-value=0.53  Score=32.95  Aligned_cols=32  Identities=16%  Similarity=0.090  Sum_probs=28.3

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+.+++.+++||||+..++...
T Consensus        13 ~~~~Y~~~i~iG~q~~~v~~DTGSs~lWv~~~   44 (323)
T 1izd_A           13 NDEEYITQVTVGDDTLGLDFDTGSADLWVFSS   44 (323)
T ss_dssp             GGCCEEEEEEETTEEEEEEEETTCCCEEECBT
T ss_pred             CCCEEEEEEEECCEEEEEEEcCCCcceEEecC
Confidence            45678899999999999999999999999764

>2apr_A Rhizopuspepsin; hydrolase (aspartic proteinase); 1.80A {Rhizopus microsporus var} SCOP: b.50.1.2 PDB: 3apr_E* 4apr_E* 5apr_E* 6apr_E* 1uh9_A 1uh8_A 1uh7_A

Probab=89.38  E-value=0.73  Score=32.20  Aligned_cols=33  Identities=24%  Similarity=0.105  Sum_probs=28.9

Q ss_pred             CcCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           21 QVLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        21 ~~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      .....|.+.-.|+  .+++.+++||||+..++...
T Consensus        12 ~~~~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~~   46 (325)
T 2apr_A           12 GNDIEYYGQVTIGTPGKKFNLDFDTGSSDLWIAST   46 (325)
T ss_dssp             TTTTEEEEEEEETTTTEEEEEEEETTCCCCEEEBT
T ss_pred             CCCCEEEEEEEECCCCeEEEEEEcCCCCCEEEccC
Confidence            4467889999999  99999999999999999754

>1b5f_A Protein (cardosin A); hydrolase, aspartic proteinase; HET: NAG FUC BMA MAN; 1.72A {Cynara cardunculus} SCOP: b.50.1.2

Probab=89.24  E-value=0.74  Score=30.91  Aligned_cols=30  Identities=13%  Similarity=0.097  Sum_probs=26.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        12 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~   43 (239)
T 1b5f_A           12 DTSYFGEIGIGTPPQKFTVIFDTGSSVLWVPS   43 (239)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CCEEEEEEEECCCCeEEEEEEeCCCcceEEEc
Confidence            46788999999  8999999999999999964

>1ibq_A Aspergillopepsin; aspartic proteinase, hydrolase; HET: MAN; 2.14A {Aspergillus phoenicis} SCOP: b.50.1.2

Probab=89.19  E-value=0.66  Score=32.41  Aligned_cols=32  Identities=13%  Similarity=0.085  Sum_probs=28.0

Q ss_pred             cCCeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+.+++.+++||||+..++...
T Consensus        12 ~~~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~   43 (325)
T 1ibq_A           12 NDEEYLTPVTVGKSTLHLDFDTGSADLWVFSD   43 (325)
T ss_dssp             TTSCEEEEEEEBTEEEEEEEETTCCCEEEECT
T ss_pred             CCCEEEEEEEECCEEEEEEEeCCCccceEeeC
Confidence            45678888899999999999999999999754

>3c9x_A Trichoderma reesei aspartic protease; aspartic proteinase, aspartyl protease, hydrolase; 1.70A {Trichoderma reesei} PDB: 3c9y_A* 3emy_A*

Probab=89.09  E-value=1.1  Score=31.31  Aligned_cols=32  Identities=16%  Similarity=0.082  Sum_probs=28.1

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        13 ~~~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~   46 (329)
T 3c9x_A           13 ADSEYITSVSIGTPAQVLPLDFDTGSSDLWVFSS   46 (329)
T ss_dssp             TCCCEEEEEEETTTTEEEEEEEETTCCCEEECBT
T ss_pred             CCCEEEEEEEECCCCeEEEEEEcCCCCCeEEecC
Confidence            456788899999  99999999999999999754

>1oew_A Endothiapepsin; hydrolase, aspartic proteinase mechanism, atomic resolution, succinimide, anisotropic refinement; HET: SUI; 0.9A {Cryphonectria parasitica} SCOP: b.50.1.2 PDB: 1gkt_A* 1gvt_A* 1gvv_A* 1gvw_A* 1gvx_A* 1gvu_A* 1oex_A* 2jji_A* 2jjj_A* 2vs2_A* 3uri_A* 3urj_A* 3url_A* 3pww_A* 1e80_E* 1e81_E* 1e82_E* 1e5o_E* 1eed_P* 1epl_E* ...

Probab=88.61  E-value=1.2  Score=31.03  Aligned_cols=32  Identities=13%  Similarity=0.130  Sum_probs=28.2

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        13 ~~~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~   46 (329)
T 1oew_A           13 LDDAYITPVQIGTPAQTLNLDFDTGSSDLWVFSS   46 (329)
T ss_dssp             TCCCEEEEEEETTTTEEEEEEEETTCCCEEECBT
T ss_pred             CCCEEEEEEEECCCCeEEEEEECCCCCCeEEecC
Confidence            456788899999  99999999999999999764

>1mpp_A Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomucor pusillus} SCOP: b.50.1.2 PDB: 2asi_A* 2rmp_A*

Probab=87.38  E-value=1  Score=31.72  Aligned_cols=32  Identities=31%  Similarity=0.433  Sum_probs=28.3

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        16 ~~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~   49 (361)
T 1mpp_A           16 DLEEYAIPVSIGTPGQDFYLLFDTGSSDTWVPHK   49 (361)
T ss_dssp             TTTEEEEEEEETTTTEEEEEEEETTCCCCEEEBT
T ss_pred             CCCEEEEEEEECCCCcEEEEEEcCCCCCeEECCC
Confidence            357889999999  99999999999999999754

>1yg9_A Aspartic protease BLA G 2; allegren, hydrolase, allergen; HET: NAG; 1.30A {Blattella germanica} PDB: 2nr6_A* 3liz_A*

Probab=87.33  E-value=0.61  Score=32.70  Aligned_cols=30  Identities=13%  Similarity=0.142  Sum_probs=26.3

Q ss_pred             CeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           24 ETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        24 ~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ..|.+.-.|+.+++.+++||||+..++...
T Consensus        17 ~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~   46 (330)
T 1yg9_A           17 TQYAGITKIGNQNFLTVFDSTSCNVVVASQ   46 (330)
T ss_dssp             TTSEEEEEETTEEEEEEEETTCCCEEEECT
T ss_pred             CEEEEEEEECCEEEEEEEeCCCcceEEecC
Confidence            567788888899999999999999999754

>1wkr_A Polyporopepsin; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.30A {Irpex lacteus} SCOP: b.50.1.2

Probab=87.26  E-value=0.9  Score=31.80  Aligned_cols=29  Identities=17%  Similarity=0.337  Sum_probs=26.5

