4CKU | pdb_00004cku

Three dimensional structure of plasmepsin II in complex with hydroxyethylamine-based inhibitor

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d4ckuf_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)
E	d4ckue_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)
D	d4ckud_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)
C	d4ckuc_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)
B	d4ckub_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)
A	d4ckua_	All beta proteins	Acid proteases	Acid proteases	Pepsin-like	Plasmepsin (a hemoglobin-degrading enzyme)	MALARIA PARASITE P. FALCIPARUM (Plasmodium falciparum ) [TaxId: 5833 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Acid proteases	8038202	3001059	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Hemagglutinin	e4ckuF1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)
E	Hemagglutinin	e4ckuE1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)
D	Hemagglutinin	e4ckuD1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)
C	Hemagglutinin	e4ckuC1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)
B	Hemagglutinin	e4ckuB1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)
A	Hemagglutinin	e4ckuA1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Hemagglutinin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
E	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
D	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
C	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
B	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
A	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00026	Eukaryotic aspartyl protease (Asp)	Eukaryotic aspartyl protease	Aspartyl (acid) proteases include pepsins, cathepsins, and renins. Two-domain structure, probably arising from ancestral duplication. This family does not include the retroviral nor retrotransposon proteases (Pfam:PF00077), which are much smaller a ...	Aspartyl (acid) proteases include pepsins, cathepsins, and renins. Two-domain structure, probably arising from ancestral duplication. This family does not include the retroviral nor retrotransposon proteases (Pfam:PF00077), which are much smaller and appear to be homologous to a single domain of the eukaryotic asp proteases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	PLASMEPSIN-2	aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity aspartic-type endopeptidase activity catalytic activity endopeptidase activity	biological process involved in interspecies interaction between organisms acquisition of nutrients from host biological process involved in interaction with host biological process involved in symbiotic interaction proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	cell periphery cellular anatomical structure plasma membrane membrane cytostome vacuolar membrane membrane-bounded organelle intracellular anatomical structure vacuole intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle organelle cytoplasm cell periphery cellular anatomical structure plasma membrane membrane cytostome vacuolar membrane membrane-bounded organelle intracellular anatomical structure vacuole intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle organelle cytoplasm organelle membrane phagolysosome lytic vacuole intracellular vesicle phagocytic vesicle food vacuole cytoplasmic vesicle secondary lysosome vesicle endocytic vesicle lysosome membrane-enclosed lumen vacuolar lumen intracellular organelle lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR001461	Aspartic peptidase A1	Family
A, B, C, D, E A, B, C, D, E, F	IPR033121	Peptidase family A1 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR034164	Pepsin-like domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR021109	Aspartic peptidase domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR001969	Aspartic peptidase, active site	Active Site

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.