4EMM | pdb_00004emm

Crystal structure of Staphylococcus aureus ClpP in compact conformation

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
N [auth M]	d4emmm_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
M [auth L]	d4emml_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
L [auth K]	d4emmk_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
K [auth J]	d4emmj_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
J [auth I]	d4emmi_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
I [auth H]	d4emmh_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
H [auth G]	d4emmg_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
G [auth F]	d4emmf_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
F [auth E]	d4emme_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
E [auth D]	d4emmd_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
D [auth C]	d4emmc_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
C [auth B]	d4emmb_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
B [auth A]	d4emma_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
A [auth V]	d4emmv_	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Clp protease, ClpP subunit	Clp protease, ClpP subunit	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
N [auth M]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
M [auth L]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
L [auth K]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
K [auth J]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
J [auth I]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
I [auth H]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
G [auth F]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
E [auth D]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	SCOP2B (2022-06-29)
A [auth V]	SCOP2B Superfamily	ClpP/crotonase	8068481	3000033	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)
N [auth M]	CLP_protease	e4emmM2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
M [auth L]	CLP_protease	e4emmL2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
L [auth K]	CLP_protease	e4emmK2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
K [auth J]	CLP_protease	e4emmJ2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
J [auth I]	CLP_protease	e4emmI2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
I [auth H]	CLP_protease	e4emmH1	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
H [auth G]	CLP_protease	e4emmG2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
G [auth F]	CLP_protease	e4emmF2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
F [auth E]	CLP_protease	e4emmE2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
E [auth D]	CLP_protease	e4emmD2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
D [auth C]	CLP_protease	e4emmC2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
C [auth B]	CLP_protease	e4emmB2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
B [auth A]	CLP_protease	e4emmA2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)
A [auth V]	CLP_protease	e4emmV2	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: CLP_protease	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
N [auth M]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
M [auth L]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
L [auth K]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
K [auth J]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
J [auth I]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
I [auth H]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
H [auth G]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
G [auth F]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
F [auth E]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
E [auth D]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
D [auth C]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
C [auth B]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
B [auth A]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
A [auth V]	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	ATP-dependent Clp protease proteolytic subunit	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity ATP-dependent peptidase activity ATP-dependent activity ATPase binding protein binding binding enzyme binding peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity ATP-dependent peptidase activity ATP-dependent activity ATPase binding protein binding binding enzyme binding identical protein binding	catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process proteolysis metabolic process cellular process protein metabolic process macromolecule metabolic process protein quality control for misfolded or incompletely synthesized proteins	cellular anatomical structure intracellular anatomical structure cytoplasm endopeptidase Clp complex protein-containing complex catalytic complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	IPR029045	ClpP/crotonase-like domain superfamily	Homologous Superfamily
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	IPR001907	ATP-dependent Clp protease proteolytic subunit	Family
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	IPR018215	ClpP, Ser active site	Active Site
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	IPR033135	ClpP, histidine active site	Active Site
A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], A [auth V], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M]	IPR023562	Clp protease proteolytic subunit /Translocation-enhancing protein TepA	Family

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.