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+  .+++.+++||||+..++..
T Consensus        12 ~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~   42 (340)
T 1wkr_A           12 VDYVVNVGVGSPATTYSLLVDTGSSNTWLGA   42 (340)
T ss_dssp             SCEEEEEEETTTTEEEEEEEETTCCCCEECS
T ss_pred             cEEEEEEEECCCCcEEEEEEeCCChhheecC
Confidence            5788999999  9999999999999999974

>1dpj_A Proteinase A; proteinase A, hydrolase-hydrolase inhibitor COM; HET: BMA MAN NAG; 1.80A {Saccharomyces cerevisiae} SCOP: b.50.1.2 PDB: 1dp5_A* 1fmu_A* 1fmx_A* 1fq5_A* 1fq4_A* 1fq6_A* 1fq7_A* 1fq8_A* 2jxr_A* 1g0v_A*

Probab=87.22  E-value=1.1  Score=31.30  Aligned_cols=30  Identities=10%  Similarity=0.186  Sum_probs=26.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        12 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~   43 (329)
T 1dpj_A           12 NAQYYTDITLGTPPQNFKVILDTGSSNLWVPS   43 (329)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CCEEEEEEEECCCCcEEEEEEeCCCcCeEEec
Confidence            36788999999  8999999999999999964

>2qzx_A Candidapepsin-5; aspartic proteinase, aspartyl protease, CL PAIR of basic residues, glycoprotein, protease, secreted; HET: STA; 2.50A {Candida albicans}

Probab=86.91  E-value=1.1  Score=31.42  Aligned_cols=30  Identities=17%  Similarity=0.238  Sum_probs=26.9

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        11 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   42 (342)
T 2qzx_A           11 AITYTADITVGSDNQKLNVIVDTGSSDLWIPD   42 (342)
T ss_dssp             SSCEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CeEEEEEEEECCCCcEEEEEEeCCCCCeEEec
Confidence            46788999999  9999999999999999963

>2qp8_A Beta-secretase 1; BACE1, protease, alternative splicing, aspartyl protease, glycoprotein, hydrolase, membrane, transmembrane, zymogen; HET: TAR SC7; 1.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 2qk5_A* 2qmf_A* 2qmg_A* 2qmd_A* 4djx_A* 3l59_A* 3l5b_A* 3l5c_A* 3l58_A* 3l5d_A* 3l5f_A* 4dju_A* 4djv_A* 4djw_A* 3l5e_A* 4djy_A* 2zhv_A 2zhs_A 2zhr_A 2zhu_A ...

Probab=86.79  E-value=1.2  Score=31.94  Aligned_cols=31  Identities=19%  Similarity=0.353  Sum_probs=27.1

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus        20 ~~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~   52 (395)
T 2qp8_A           20 GQGYYVEMTVGSPPQTLNILVDTGSSNFAVGAA   52 (395)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEECS
T ss_pred             CceEEEEEEecCCCceEEEEEecCCCceEEECC
Confidence            35688899999  99999999999999999643

>3aup_A SBG7S, BG, basic 7S globulin; pepsin-like fold, plant protein; 1.91A {Glycine max}

Probab=86.59  E-value=1.2  Score=32.02  Aligned_cols=32  Identities=19%  Similarity=0.104  Sum_probs=28.2

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++.-.
T Consensus        19 ~~~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~   52 (403)
T 3aup_A           19 STGLHWANLQKRTPLMQVPVLVDLNGNHLWVNCE   52 (403)
T ss_dssp             TTCCEEEEEEETTTTEEEEEEEETTCSSEEEECS
T ss_pred             CCceEEEEEECCCCCceeEEEEECCCCceeECCC
Confidence            457899999999  89999999999999999743

>3fv3_A SAPP1P-secreted aspartic protease 1; secreted aspartic protease, virulence factor, H; HET: STA; 1.85A {Candida parapsilosis} SCOP: b.50.1.0 PDB: 3tne_A*

Probab=86.41  E-value=1.1  Score=31.29  Aligned_cols=30  Identities=17%  Similarity=0.185  Sum_probs=26.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        11 ~~~Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~~   42 (339)
T 3fv3_A           11 GPSYASKVSVGSNKQQQTVIIDTGSSDFWVVD   42 (339)
T ss_dssp             SSSEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CCEEEEEEEEcCCCcEEEEEEeCCCCceEEec
Confidence            35789999999  8999999999999999974

>1j71_A Candidapepsin, aspartic proteinase; candida tropicalis aspartic protease, SAPT1, hydrolase; 1.80A {Candida tropicalis} SCOP: b.50.1.2

Probab=86.39  E-value=1.1  Score=31.39  Aligned_cols=30  Identities=13%  Similarity=0.131  Sum_probs=26.9

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        11 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   42 (334)
T 1j71_A           11 GPSYAADIVVGSNQQKQTVVIDTGSSDLWVVD   42 (334)
T ss_dssp             SSSEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CcEEEEEEEEcCCCcEEEEEEcCCCCCEEEec
Confidence            46788999999  9999999999999999963

>2ewy_A Beta-secretase 2; BACE2, aspartic protease, hydrolase; HET: DBO; 3.10A {Homo sapiens}

Probab=85.99  E-value=1.4  Score=31.23  Aligned_cols=29  Identities=21%  Similarity=0.340  Sum_probs=26.0

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+  .+++.+++||||+..++..
T Consensus        13 ~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~   43 (383)
T 2ewy_A           13 RGYYLEMLIGTPPQKLQILVDTGSSNFAVAG   43 (383)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEC
T ss_pred             CcEEEEEEecCCCceEEEEEecCCCceEEec
Confidence            5688899999  8999999999999999964

>1am5_A Pepsin, acid proteinase; aspartyl protease, hydrolase; 2.16A {Gadus morhua} SCOP: b.50.1.2

Probab=85.88  E-value=1.6  Score=30.31  Aligned_cols=32  Identities=19%  Similarity=0.130  Sum_probs=27.6

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        10 ~~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~   43 (324)
T 1am5_A           10 ADTEYYGVISIGTPPESFKVIFDTGSSNLWVSSS   43 (324)
T ss_dssp             TTTEEEEEEEETTTTEEEEEEEETTCCCEEECBT
T ss_pred             CCCEEEEEEEECCCCeEEEEEEeCCCcceEEecC
Confidence            346788899998  69999999999999999754

>3cms_A Chymosin B; hydrolase, acid proteinase; 2.00A {Bos taurus} SCOP: b.50.1.2 PDB: 4cms_A 1czi_E* 1cms_A

Probab=85.85  E-value=1.5  Score=30.46  Aligned_cols=30  Identities=13%  Similarity=0.082  Sum_probs=26.9

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        13 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   44 (323)
T 3cms_A           13 DSQYFGKIYLGTPPQEFTVLFDTGSSDFWVPS   44 (323)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CCEEEEEEEECCCCeEEEEEEeCCccceEEcC
Confidence            46788999999  7999999999999999974

>3vf3_A Beta-secretase 1; structure-based drug design, hydrolase-hydrolase inhibitor C; HET: 0GS; 1.48A {Homo sapiens} PDB: 2f3e_A* 2f3f_A* 1ym2_A* 3dv1_A* 3dv5_A* 3k5c_A* 3k5f_A* 3k5g_A* 3pi5_A* 3qbh_A* 3duy_A* 3veu_A* 3vg1_A* 4d83_A* 4d88_A* 4d89_A* 4d8c_A* 3msk_A* 3k5d_A* 1ym4_A* ...

