4GXH | pdb_00004gxh

Crystal Structure of a Pyrrolidone-carboxylate peptidase 1 (target ID NYSGRC-012831) from Xenorhabdus bovienii SS-2004

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)
D	d4gxhd_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	automated matches	automated matches	(Xenorhabdus bovienii SS-2004 ) [TaxId: 406818 ],	SCOPe (2.08)
C	d4gxhc_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	automated matches	automated matches	(Xenorhabdus bovienii SS-2004 ) [TaxId: 406818 ],	SCOPe (2.08)
B	d4gxhb_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	automated matches	automated matches	(Xenorhabdus bovienii SS-2004 ) [TaxId: 406818 ],	SCOPe (2.08)
A	d4gxha_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	automated matches	automated matches	(Xenorhabdus bovienii SS-2004 ) [TaxId: 406818 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	8061833	3000655	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	8061833	3000655	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	8061833	3000655	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	8061833	3000655	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)
D	V-set	e4gxhD1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
C	V-set	e4gxhC1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
B	V-set	e4gxhB1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (develop294)
A	Avidin	e4gxhA1	A: alpha bundles	X: Globin-like	H: Nucleoside diphosphate kinases	T: Nucleoside diphosphate kinases	F: Avidin	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.630.20	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Peptidase C15, pyroglutamyl peptidase I-like	CATH (4.3.0)
C	3.40.630.20	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Peptidase C15, pyroglutamyl peptidase I-like	CATH (4.3.0)
B	3.40.630.20	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Peptidase C15, pyroglutamyl peptidase I-like	CATH (4.3.0)
A	3.40.630.20	Alpha Beta	3-Layer(aba) Sandwich	Aminopeptidase	Peptidase C15, pyroglutamyl peptidase I-like	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Pyrrolidone-carboxylate peptidase	cysteine-type peptidase activity peptidase activity pyroglutamyl-peptidase activity omega peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity	proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR033694	Pyroglutamyl peptidase I, Cys active site	Active Site
A, B, C, D	IPR029762	Pyroglutamyl peptidase I, bacterial-type	Family
A, B, C, D	IPR036440	Peptidase C15, pyroglutamyl peptidase I-like superfamily	Homologous Superfamily
A, B, C, D	IPR000816	Peptidase C15, pyroglutamyl peptidase I	Family
A, B, C, D	IPR033693	Pyroglutamyl peptidase I, Glu active site	Active Site
A, B, C, D	IPR016125	Peptidase C15, pyroglutamyl peptidase I-like	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.