5VYJ | pdb_00005vyj

Crystal structure of the photosynthetic phosphoenolpyruvate carboxylase isoenzyme from maize in complex with Gly

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8069957	3000510	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8069957	3000510	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8069957	3000510	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8069957	3000510	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	ECH_1	e5vyjD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
C	ECH_1	e5vyjC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
B	ECH_1	e5vyjB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)
A	ECH_1	e5vyjA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.1440.90	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Phosphoenolpyruvate/pyruvate domain	CATH (4.3.0)
C	1.20.1440.90	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Phosphoenolpyruvate/pyruvate domain	CATH (4.3.0)
B	1.20.1440.90	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Phosphoenolpyruvate/pyruvate domain	CATH (4.3.0)
A	1.20.1440.90	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	Phosphoenolpyruvate/pyruvate domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00311	Phosphoenolpyruvate carboxylase (PEPcase)	Phosphoenolpyruvate carboxylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Phosphoenolpyruvate carboxylase	phosphoenolpyruvate carboxylase activity phosphoenolpyruvate carboxykinase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	response to stimulus response to chemical response to ammonium ion response to nitrogen compound aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy carbon fixation developmental process response to stimulus response to chemical response to ammonium ion response to nitrogen compound aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy carbon fixation developmental process multicellular organism development multicellular organismal process plant organ development anatomical structure development leaf development shoot system development phyllome development system development response to cytokinin response to hormone response to endogenous stimulus photosynthesis response to nitrate response to oxygen-containing compound	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR015813	Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR021135	Phosphoenolpyruvate carboxylase	Family
A, B, C, D	IPR033129	Phosphoenolpyruvate carboxylase, His active site	Active Site
A, B, C, D	IPR018129	Phosphoenolpyruvate carboxylase, Lys active site	Active Site
A, B, C, D	IPR022805	Phosphoenolpyruvate carboxylase, bacterial/plant-type	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.