Probab=85.50  E-value=1.5  Score=31.32  Aligned_cols=30  Identities=20%  Similarity=0.365  Sum_probs=26.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        27 ~~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~   58 (402)
T 3vf3_A           27 GQGYYVEMTVGSPPQTLNILVDTGSSNFAVGA   58 (402)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEC
T ss_pred             CCEEEEEEEECCCCeEEEEEEeCCCCceEEcc
Confidence            35799999999  8999999999999999964

>3pvk_A Candidapepsin-2; hydrolase; 1.27A {Candida albicans} SCOP: b.50.1.2 PDB: 1eag_A 3q70_A* 1zap_A* 2qzw_A 2h6t_A* 2h6s_A*

Probab=85.38  E-value=1.3  Score=30.85  Aligned_cols=30  Identities=13%  Similarity=0.228  Sum_probs=26.7

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        11 ~~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~   42 (342)
T 3pvk_A           11 QVTYAADITVGSNNQKLNVIVDTGSSDLWVPD   42 (342)
T ss_dssp             SSSEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CcEEEEEEEEcCCCcEEEEEEECCCcceEEEc
Confidence            46788999999  8999999999999999953

>1htr_B Gastricsin; aspartyl protease; 1.62A {Homo sapiens} SCOP: b.50.1.2 PDB: 1avf_A

Probab=84.84  E-value=1.6  Score=30.35  Aligned_cols=32  Identities=19%  Similarity=0.171  Sum_probs=27.3

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ....|.+.-.|+  .+++.+++||||+..++...
T Consensus        10 ~~~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~~   43 (329)
T 1htr_B           10 MDAAYFGEISIGTPPQNFLVLFDTGSSNLWVPSV   43 (329)
T ss_dssp             TTCCEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             cCCEEEEEEEECCCCcEEEEEEcCCCccEEEecC
Confidence            346788888998  79999999999999999753

>3k1w_A Renin; protease, alternative splicing, aspartyl protease, cleavage on PAIR of basic residues, disease mutation, disulfide bond, glycoprotein; HET: BFX NDG HSQ; 1.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 3d91_A* 3g70_A* 3g6z_A* 3own_A* 2iko_A* 1bbs_A* 1rne_A* 2bkt_A* 2bks_A* 2iku_A* 2il2_A* 2ren_A* 2v0z_C* 2v10_C* 2v11_C* 2v12_C* 2v13_A* 2v16_C* 3g72_A* 3oot_A* ...

Probab=84.22  E-value=1.9  Score=29.94  Aligned_cols=31  Identities=13%  Similarity=0.124  Sum_probs=27.1

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus        17 d~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~   49 (341)
T 3k1w_A           17 DTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSS   49 (341)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCEEEEEEEEcCCCcEEEEEEeCCCcceEEccC
Confidence            46788999999  69999999999999999743

>4aa9_A Chymosin; hydrolase, aspartic peptidase, rennet; HET: NAG; 1.60A {Camelus dromedarius} PDB: 4aa8_A 1czi_E* 1cms_A 4cms_A 3cms_A

Probab=84.04  E-value=1.3  Score=30.67  Aligned_cols=30  Identities=13%  Similarity=0.072  Sum_probs=26.1

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        10 d~~Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~~   41 (320)
T 4aa9_A           10 DSQYFGKIYIGTPPQEFTVVFDTGSSDLWVPS   41 (320)
T ss_dssp             CCCCEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CCEEEEEEEECCCCeEEEEEEeCCCCceEEcC
Confidence            35688888898  7999999999999999975

>1b5f_A Protein (cardosin A); hydrolase, aspartic proteinase; HET: NAG FUC BMA MAN; 1.72A {Cynara cardunculus} SCOP: b.50.1.2

Probab=83.88  E-value=1.1  Score=30.03  Aligned_cols=29  Identities=24%  Similarity=0.217  Sum_probs=23.5

Q ss_pred             EEECCEE-------EEEEEeCCCCceeeCHHHHHhc
Q 047037           30 GSIKGKS-------VVILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        30 g~i~g~~-------v~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      -.++++.       ..++||||.+..+++..+++.+
T Consensus       197 i~v~~~~~~~~~~~~~aiiDTGTt~~~lP~~~~~~i  232 (239)
T 1b5f_A          197 VLIGDKSTGFCAPGCQAFADSGTSLLSGPTAIVTQI  232 (239)
T ss_dssp             EEETTEECCTTTTCEEEEECTTCSSEEECHHHHHHH
T ss_pred             EEECCEEecccCCCCEEEEecCcchhhCCHHHHHHH
Confidence            3566665       3689999999999999988765

>2bju_A Plasmepsin II; aspartic proteinase, drug design, malaria, aspartyl protease, glycoprotein, hydrolase, signal, zymogen; HET: IH4; 1.56A {Plasmodium falciparum} SCOP: b.50.1.2 PDB: 1pfz_A 1xdh_A* 1lf3_A 1w6h_A* 1w6i_A* 1lf4_A* 1lf2_A* 1lee_A* 1m43_A* 2igx_A* 1sme_A* 1me6_A* 1xe6_A* 1xe5_A* 2igy_A* 2r9b_A 3f9q_A 3qrv_A 3qs1_A* 2anl_A* ...

