3W0L

The crystal structure of Xenopus Glucokinase and Glucokinase Regulatory Protein complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d3w0la1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
C	d3w0lc1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Actin-like ATPase domain	automated matches	automated matches	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00349	e3w0lA3	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00349	ECOD (1.6)
A	PF03727	e3w0lA2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF03727	ECOD (1.6)
C	PF00349	e3w0lC4	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00349	ECOD (1.6)
C	PF03727	e3w0lC3	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF03727	ECOD (1.6)
B	PF20741	e3w0lB4	A: alpha arrays	X: RuvA-C	H: C-terminal lid domain of glucokinase regulatory protein (From Topology)	T: C-terminal lid domain of glucokinase regulatory protein	F: PF20741	ECOD (1.6)
B	PF22198	e3w0lB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Ribosomal protein S2/SIS domain (From Topology)	T: Ribosomal protein S2/SIS domain	F: PF22198	ECOD (1.6)
B	PF22645	e3w0lB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Ribosomal protein S2/SIS domain (From Topology)	T: Ribosomal protein S2/SIS domain	F: PF22645	ECOD (1.6)
D	PF20741	e3w0lD4	A: alpha arrays	X: RuvA-C	H: C-terminal lid domain of glucokinase regulatory protein (From Topology)	T: C-terminal lid domain of glucokinase regulatory protein	F: PF20741	ECOD (1.6)
D	PF22198	e3w0lD3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Ribosomal protein S2/SIS domain (From Topology)	T: Ribosomal protein S2/SIS domain	F: PF22198	ECOD (1.6)
D	PF22645	e3w0lD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Ribosomal protein S2/SIS domain (From Topology)	T: Ribosomal protein S2/SIS domain	F: PF22645	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.367.20	Alpha Beta	3-Layer(aba) Sandwich	Hexokinase	domain 1	CATH (4.3.0)
A	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.3.0)
C	3.40.367.20	Alpha Beta	3-Layer(aba) Sandwich	Hexokinase	domain 1	CATH (4.3.0)
C	3.30.420.40	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.3.0)
B	1.10.8.1080	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	3.40.50.10490	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glucose-6-phosphate isomerase like protein	CATH (4.3.0)
B	3.40.50.12620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	1.10.8.1080	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	3.40.50.10490	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glucose-6-phosphate isomerase like protein	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF03727	Hexokinase (Hexokinase_2)	Hexokinase	Hexokinase (EC:2.7.1.1) contains two structurally similar domains represented by this family and Pfam:PF00349. Some members of the family have two copies of each of these domains.	Domain
A, C	PF00349	Hexokinase (Hexokinase_1)	Hexokinase	Hexokinase (EC:2.7.1.1) contains two structurally similar domains represented by this family and Pfam:PF03727. Some members of the family have two copies of each of these domains.	Domain
B, D	PF20741	C-terminal lid domain of glucokinase regulatory protein (GKRP-like_C)	C-terminal lid domain of glucokinase regulatory protein	This domain is found at the C terminus of Glucokinase regulatory protein (GKRP) from animals and N-acetylmuramic acid 6-phosphate etherase (MurQ) from bacteria. GKRP binds Glucokinase (GK) mainly through hydrophobic interactions, functioning as an al ...	This domain is found at the C terminus of Glucokinase regulatory protein (GKRP) from animals and N-acetylmuramic acid 6-phosphate etherase (MurQ) from bacteria. GKRP binds Glucokinase (GK) mainly through hydrophobic interactions, functioning as an allosteric switch in blood glucose control by the liver [1]. GKRP is trilobal in shape, consisting of two topologically identical sugar isomerase (SIS) domains (Pfam:PF01380 and Pfam:PF13580) capped by an alpha helical C-terminal domain (this entry). The Lid domain consists of a bundle of seven alpha helices with a core that shows a UBA-like fold [2]. MurQ, which also shows a SIS domain, plays a key role in the peptidoglycane recycling pathway. Its crystal structure shows each monomer have an alpha-beta-alpha sandwich fold commonly found in regulatory proteins controlling the expression of genes involved in the synthesis of phosphosugars. The C-terminal domain of this protein (this entry) is comprised of five alpha helices [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Glucokinase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding glucose binding monosaccharide binding carbohydrate binding glucokinase activity carbohydrate kinase activity kinase activity hexokinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	ribonucleotide catabolic process pyridine nucleotide catabolic process oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process ribonucleotide catabolic process pyridine nucleotide catabolic process oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process phosphorus metabolic process pyridine nucleotide metabolic process nucleoside phosphate metabolic process organonitrogen compound catabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process cellular metabolic process purine nucleoside diphosphate metabolic process primary metabolic process purine-containing compound catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process organic cyclic compound metabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process catabolic process ATP metabolic process purine nucleotide metabolic process organic substance metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process nucleotide catabolic process ribonucleoside triphosphate metabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process organonitrogen compound metabolic process ADP catabolic process carboxylic acid metabolic process generation of precursor metabolites and energy organic cyclic compound catabolic process purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process cellular process organic substance catabolic process purine ribonucleoside diphosphate catabolic process cellular homeostasis chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis intracellular chemical homeostasis intracellular glucose homeostasis monosaccharide metabolic process hexose catabolic process hexose metabolic process glucose catabolic process monosaccharide catabolic process small molecule catabolic