2FAH | pdb_00002fah

The structure of mitochondrial PEPCK, Complex with Mn and GDP

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)
D	d2fahd2	Alpha and beta proteins (a/b)	PEP carboxykinase-like	PEP carboxykinase-like	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
D	d2fahd1	Alpha and beta proteins (a/b)	PEP carboxykinase N-terminal domain	PEP carboxykinase N-terminal domain	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
C	d2fahc2	Alpha and beta proteins (a/b)	PEP carboxykinase-like	PEP carboxykinase-like	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
C	d2fahc1	Alpha and beta proteins (a/b)	PEP carboxykinase N-terminal domain	PEP carboxykinase N-terminal domain	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
B	d2fahb2	Alpha and beta proteins (a/b)	PEP carboxykinase-like	PEP carboxykinase-like	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
B	d2fahb1	Alpha and beta proteins (a/b)	PEP carboxykinase N-terminal domain	PEP carboxykinase N-terminal domain	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
A	d2faha2	Alpha and beta proteins (a/b)	PEP carboxykinase-like	PEP carboxykinase-like	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)
A	d2faha1	Alpha and beta proteins (a/b)	PEP carboxykinase N-terminal domain	PEP carboxykinase N-terminal domain	automated matches	automated matches	(Gallus gallus ) [TaxId: 9031 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	PEP carboxykinase N-terminal domain	8056011	3001788	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PEPCK/HprK-like	8056010	3001670	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PEPCK/HprK-like	8056010	3001670	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PEP carboxykinase N-terminal domain	8056011	3001788	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PEP carboxykinase N-terminal domain	8056011	3001788	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PEPCK/HprK-like	8056010	3001670	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PEPCK/HprK-like	8056010	3001670	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PEP carboxykinase N-terminal domain	8056011	3001788	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	PEPCK_C	e2fahD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: PEP carboxykinase catalytic C-terminal domain	F: PEPCK_C	ECOD (1.6)
D	PEPCK_N	e2fahD2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: PEP carboxykinase N-terminal domain (From Topology)	T: PEP carboxykinase N-terminal domain	F: PEPCK_N	ECOD (1.6)
C	PEPCK_C	e2fahC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: PEP carboxykinase catalytic C-terminal domain	F: PEPCK_C	ECOD (1.6)
C	PEPCK_N	e2fahC2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: PEP carboxykinase N-terminal domain (From Topology)	T: PEP carboxykinase N-terminal domain	F: PEPCK_N	ECOD (1.6)
B	PEPCK_C	e2fahB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: PEP carboxykinase catalytic C-terminal domain	F: PEPCK_C	ECOD (1.6)
B	PEPCK_N	e2fahB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: PEP carboxykinase N-terminal domain (From Topology)	T: PEP carboxykinase N-terminal domain	F: PEPCK_N	ECOD (1.6)
A	PEPCK_C	e2fahA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: PEP carboxykinase catalytic C-terminal domain	F: PEPCK_C	ECOD (1.6)
A	PEPCK_N	e2fahA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: PEP carboxykinase N-terminal domain (From Topology)	T: PEP carboxykinase N-terminal domain	F: PEPCK_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.449.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphoenolpyruvate Carboxykinase	domain 1	CATH (4.3.0)
D	2.170.8.10	Mainly Beta	Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 2	CATH (4.3.0)
D	3.90.228.20	Alpha Beta	Alpha-Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 3	CATH (4.3.0)
C	3.40.449.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphoenolpyruvate Carboxykinase	domain 1	CATH (4.3.0)
C	2.170.8.10	Mainly Beta	Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 2	CATH (4.3.0)
C	3.90.228.20	Alpha Beta	Alpha-Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 3	CATH (4.3.0)
B	3.40.449.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphoenolpyruvate Carboxykinase	domain 1	CATH (4.3.0)
B	2.170.8.10	Mainly Beta	Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 2	CATH (4.3.0)
B	3.90.228.20	Alpha Beta	Alpha-Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 3	CATH (4.3.0)
A	3.40.449.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphoenolpyruvate Carboxykinase	domain 1	CATH (4.3.0)
A	2.170.8.10	Mainly Beta	Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 2	CATH (4.3.0)
A	3.90.228.20	Alpha Beta	Alpha-Beta Complex	Phosphoenolpyruvate Carboxykinase	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00821	Phosphoenolpyruvate carboxykinase C-terminal P-loop domain (PEPCK_GTP)	Phosphoenolpyruvate carboxykinase C-terminal P-loop domain	Catalyses the formation of phosphoenolpyruvate by decarboxylation of oxaloacetate.	Domain