Probab=83.45  E-value=2  Score=31.93  Aligned_cols=31  Identities=10%  Similarity=0.132  Sum_probs=27.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus       137 ~~~Y~~~I~IGTP~Q~~~vi~DTGSs~lWV~~~  169 (453)
T 2bju_A          137 NIMFYGDAEVGDNQQPFTFILDTGSANLWVPSV  169 (453)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCEEEEEEEECCCCeEEEEEEECCCcceEEecc
Confidence            46789999999  99999999999999999754

>2x0b_A Renin; hydrolase-hormone complex, hydrolase hormone complex, vasoconstrictor, glycoprotein, hypertension, serpins; 4.33A {Homo sapiens}

Probab=82.50  E-value=2.1  Score=30.93  Aligned_cols=31  Identities=13%  Similarity=0.124  Sum_probs=27.3

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus        60 ~~~Y~~~I~IGTP~Q~f~vi~DTGSs~lWV~s~   92 (383)
T 2x0b_A           60 DTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSS   92 (383)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCEEEEEEEECCCCcEEEEEEeCCCCCeEEecc
Confidence            46788899998  79999999999999999754

>3lpj_A Beta-secretase 1; alzheimer'S, aspartyl protease, hydrolase; HET: TLA Z75; 1.79A {Homo sapiens} PDB: 3lpi_A* 3lpk_A* 3ohf_A* 3ohh_A* 3r2f_A* 3skf_A* 3skg_A* 4fse_A* 2hiz_A* 2p83_A* 2va7_A* 2va5_A* 2va6_A*

Probab=82.32  E-value=2.1  Score=31.31  Aligned_cols=29  Identities=21%  Similarity=0.428  Sum_probs=26.1

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+  .+++.+++||||+..++..
T Consensus        74 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWV~~  104 (455)
T 3lpj_A           74 QGYYVEMTVGSPPQTLNILVDTGSSNFAVGA  104 (455)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEC
T ss_pred             CEEEEEEEECCCCeEEEEEEcCCCcceEEec
Confidence            4688899999  8999999999999999964

>3qvc_A Histo-aspartic protease; HAP, plasmepsin, zymogen, hydrolase; 2.10A {Plasmodium falciparum} PDB: 3qvi_A* 3fns_A 3fnt_A* 3fnu_A*

Probab=81.25  E-value=2.1  Score=31.72  Aligned_cols=31  Identities=10%  Similarity=0.037  Sum_probs=27.3

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus       136 d~~Y~~~I~IGTPpQ~~~vi~DTGSs~lWV~s~  168 (451)
T 3qvc_A          136 NVLSFGEAKLGDNGQKFNFLFHTASSNVWVPSI  168 (451)
T ss_dssp             CEEEEEEEEETTTTEEEEEEEESSBCSEEEEBT
T ss_pred             CCEEEEEEEECCCCcEEEEEEcCCCccEEEecC
Confidence            34688899999  89999999999999999764

>3cms_A Chymosin B; hydrolase, acid proteinase; 2.00A {Bos taurus} SCOP: b.50.1.2 PDB: 4cms_A 1czi_E* 1cms_A

Probab=81.24  E-value=2  Score=29.88  Aligned_cols=29  Identities=17%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             EEECCEEE------EEEEeCCCCceeeCHHHHHhc
Q 047037           30 GSIKGKSV------VILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        30 g~i~g~~v------~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      -.++++.+      .++||||.+..++++.+++++
T Consensus       198 i~v~~~~~~~~~~~~aiiDSGTt~~~lP~~~~~~l  232 (323)
T 3cms_A          198 VTISGVVVACEGGCQAILDTGTSKLVGPSSDILNI  232 (323)
T ss_dssp             EEETTEEEESTTCEEEEECTTCCSEEECHHHHHHH
T ss_pred             EEECCEEeecCCCcEEEEecCCccEeCCHHHHHHH
Confidence            35666654      689999999999999887654

>1tzs_A Cathepsin E; hydrolase, aspartic protease, activation intermediate; 2.35A {Homo sapiens}

Probab=80.82  E-value=1.7  Score=30.63  Aligned_cols=31  Identities=16%  Similarity=0.080  Sum_probs=26.9

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+  .+++.+++||||+..++...
T Consensus        22 ~~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~   54 (351)
T 1tzs_A           22 DMEYFGTISIGSPPQNFTVIFDTGSSNLWVPSV   54 (351)
T ss_dssp             SSCCCEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCEEEEEEEECCCCeEEEEEEeCCCcceEEecC
Confidence            46788888998  79999999999999999653

>1qdm_A Prophytepsin; aspartic proteinases, saposin-like domain, zymogen structure, hydrolase; 2.30A {Hordeum vulgare} SCOP: a.64.1.2 b.50.1.2

Probab=80.08  E-value=2.5  Score=31.52  Aligned_cols=30  Identities=10%  Similarity=0.118  Sum_probs=26.8

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..++..
T Consensus        51 ~~~Y~~~i~IGTP~Q~~~v~~DTGSs~lWV~~   82 (478)
T 1qdm_A           51 NAQYFGEIGVGTPPQKFTVIFDTGSSNLWVPS   82 (478)
T ss_dssp             GCCEEEEEEETTTTEEEEEEEETTCCCCEEEB
T ss_pred             CCEEEEEEEECCCCeEEEEEEcCCCcceEEec
Confidence            46788999999  8999999999999999964

>3aup_A SBG7S, BG, basic 7S globulin; pepsin-like fold, plant protein; 1.91A {Glycine max}

Probab=80.01  E-value=1.7  Score=31.24  Aligned_cols=20  Identities=20%  Similarity=0.333  Sum_probs=17.4

Q ss_pred             EEEeCCCCceeeCHHHHHhc
Q 047037           39 ILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        39 ~LiDSGat~~Fi~~~~a~~l   58 (85)
                      ++||||.|..++++.+.+.+
T Consensus       262 aiiDSGTt~~~lp~~~~~~l  281 (403)
T 3aup_A          262 TMISTSTPHMVLQQSVYQAF  281 (403)
T ss_dssp             EEECSSCSSEEECHHHHHHH
T ss_pred             EEEECCCccEEeCHHHHHHH
Confidence            89999999999999877644

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	85
d2fmba_	104	EIAV protease {Equine infectious anemia virus [Tax	97.75
d4fiva_	113	Feline immunodeficiency virus (FIV) protease {Feli	97.16
d1nsoa_	107	Mason-Pfizer monkey virus protease {Simian retrovi	97.09
d2nmza1	99	Human immunodeficiency virus type 1 protease {Huma	94.38
d1hvca_	203	Human immunodeficiency virus type 1 protease {Huma	94.17
d3ecga1	99	Human immunodeficiency virus type 2 (HIV-2) protea	93.75
d2rspa_	124	Rous sarcoma virus protease {Rous sarcoma virus, s	93.14
d1bxoa_	323	Acid protease {Fungus (Penicillium janthinellum),	90.59
d1izea_	323	Acid protease {Fungus (Aspergillus oryzae) [TaxId:	89.78
d1smra_	335	Chymosin (synonym: renin) {Mouse (Mus musculus) [T	88.01
d1oewa_	330	Endothiapepsin {Chestnut blight fungus (Endothia p	85.05
d1eaga_	342	Acid protease {Yeast (Candida albicans) [TaxId: 54	83.8
d1j71a_	334	Acid protease {Yeast (Candida tropicalis) [TaxId:	83.43
d1am5a_	324	Pepsin(ogen) {Atlantic cod (Gadus morhua) [TaxId:	83.33
d2apra_	325	Acid protease {Bread mold (Rhizopus chinensis) [Ta	83.17
d1izea_	323	Acid protease {Fungus (Aspergillus oryzae) [TaxId:	82.99
d1wkra_	340	Acid protease {Irpex lacteus (Polyporus tulipifera	82.94
d1eaga_	342	Acid protease {Yeast (Candida albicans) [TaxId: 54	82.76
d1hrna_	337	Chymosin (synonym: renin) {Human (Homo sapiens) [T	82.73
d1dpja_	329	Acid protease {Baker's yeast (Saccharomyces cerevi	82.73
d1wkra_	340	Acid protease {Irpex lacteus (Polyporus tulipifera	82.48
d2bjua1	329	Plasmepsin (a hemoglobin-degrading enzyme) {Plasmo	82.47
d2qp8a1	387	beta-secretase (memapsin) {Human (Homo sapiens) [T	82.13
g1lya.1	338	Cathepsin D {Human (Homo sapiens) [TaxId: 9606]}	82.05
g1b5f.1	326	Plant acid proteinase, phytepsin {Cynara carduncul	82.02
d3cmsa_	323	Chymosin (synonym: renin) {Cow (Bos taurus) [TaxId	81.9
d1mppa_	357	Pepsin {Mucor pusillus [TaxId: 4840]}	81.62
d1j71a_	334	Acid protease {Yeast (Candida tropicalis) [TaxId:	81.22
d1oewa_	330	Endothiapepsin {Chestnut blight fungus (Endothia p	81.09
d1qdma2	337	Plant acid proteinase, phytepsin {Barley (Hordeum	80.69
d3psga_	370	Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}	80.52

