2FGE

Crystal structure of presequence protease PreP from Arabidopsis thaliana

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)
A	d2fgea1	Alpha and beta proteins (a+b)	LuxS/MPP-like metallohydrolase	LuxS/MPP-like metallohydrolase	MPP-like	Presequence protease 1, PREP1	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d2fgeb1	Alpha and beta proteins (a+b)	LuxS/MPP-like metallohydrolase	LuxS/MPP-like metallohydrolase	MPP-like	Presequence protease 1, PREP1	thale cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	MPP-like	8028506	4002871	SCOP2 (2022-06-29)
A	SCOP2 Family	MPP-like	8028507	4002871	SCOP2 (2022-06-29)
A	SCOP2 Family	MPP-like	8028511	4002871	SCOP2 (2022-06-29)
A	SCOP2 Family	MPP-like	8028515	4002871	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LuxS/MPP-like metallohydrolase	8040885	3001831	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LuxS/MPP-like metallohydrolase	8040886	3001831	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LuxS/MPP-like metallohydrolase	8040890	3001831	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LuxS/MPP-like metallohydrolase	8040894	3001831	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	LuxS/MPP-like metallohydrolase	8040885	3001831	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	LuxS/MPP-like metallohydrolase	8040890	3001831	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	LuxS/MPP-like metallohydrolase	8040894	3001831	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	LuxS/MPP-like metallohydrolase	8040886	3001831	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)
A	M16C_assoc	e2fgeA1	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: M16C_assoc	ECOD (1.6)
A	Peptidase_M16_C_4	e2fgeA2	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16_C_4	ECOD (1.6)
A	Peptidase_M16_C_3	e2fgeA3	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16_C_3	ECOD (1.6)
A	Peptidase_M16	e2fgeA4	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16	ECOD (1.6)
B	M16C_assoc	e2fgeB1	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: M16C_assoc	ECOD (1.6)
B	Peptidase_M16_C_4	e2fgeB2	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16_C_4	ECOD (1.6)
B	Peptidase_M16_C_3	e2fgeB3	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16_C_3	ECOD (1.6)
B	Peptidase_M16	e2fgeB4	A: a+b two layers	X: LuxS, MPP, ThrRS/AlaRS common domain	H: LuxS, MPP, ThrRS/AlaRS common domain	T: LuxS/MPP-like metallohydrolase	F: Peptidase_M16	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.830.10	Alpha Beta	2-Layer Sandwich	Cytochrome Bc1 Complex	Chain A, domain 1	CATH (4.3.0)
B	3.30.830.10	Alpha Beta	2-Layer Sandwich	Cytochrome Bc1 Complex	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
A, B	PF08367	Peptidase M16C associated (M16C_assoc)	Peptidase M16C associated	-	Family
A, B	PF22516	PreP C-terminal domain (PreP_C)	PreP C-terminal domain	PreP is a protease that degrades targeting peptides as well as other unstructured peptides in both mitochondria and chloroplasts. This entry represents the C-terminal domain of PreP and related proteins.	Domain
A, B	PF00675	Insulinase (Peptidase family M16) (Peptidase_M16)	Insulinase (Peptidase family M16)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	zinc metalloprotease (insulinase family)	peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity cation binding ion binding binding metal ion binding small molecule binding	primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process proteolysis protein processing metabolic process cellular process protein metabolic process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle plastid plastid stroma chloroplast stroma chloroplast cytosol extracellular region membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle plastid plastid stroma chloroplast stroma chloroplast cytosol extracellular region apoplast chloroplast envelope organelle envelope plastid envelope membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen
C [auth D], D [auth E]	nonspecific peptide AALTRA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR007863	Peptidase M16, C-terminal	Domain
A, B	IPR013578	Peptidase M16C associated	Domain
A, B	IPR011249	Metalloenzyme, LuxS/M16 peptidase-like	Homologous Superfamily
A, B	IPR055130	Presequence protease, mitochondrial-type, C-terminal domain	Domain
A, B	IPR011765	Peptidase M16, N-terminal	Domain

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.