process glucose metabolic process regulation of cellular process regulation of generation of precursor metabolites and energy positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of glycogen metabolic process positive regulation of metabolic process regulation of small molecule metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of biological process carbohydrate biosynthetic process regulation of cellular metabolic process positive regulation of glucose metabolic process positive regulation of glycogen biosynthetic process biosynthetic process energy reserve metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of carbohydrate metabolic process regulation of glycogen metabolic process regulation of metabolic process regulation of glycogen biosynthetic process glucan biosynthetic process energy derivation by oxidation of organic compounds cellular biosynthetic process regulation of glucan biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process regulation of polysaccharide metabolic process polysaccharide metabolic process glucan metabolic process positive regulation of biosynthetic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process regulation of biosynthetic process polysaccharide biosynthetic process glycogen metabolic process biological regulation regulation of macromolecule metabolic process glycogen biosynthetic process macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of polysaccharide biosynthetic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process positive regulation of cellular biosynthetic process negative regulation of small molecule metabolic process negative regulation of biological process gluconeogenesis negative regulation of cellular metabolic process negative regulation of gluconeogenesis negative regulation of cellular process negative regulation of carbohydrate metabolic process small molecule biosynthetic process negative regulation of metabolic process monosaccharide biosynthetic process negative regulation of cellular biosynthetic process hexose biosynthetic process negative regulation of biosynthetic process regulation of gluconeogenesis protein localization positive regulation of cell communication regulation of localization establishment of protein localization nitrogen compound transport positive regulation of establishment of protein localization cell communication localization cellular macromolecule localization positive regulation of insulin secretion regulation of biological quality regulation of peptide hormone secretion regulation of hormone levels organic substance transport positive regulation of peptide hormone secretion establishment of protein localization to extracellular region protein secretion establishment of localization regulation of protein secretion regulation of secretion positive regulation of protein localization cellular localization regulation of hormone secretion regulation of protein localization regulation of peptide secretion transport signaling positive regulation of secretion by cell hormone secretion protein localization to extracellular region positive regulation of protein transport peptide secretion secretion by cell regulation of secretion by cell positive regulation of hormone secretion positive regulation of secretion amide transport signal release positive regulation of peptide secretion regulation of signaling secretion regulation of transport regulation of peptide transport regulation of establishment of protein localization cell-cell signaling export from cell regulation of protein transport positive regulation of protein secretion peptide transport positive regulation of transport protein transport regulation of cellular localization regulation of insulin secretion peptide hormone secretion macromolecule localization hormone transport regulation of cell communication insulin secretion positive regulation of signaling	-
B, D	Glucokinase regulatory protein	binding ion binding anion binding carbohydrate derivative binding fructose-6-phosphate binding small molecule binding	carbohydrate metabolic process organic substance metabolic process primary metabolic process metabolic process monosaccharide metabolic process regulation of cellular process regulation of catalytic activity negative regulation of biological process negative regulation of glucokinase activity negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity negative regulation of cellular metabolic process regulation of primary metabolic process carbohydrate metabolic process organic substance metabolic process primary metabolic process metabolic process monosaccharide metabolic process regulation of cellular process regulation of catalytic activity negative regulation of biological process negative regulation of glucokinase activity negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of hexokinase activity negative regulation of kinase activity negative regulation of transferase activity regulation of small molecule metabolic process regulation of phosphate metabolic process regulation of glucokinase activity phosphate-containing compound metabolic process negative regulation of cellular process small molecule metabolic process phosphorus metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process negative regulation of carbohydrate metabolic process regulation of biological process phosphorylation cellular metabolic process negative regulation of metabolic process biological regulation negative regulation of molecular function regulation of cellular metabolic process hexose metabolic process regulation of molecular function regulation of kinase activity regulation of hexokinase activity negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process cellular process negative regulation of phosphorylation regulation of metabolic process glucose metabolic process carbohydrate derivative metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR043129	ATPase, nucleotide binding domain	Homologous Superfamily
A, C	IPR022673	Hexokinase, C-terminal	Domain
A, C	IPR019807	Hexokinase, binding site	Binding Site
A, C	IPR001312	Hexokinase	Family
A, C	IPR022672	Hexokinase, N-terminal	Domain
B, D	IPR046348	SIS domain superfamily	Homologous Superfamily
B, D	IPR040190	N-acetylmuramic acid 6-phosphate etherase/glucokinase regulatory protein	Family
B, D	IPR005486	Glucokinase regulatory protein, conserved site	Conserved Site
B, D	IPR001347	SIS domain	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 R01GM133198.