>d2fmba_ b.50.1.1 (A:) EIAV protease {Equine infectious anemia virus [TaxId: 11665]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: EIAV protease
species: Equine infectious anemia virus [TaxId: 11665]

Probab=97.75  E-value=2.2e-05  Score=47.19  Aligned_cols=36  Identities=14%  Similarity=0.244  Sum_probs=30.5

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeCHHHHHhcCCcc
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSINAEVAQRVNLSP   62 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a~~l~l~~   62 (85)
                      .++..|+|+++.+|+||||.++.|+.+...+...+.
T Consensus        10 ~~~i~I~Gq~v~~LLDTGAD~TVI~~~~~p~~~~~~   45 (104)
T d2fmba_          10 TTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRG   45 (104)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEEEHHHHHHCSSCC
T ss_pred             EEEEEECCEEEEEEEeCCCCeEEEcccccCccCCCC
Confidence            567889999999999999999999998887654333

>d4fiva_ b.50.1.1 (A:) Feline immunodeficiency virus (FIV) protease {Feline immunodeficiency virus [TaxId: 11673]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Feline immunodeficiency virus (FIV) protease
species: Feline immunodeficiency virus [TaxId: 11673]

Probab=97.16  E-value=0.00022  Score=43.39  Aligned_cols=29  Identities=21%  Similarity=0.290  Sum_probs=25.4

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeCHHHH
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSINAEVA   55 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~~~~a   55 (85)
                      .++..|+|+++.+|+||||.++.|+..--
T Consensus        12 ~v~v~I~Gq~v~~LLDTGAD~TVi~~~d~   40 (113)
T d4fiva_          12 EILIFVNGYPIKFLLDTGADITILNRRDF   40 (113)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEEEGGGC
T ss_pred             eEEEEECCEEEEEEEcCCCCcEEEecccc
Confidence            56778999999999999999999987643

>d1nsoa_ b.50.1.1 (A:) Mason-Pfizer monkey virus protease {Simian retrovirus 1, SRV-1 [TaxId: 11942]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Mason-Pfizer monkey virus protease
species: Simian retrovirus 1, SRV-1 [TaxId: 11942]

Probab=97.09  E-value=0.00017  Score=43.32  Aligned_cols=27  Identities=22%  Similarity=0.203  Sum_probs=24.1

Q ss_pred             EEEEECCEEEEEEEeCCCCceeeCHHH
Q 047037           28 IQGSIKGKSVVILIDSGSTHNSINAEV   54 (85)
Q Consensus        28 ~~g~i~g~~v~~LiDSGat~~Fi~~~~   54 (85)
                      ++..|+|+++.+|+||||.++.|+..-
T Consensus        12 ~~v~I~G~~v~~LLDTGAD~TVI~~~~   38 (107)
T d1nsoa_          12 LTLWLDDKMFTGLINTGADVTIIKLED   38 (107)
T ss_dssp             EEEEETTEEEEECCCSSCSSCBCCGGG
T ss_pred             EEEEECCEEEEeeecCCCCcEEEeccc
Confidence            456899999999999999999998865

>d2nmza1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 1 protease
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=94.38  E-value=0.03  Score=32.89  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeC
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      .++.+|+|+.+.+|+||||-.+.+.
T Consensus        10 ~vtvkIgGq~~eaLLDTGADdTVle   34 (99)
T d2nmza1          10 LVTIKIGGQLKEALLDTGADDTVIE   34 (99)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEEE
T ss_pred             eEEEEECCEEEEEeeccCCCceEEe
Confidence            4678999999999999999999984

>d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 1 protease
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=94.17  E-value=0.018  Score=37.69  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=22.9

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeC
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      .++.+|+|+.+.+|+||||.++.+.
T Consensus        10 ~VtVkIgGQ~~eaLLDTGADDTVLe   34 (203)
T d1hvca_          10 LVTIRIGGQLKEALLDTGADDTVLE   34 (203)
T ss_dssp             EEEEESSSCEEEEEECTTCSSEEEE
T ss_pred             eEEEEECCEEEEEEecCCCCceEEe
Confidence            5678999999999999999999993

>d3ecga1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 2 (HIV-2) protease {Human immunodeficiency virus type 2 [TaxId: 11709]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 2 (HIV-2) protease
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=93.75  E-value=0.042  Score=32.21  Aligned_cols=25  Identities=24%  Similarity=0.547  Sum_probs=22.4

Q ss_pred             EEEEEECCEEEEEEEeCCCCceeeC
Q 047037           27 RIQGSIKGKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        27 ~~~g~i~g~~v~~LiDSGat~~Fi~   51 (85)
                      .++.+|+|+...+|+||||-.+.+.
T Consensus        10 ~vtvkIgGq~~eaLLDTGADdTVle   34 (99)
T d3ecga1          10 VVTAYIEGQPVEVLLDTGADDSIVA   34 (99)
T ss_dssp             EEEEEETTEEEEEEECTTCSSCEEC
T ss_pred             eEEEEECCEEeeeecccCCCceeee
Confidence            4678999999999999999999983

>d2rspa_ b.50.1.1 (A:) Rous sarcoma virus protease {Rous sarcoma virus, strain pr-C [TaxId: 11886]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Rous sarcoma virus protease
species: Rous sarcoma virus, strain pr-C [TaxId: 11886]

Probab=93.14  E-value=0.017  Score=35.20  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=20.7