A, B, C, D	PF17297	Phosphoenolpyruvate carboxykinase N-terminal domain (PEPCK_N)	Phosphoenolpyruvate carboxykinase N-terminal domain	Catalyses the formation of phosphoenolpyruvate by decarboxylation of oxaloacetate.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Phosphoenolpyruvate carboxykinase	cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding phosphoenolpyruvate carboxykinase activity phosphoenolpyruvate carboxykinase (GTP) activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity guanyl nucleotide binding cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding phosphoenolpyruvate carboxykinase activity phosphoenolpyruvate carboxykinase (GTP) activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding	monosaccharide metabolic process regulation of cellular process gluconeogenesis regulation of primary metabolic process regulation of small molecule metabolic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process regulation of biosynthetic process carbohydrate metabolic process regulation of biological process small molecule biosynthetic process carbohydrate biosynthetic process biological regulation monosaccharide metabolic process regulation of cellular process gluconeogenesis regulation of primary metabolic process regulation of small molecule metabolic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process regulation of biosynthetic process carbohydrate metabolic process regulation of biological process small molecule biosynthetic process carbohydrate biosynthetic process biological regulation hexose metabolic process primary metabolic process monosaccharide biosynthetic process hexose biosynthetic process biosynthetic process regulation of gluconeogenesis metabolic process cellular process regulation of carbohydrate biosynthetic process regulation of metabolic process glucose metabolic process embryonic organ morphogenesis developmental process multicellular organismal process embryonic morphogenesis animal organ development embryo development multicellular organism development anatomical structure morphogenesis anatomical structure development animal organ morphogenesis embryonic organ development fatty acid metabolic process short-chain fatty acid catabolic process lipid catabolic process catabolic process oxoacid metabolic process short-chain fatty acid metabolic process carboxylic acid metabolic process organic acid metabolic process organic acid catabolic process fatty acid catabolic process propionate catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process monocarboxylic acid metabolic process small molecule catabolic process lipid metabolic process propionate metabolic process behavior egg-laying behavior reproductive process multicellular organismal reproductive process reproductive behavior cellular response to stimulus response to stimulus homeostatic process response to oxygen-containing compound cellular response to glucose stimulus intracellular glucose homeostasis cellular response to oxygen-containing compound response to hexose cellular response to carbohydrate stimulus cellular response to chemical stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose response to chemical glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus pyruvate metabolic process cellular component organization sexual reproduction cytoplasm organization cellular component organization or biogenesis female gamete generation vitellogenesis gamete generation neutral lipid metabolic process neutral lipid biosynthetic process glycerol biosynthetic process lipid biosynthetic process alcohol metabolic process acylglycerol biosynthetic process triglyceride metabolic process triglyceride biosynthetic process polyol biosynthetic process polyol metabolic process alditol biosynthetic process glycerol biosynthetic process from pyruvate glycerol metabolic process glycerolipid biosynthetic process alcohol biosynthetic process glycerolipid metabolic process acylglycerol metabolic process lactate metabolic process response to ketone response to lipid cellular response to endogenous stimulus response to hormone response to steroid hormone cellular response to ketone cellular response to steroid hormone stimulus cellular response to hormone stimulus response to endogenous stimulus cellular response to dexamethasone stimulus response to glucocorticoid cellular response to glucocorticoid stimulus cellular response to corticosteroid stimulus response to corticosteroid cellular response to lipid response to dexamethasone regulation of viral process viral process cellular developmental process oogenesis cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction eggshell formation cell differentiation anatomical structure formation involved in morphogenesis germ cell development response to alcohol cellular response to alcohol cellular response to ethanol response to ethanol epithelium development gland development tissue development liver development epithelial cell differentiation hepaticobiliary system development hepatocyte differentiation system development alcohol catabolic process polyol catabolic process carbohydrate catabolic process alditol catabolic process glycerol catabolic process glucose catabolic process to lactate via pyruvate energy derivation by oxidation of organic compounds fermentation hexose catabolic process generation of precursor metabolites and energy glucose catabolic process glucose catabolic process to lactate monosaccharide catabolic process response to organophosphorus response to nitrogen compound response to purine-containing compound response to cAMP cellular response to nitrogen compound response to peptide hormone cellular response to peptide hormone stimulus response to insulin cellular response to insulin stimulus embryo development ending in birth or egg hatching dicarboxylic acid metabolic process oxaloacetate metabolic process response to nutrient levels response to stress response to starvation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR008209	Phosphoenolpyruvate carboxykinase, GTP-utilising	Family
A, B, C, D	IPR008210	Phosphoenolpyruvate carboxykinase, N-terminal	Homologous Superfamily
A, B, C, D	IPR035078	Phosphoenolpyruvate carboxykinase, GTP-utilising, N-terminal	Domain
A, B, C, D	IPR035077	Phosphoenolpyruvate carboxykinase, C-terminal P-loop domain	Domain
A, B, C, D	IPR013035	Phosphoenolpyruvate carboxykinase, C-terminal	Homologous Superfamily
A, B, C, D	IPR018091	Phosphoenolpyruvate carboxykinase, GTP-utilising, conserved site	Conserved 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.