Q ss_pred             EECCEEEEEEEeCCCCceeeCHHH
Q 047037           31 SIKGKSVVILIDSGSTHNSINAEV   54 (85)
Q Consensus        31 ~i~g~~v~~LiDSGat~~Fi~~~~   54 (85)
                      +++|+.+.+|+||||-++.|+..-
T Consensus        26 k~~g~~i~~LLDTGAD~TVI~~~d   49 (124)
T d2rspa_          26 KQRSVYITALLDSGADITIISEED   49 (124)
T ss_dssp             SCSEEEEEEEECTTCSSCEEETTT
T ss_pred             eeCCEEEEEEEcCCCCeEEEcCCc
Confidence            346789999999999999998764

>d1bxoa_ b.50.1.2 (A:) Acid protease {Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]

Probab=90.59  E-value=0.19  Score=32.63  Aligned_cols=31  Identities=19%  Similarity=0.179  Sum_probs=27.4

Q ss_pred             CCeEEEEEEECCEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIKGKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+.-.|+.++..++|||||+..++...
T Consensus        14 d~~Y~~~i~vG~~~~~v~~DTGSs~~Wv~~~   44 (323)
T d1bxoa_          14 DEEYITPVTIGGTTLNLNFDTGSADLWVFST   44 (323)
T ss_dssp             GSCEEEEEEETTEEEEEEEETTCCCEEECBT
T ss_pred             CcEEEEEEEECCccEEEEEECCCcceEEECC
Confidence            3578899999999999999999999998764

>d1izea_ b.50.1.2 (A:) Acid protease {Fungus (Aspergillus oryzae) [TaxId: 5062]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Aspergillus oryzae) [TaxId: 5062]

Probab=89.78  E-value=0.24  Score=32.25  Aligned_cols=29  Identities=17%  Similarity=0.168  Sum_probs=26.2

Q ss_pred             CeEEEEEEECCEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIKGKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+.+++.+++||||+..++..
T Consensus        15 ~~Y~~~i~iG~q~~~l~~DTGSs~~Wv~~   43 (323)
T d1izea_          15 EEYITQVTVGDDTLGLDFDTGSADLWVFS   43 (323)
T ss_dssp             CCEEEEEEETTEEEEEEEETTCCCCEECB
T ss_pred             cEEEEEEEECCeeEEEEEECCCcceEEEc
Confidence            55889999999999999999999999864

>d1smra_ b.50.1.2 (A:) Chymosin (synonym: renin) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.01  E-value=0.43  Score=31.12  Aligned_cols=29  Identities=14%  Similarity=0.171  Sum_probs=25.6

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+.-.|+  .+++.++|||||+..++.-
T Consensus        15 ~~Y~~~i~iGtP~Q~~~l~~DTGSs~~Wv~~   45 (335)
T d1smra_          15 SQYYGEIGIGTPPQTFKVIFDTGSANLWVPS   45 (335)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CEEEEEEEECCCCeEEEEEEECCcccEEEEc
Confidence            5788888998  8999999999999999853

>d1oewa_ b.50.1.2 (A:) Endothiapepsin {Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Endothiapepsin
species: Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]

Probab=85.05  E-value=1.2  Score=29.11  Aligned_cols=32  Identities=13%  Similarity=0.123  Sum_probs=26.2

Q ss_pred             CeEEEEEEECC--EEEEEEEeCCCCceeeCHHHH
Q 047037           24 ETMRIQGSIKG--KSVVILIDSGSTHNSINAEVA   55 (85)
Q Consensus        24 ~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~~~a   55 (85)
                      ..|.+.-.|+.  +++.++|||||+..++.....
T Consensus        15 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~~~~c   48 (330)
T d1oewa_          15 DAYITPVQIGTPAQTLNLDFDTGSSDLWVFSSET   48 (330)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEECBTTS
T ss_pred             CEEEEEEEEcCCCeEEEEEEECCccceEEECCCC
Confidence            45888888864  899999999999999976544

>d1eaga_ b.50.1.2 (A:) Acid protease {Yeast (Candida albicans) [TaxId: 5476]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida albicans) [TaxId: 5476]

Probab=83.80  E-value=0.79  Score=29.94  Aligned_cols=30  Identities=13%  Similarity=0.228  Sum_probs=25.1

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+  .+++.+++||||+..||..
T Consensus        11 ~~~Y~~~i~iGtP~Q~~~~i~DTGS~~~Wv~~   42 (342)
T d1eaga_          11 QVTYAADITVGSNNQKLNVIVDTGSSDLWVPD   42 (342)
T ss_dssp             SSSEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CcEEEEEEEECCCCeEEEEEEECCCcceEEee
Confidence            45678888888  6999999999999999743

>d1j71a_ b.50.1.2 (A:) Acid protease {Yeast (Candida tropicalis) [TaxId: 5482]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida tropicalis) [TaxId: 5482]

Probab=83.43  E-value=0.83  Score=30.08  Aligned_cols=30  Identities=13%  Similarity=0.146  Sum_probs=25.5

Q ss_pred             CCeEEEEEEECC--EEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIKG--KSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+.  +++.++|||||+..||..
T Consensus        11 ~~~Y~~~i~iGtP~q~~~~i~DTGS~~~Wv~~   42 (334)
T d1j71a_          11 GPSYAADIVVGSNQQKQTVVIDTGSSDLWVVD   42 (334)
T ss_dssp             SSSEEEEEEETTTTEEEEEEEETTCCCEEEEE
T ss_pred             CCEEEEEEEEcCCCeEEEEEEECCCcceEEee
Confidence            466888889885  999999999999999843

>d1am5a_ b.50.1.2 (A:) Pepsin(ogen) {Atlantic cod (Gadus morhua) [TaxId: 8049]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin(ogen)
species: Atlantic cod (Gadus morhua) [TaxId: 8049]

Probab=83.33  E-value=1.2  Score=28.65  Aligned_cols=31  Identities=19%  Similarity=0.133  Sum_probs=26.1

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+...|+  .+++.+++||||...|+.-.
T Consensus        11 d~~Y~~~i~iGtP~q~~~~~~DTGS~~~Wv~~~   43 (324)
T d1am5a_          11 DTEYYGVISIGTPPESFKVIFDTGSSNLWVSSS   43 (324)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEECBT
T ss_pred             CcEEEEEEEEcCCCeEEEEEEECCCcceEEecC
Confidence            45788888884  59999999999999999743

>d2apra_ b.50.1.2 (A:) Acid protease {Bread mold (Rhizopus chinensis) [TaxId: 4843]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Bread mold (Rhizopus chinensis) [TaxId: 4843]

Probab=83.17  E-value=0.98  Score=29.37  Aligned_cols=32  Identities=25%  Similarity=0.160  Sum_probs=26.4

Q ss_pred             CCeEEEEEEEC--CEEEEEEEeCCCCceeeCHHH
Q 047037           23 LETMRIQGSIK--GKSVVILIDSGSTHNSINAEV   54 (85)
Q Consensus        23 ~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~   54 (85)
                      .-.|.+...|+  .+++.++|||||+..++...-
T Consensus        14 d~~Y~~~i~iGtP~Q~~~v~vDTGS~~~Wv~~~~   47 (325)
T d2apra_          14 DIEYYGQVTIGTPGKKFNLDFDTGSSDLWIASTL   47 (325)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCCEEEBTT
T ss_pred             CcEEEEEEEEeCCCEEEEEEEECCCCcEEEeCCC
Confidence            34688889996  599999999999999997543

>d1izea_ b.50.1.2 (A:) Acid protease {Fungus (Aspergillus oryzae) [TaxId: 5062]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Aspergillus oryzae) [TaxId: 5062]

Probab=82.99  E-value=0.31  Score=31.63  Aligned_cols=26  Identities=15%  Similarity=0.250  Sum_probs=21.5

Q ss_pred             CEEEEEEEeCCCCceeeCHHHHHhcC
Q 047037           34 GKSVVILIDSGSTHNSINAEVAQRVN   59 (85)
Q Consensus        34 g~~v~~LiDSGat~~Fi~~~~a~~l~   59 (85)
                      .....++||||.+..+++.++.+.+-
T Consensus       206 ~~~~~~ivDSGts~~~lp~~~~~~~~  231 (323)
T d1izea_         206 SDSITGIADTGTTLLLLDDSIVDAYY  231 (323)
T ss_dssp             CCCEEEEECTTCCSEEECHHHHHHHH
T ss_pred             ccCceEEeccCCccccCCHHHHHHHH
Confidence            33567899999999999999988663

>d1wkra_ b.50.1.2 (A:) Acid protease {Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]

Probab=82.94  E-value=0.91  Score=29.67  Aligned_cols=28  Identities=18%  Similarity=0.371  Sum_probs=23.8

Q ss_pred             eEEEEEEEC--CEEEEEEEeCCCCceeeCH
Q 047037           25 TMRIQGSIK--GKSVVILIDSGSTHNSINA   52 (85)
Q Consensus        25 ~~~~~g~i~--g~~v~~LiDSGat~~Fi~~   52 (85)
                      .|.+.-.|+  .+++.+++||||+..++..
T Consensus        13 ~Y~~~i~iGtP~Q~~~~i~DTGSs~~wv~~   42 (340)
T d1wkra_          13 DYVVNVGVGSPATTYSLLVDTGSSNTWLGA   42 (340)
T ss_dssp             CEEEEEEETTTTEEEEEEEETTCCCCEECS
T ss_pred             EEEEEEEEcCCCeEEEEEEECCCcceEEcC
Confidence            388888888  4999999999999998843

>d1eaga_ b.50.1.2 (A:) Acid protease {Yeast (Candida albicans) [TaxId: 5476]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida albicans) [TaxId: 5476]

Probab=82.76  E-value=0.49  Score=31.02  Aligned_cols=22  Identities=32%  Similarity=0.607  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCceeeCHHHHHhc
Q 047037           37 VVILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        37 v~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      ..++||||++..+++..+.+++
T Consensus       213 ~~~iiDSGts~~~lp~~~~~~l  234 (342)
T d1eaga_         213 VDVLLDSGTTITYLQQDLADQI  234 (342)
T ss_dssp             EEEEECTTCSSEEECHHHHHHH
T ss_pred             cccccccCCccccCCHHHHHHH
Confidence            4578999999999999998875

>d1hrna_ b.50.1.2 (A:) Chymosin (synonym: renin) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.73  E-value=1.2  Score=28.86  Aligned_cols=30  Identities=13%  Similarity=0.131  Sum_probs=25.6

Q ss_pred             CCeEEEEEEECC--EEEEEEEeCCCCceeeCH
Q 047037           23 LETMRIQGSIKG--KSVVILIDSGSTHNSINA   52 (85)
Q Consensus        23 ~~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~   52 (85)
                      ...|.+.-.|+.  +++.++|||||+..++..
T Consensus        14 d~~Y~~~i~iGtP~Q~~~~~~DTGS~~~Wv~~   45 (337)
T d1hrna_          14 DTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPS   45 (337)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEB
T ss_pred             CcEEEEEEEEeCCCEEEEEEEECCCcceEEEc
Confidence            466888999974  899999999999999843

>d1dpja_ b.50.1.2 (A:) Acid protease {Baker's yeast (Saccharomyces cerevisiae), proteinase A [TaxId: 4932]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Baker's yeast (Saccharomyces cerevisiae), proteinase A [TaxId: 4932]

Probab=82.73  E-value=1.2  Score=28.65  Aligned_cols=30  Identities=10%  Similarity=0.229  Sum_probs=25.5

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ..|.+.-.|+  .+++.++|||||+..++...
T Consensus        13 ~~Y~~~i~iGtP~q~~~~~iDTGSs~~Wv~~~   44 (329)
T d1dpja_          13 AQYYTDITLGTPPQNFKVILDTGSSNLWVPSN   44 (329)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CEEEEEEEEeCCCeEEEEEEECCcccEEEECC
Confidence            5688888997  59999999999999998643

>d1wkra_ b.50.1.2 (A:) Acid protease {Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]

Probab=82.48  E-value=0.94  Score=29.59  Aligned_cols=21  Identities=19%  Similarity=0.343  Sum_probs=18.0

Q ss_pred             EEEEeCCCCceeeCHHHHHhc
Q 047037           38 VILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        38 ~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      .++||||+|..+++.++.+++
T Consensus       208 ~aiiDSGtt~~~lP~~~~~~l  228 (340)
T d1wkra_         208 AGIVDTGTTLTLIASDAFAKY  228 (340)
T ss_dssp             EEEECTTBCSEEECHHHHHHH
T ss_pred             ceEEecCCccEeccHHHHHHH
Confidence            479999999999999877655

>d2bjua1 b.50.1.2 (A:1-329) Plasmepsin (a hemoglobin-degrading enzyme) {Plasmodium falciparum, plasmepsin II [TaxId: 5833]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plasmepsin (a hemoglobin-degrading enzyme)
species: Plasmodium falciparum, plasmepsin II [TaxId: 5833]

Probab=82.47  E-value=1.1  Score=28.69  Aligned_cols=31  Identities=10%  Similarity=0.144  Sum_probs=25.9

Q ss_pred             CCeEEEEEEECC--EEEEEEEeCCCCceeeCHH
Q 047037           23 LETMRIQGSIKG--KSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        23 ~~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~~   53 (85)
                      ...|.+...|+.  +++.+++||||+..++...
T Consensus        13 ~~~Y~~~v~iGtP~q~~~~~~DTGS~~~Wv~~~   45 (329)
T d2bjua1          13 NIMFYGDAEVGDNQQPFTFILDTGSANLWVPSV   45 (329)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CCEEEEEEEECCCCEEEEEEEECCCcceEEECC
Confidence            456888888875  9999999999999998643

>d2qp8a1 b.50.1.2 (A:60-446) beta-secretase (memapsin) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: beta-secretase (memapsin)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.13  E-value=1.1  Score=29.83  Aligned_cols=29  Identities=21%  Similarity=0.450  Sum_probs=25.1

Q ss_pred             CeEEEEEEECC--EEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIKG--KSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~   52 (85)
                      +-|.+.-.|+.  +++.++|||||+..++..
T Consensus        14 ~~Y~~~i~IGtP~Q~~~li~DTGSs~lWv~~   44 (387)
T d2qp8a1          14 QGYYVEMTVGSPPQTLNILVDTGSSNFAVGA   44 (387)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEC
T ss_pred             CEEEEEEEECCCCEEEEEEEECCccceEEcc
Confidence            55889999974  899999999999998854

>d3cmsa_ b.50.1.2 (A:) Chymosin (synonym: renin) {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.90  E-value=1.2  Score=28.35  Aligned_cols=30  Identities=13%  Similarity=0.097  Sum_probs=25.1

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAE   53 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~   53 (85)
                      ..|.+.-.|+  .+++.+++||||+..++.-.
T Consensus        14 ~~Y~~~i~vGtP~q~~~~~~DTGSs~~Wv~~~   45 (323)
T d3cmsa_          14 SQYFGKIYLGTPPQEFTVLFDTGSSDFWVPSI   45 (323)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBT
T ss_pred             CEEEEEEEECCCCEEEEEEEECCCCceEEecC
Confidence            5677888886  68999999999999988543

>d1mppa_ b.50.1.2 (A:) Pepsin {Mucor pusillus [TaxId: 4840]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin
species: Mucor pusillus [TaxId: 4840]

Probab=81.62  E-value=1.2  Score=29.21  Aligned_cols=30  Identities=33%  Similarity=0.458  Sum_probs=26.2

Q ss_pred             cCCeEEEEEEEC--CEEEEEEEeCCCCceeeC
Q 047037           22 VLETMRIQGSIK--GKSVVILIDSGSTHNSIN   51 (85)
Q Consensus        22 ~~~~~~~~g~i~--g~~v~~LiDSGat~~Fi~   51 (85)
                      ....|.+.-.|+  .+.+.++|||||+..+|.
T Consensus        12 ~~~~Y~~~i~iGtP~Q~~~~ivDTGSs~~wv~   43 (357)
T d1mppa_          12 DLEEYAIPVSIGTPGQDFYLLFDTGSSDTWVP   43 (357)
T ss_dssp             TTTEEEEEEEETTTTEEEEEEEETTCCCCEEE
T ss_pred             CCCEEEEEEEEcCCCeEEEEEEeCCCcceEEc
Confidence            356788899998  899999999999999884

>d1j71a_ b.50.1.2 (A:) Acid protease {Yeast (Candida tropicalis) [TaxId: 5482]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida tropicalis) [TaxId: 5482]

Probab=81.22  E-value=0.43  Score=31.56  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCceeeCHHHHHhc
Q 047037           37 VVILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        37 v~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      ..++||||++..++++++.+++
T Consensus       213 ~~aiiDSGt~~~~lp~~~~~~l  234 (334)
T d1j71a_         213 ADVVLDSGTTITYFSQSTADKF  234 (334)
T ss_dssp             EEEEECTTCSSEEECHHHHHHH
T ss_pred             ccccccCCCcceeccHHHHHHH
Confidence            3489999999999999998775

>d1oewa_ b.50.1.2 (A:) Endothiapepsin {Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Endothiapepsin
species: Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]

Probab=81.09  E-value=0.45  Score=31.36  Aligned_cols=23  Identities=26%  Similarity=0.235  Sum_probs=20.3

Q ss_pred             EEEEEEeCCCCceeeCHHHHHhc
Q 047037           36 SVVILIDSGSTHNSINAEVAQRV   58 (85)
Q Consensus        36 ~v~~LiDSGat~~Fi~~~~a~~l   58 (85)
                      ...++||||.+..+++..+++.+
T Consensus       213 ~~~~iiDSGts~~~lp~~~~~~i  235 (330)
T d1oewa_         213 SIDGIADTGTTLLYLPATVVSAY  235 (330)
T ss_dssp             EEEEEECTTCCSEEECHHHHHHH
T ss_pred             CcceeeccccccccCCHHHHHHH
Confidence            45689999999999999988877

>d1qdma2 b.50.1.2 (A:2-247,A:248-338) Plant acid proteinase, phytepsin {Barley (Hordeum vulgare) [TaxId: 4513]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plant acid proteinase, phytepsin
species: Barley (Hordeum vulgare) [TaxId: 4513]

Probab=80.69  E-value=1.2  Score=28.37  Aligned_cols=29  Identities=10%  Similarity=0.162  Sum_probs=24.7

Q ss_pred             CeEEEEEEECC--EEEEEEEeCCCCceeeCH
Q 047037           24 ETMRIQGSIKG--KSVVILIDSGSTHNSINA   52 (85)
Q Consensus        24 ~~~~~~g~i~g--~~v~~LiDSGat~~Fi~~   52 (85)
                      ..|.+...|+.  +++.+++||||...++.-
T Consensus        15 ~~Y~~~v~iGtP~q~~~l~~DTGS~~~Wv~~   45 (337)
T d1qdma2          15 AQYFGEIGVGTPPQKFTVIFDTGSSNLWVPS   45 (337)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCCEEEB
T ss_pred             CEEEEEEEEcCCCEEEEEEEECCCcceEEec
Confidence            45888999984  999999999999998843

>d3psga_ b.50.1.2 (A:) Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin(ogen)
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=80.52  E-value=1.2  Score=29.68  Aligned_cols=32  Identities=13%  Similarity=0.131  Sum_probs=27.5

Q ss_pred             CeEEEEEEEC--CEEEEEEEeCCCCceeeCHHHH
Q 047037           24 ETMRIQGSIK--GKSVVILIDSGSTHNSINAEVA   55 (85)
Q Consensus        24 ~~~~~~g~i~--g~~v~~LiDSGat~~Fi~~~~a   55 (85)
                      ..|.+.-.|+  .+.+.+++||||+..++.....
T Consensus        56 ~~Y~~~i~iGtP~Q~~~vi~DTGSs~~Wv~~~~C   89 (370)
T d3psga_          56 TEYFGTIGIGTPAQDFTVIFDTGSSNLWVPSVYC   89 (370)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEEEBTTC
T ss_pred             CEEEEEEEEcCCCeEEEEEEeCCCCCeEEECccC
Confidence            5688899998  6999999999999999975443