1QKI | pdb_00001qki

X-RAY STRUCTURE OF HUMAN GLUCOSE 6-PHOSPHATE DEHYDROGENASE (VARIANT CANTON R459L) COMPLEXED WITH STRUCTURAL NADP+

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1qkib1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1qkib2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H	d1qkih1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H	d1qkih2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d1qkig1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G	d1qkig2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d1qkif1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d1qkif2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d1qkie1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d1qkie2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1qkid1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1qkid2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1qkic1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1qkic2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1qkia1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain	Glucose 6-phosphate dehydrogenase, N-terminal domain	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1qkia2	Alpha and beta proteins (a+b)	FwdE/GAPDH domain-like	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	Glucose 6-phosphate dehydrogenase-like	Glucose 6-phosphate dehydrogenase	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GAPDH-like	8056151	3000043	SCOP2B (2022-06-29)
A	SCOP2 Family	Glucose 6-phosphate dehydrogenase-like	8056150	4000091	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GAPDH-like	8056151	3000043	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	YceM-like_C	e1qkiB1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
B	FAD_binding_3	e1qkiB2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
H	YceM-like_C	e1qkiH1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
H	FAD_binding_3	e1qkiH2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
G	YceM-like_C	e1qkiG1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
G	FAD_binding_3	e1qkiG2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
F	YceM-like_C	e1qkiF1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
F	FAD_binding_3	e1qkiF2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
E	YceM-like_C	e1qkiE1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
E	Lyase_1	e1qkiE2	A: alpha bundles	X: UBC-like	H: UBC-like	T: Concanavalin A-like lectins/glucanases	F: Lyase_1	ECOD (develop294)
D	YceM-like_C	e1qkiD1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
D	FAD_binding_3	e1qkiD2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
C	YceM-like_C	e1qkiC1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: YceM-like_C	ECOD (develop294)
C	FAD_binding_3	e1qkiC2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: FAD_binding_3	ECOD (develop294)
A	G6PD_C	e1qkiA1	A: a+b two layers	X: FwdE/GAPDH domain-like	H: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	T: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	F: G6PD_C	ECOD (develop294)
A	GFO_IDH_MocA	e1qkiA2	A: alpha bundles	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GFO_IDH_MocA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
H	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
H	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
G	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
G	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
F	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF00479	Glucose-6-phosphate dehydrogenase, NAD binding domain (G6PD_N)	Glucose-6-phosphate dehydrogenase, NAD binding domain		Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF02781	Glucose-6-phosphate dehydrogenase, C-terminal domain (G6PD_C)	Glucose-6-phosphate dehydrogenase, C-terminal domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	GLUCOSE-6-PHOSPHATE 1-DEHYDROGENASE	oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors catalytic activity glucose-6-phosphate dehydrogenase activity binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding NADP binding small molecule binding identical protein binding oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors catalytic activity glucose-6-phosphate dehydrogenase activity binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding NADP binding small molecule binding identical protein binding protein binding protein homodimerization activity protein dimerization activity D-glucose binding monosaccharide binding carbohydrate binding	nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process primary metabolic process nucleotide metabolic process NADP+ metabolic process purine-containing compound metabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process metabolic process cellular process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process primary metabolic process nucleotide metabolic process NADP+ metabolic process purine-containing compound metabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process multicellular organismal process system process regulation of growth regulation of cellular process negative regulation of muscle hypertrophy response to stimulus regulation of cardiac muscle tissue growth developmental growth regulation of system process negative regulation of biological process negative regulation of muscle cell differentiation regulation of cell differentiation muscle cell differentiation regulation of muscle hypertrophy muscle structure development multicellular organism development muscle adaptation negative regulation of growth cell differentiation regulation of organ growth regulation of heart growth anatomical structure development cardiac muscle tissue growth muscle tissue development cardiac cell development system development developmental process regulation of biological process heart growth negative regulation of striated muscle cell differentiation striated muscle hypertrophy negative regulation of cell growth tissue development negative regulation of developmental growth regulation of muscle cell differentiation regulation of response to stimulus striated muscle cell differentiation negative regulation of multicellular organismal process regulation of cellular component organization regulation of developmental process cellular developmental process cardiac muscle cell development cell development negative regulation of cell growth involved in cardiac muscle cell development regulation of striated muscle cell differentiation negative regulation of cardiac muscle tissue growth organ growth cell growth striated muscle tissue development cellular component organization negative regulation of organ growth striated muscle cell development muscle cell development cardiac muscle hypertrophy negative regulation of cellular process negative regulation of cell differentiation regulation of multicellular organismal process cellular component organization or biogenesis muscle hypertrophy regulation of muscle adaptation heart development regulation of multicellular organismal development regulation of developmental growth negative regulation of heart growth cardiac muscle tissue development developmental cell growth physiological muscle hypertrophy negative regulation of developmental process biological regulation growth animal organ development cardiac muscle cell differentiation regulation of cell growth involved in cardiac muscle cell development regulation of muscle system process muscle system process regulation of cell growth regulation of cardiac muscle hypertrophy cardiocyte differentiation circulatory system development cell growth involved in cardiac muscle cell development physiological cardiac muscle hypertrophy negative regulation of cardiac muscle hypertrophy ribose phosphate metabolic process carbohydrate derivative biosynthetic process carbohydrate derivative metabolic process biosynthetic process organophosphate biosynthetic process ribose phosphate biosynthetic process regulation of localization regulation of calcium ion transport positive regulation of cation transmembrane transport positive regulation of calcium ion transport transport monoatomic ion transmembrane transport positive regulation of biological process regulation of monoatomic ion transmembrane transport calcium ion transport metal ion transport monoatomic cation transmembrane transport regulation of calcium ion transmembrane transport localization regulation of calcium ion transmembrane transport via high voltage-gated calcium channel positive regulation of monoatomic ion transport positive regulation of calcium ion transmembrane transport positive regulation of transmembrane transport monoatomic ion transport positive regulation of monoatomic ion transmembrane transport calcium ion transmembrane transport via high voltage-gated calcium channel monoatomic cation transport regulation of metal ion transport positive regulation of cellular process regulation of transport regulation of monoatomic ion transport establishment of localization positive regulation of calcium ion transmembrane transport via high voltage-gated calcium channel transmembrane transport regulation of transmembrane transport positive regulation of transport regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport neuron apoptotic process regulation of apoptotic process regulation of programmed cell death cell death apoptotic process programmed cell death regulation of neuron apoptotic process glucose 6-phosphate metabolic process monosaccharide metabolic process carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process monosaccharide biosynthetic process pentose metabolic process pentose biosynthetic process lipid metabolic process response to iron(III) ion response to metal ion response to iron ion response to chemical glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process cellular response to stimulus response to oxidative stress cellular response to chemical stimulus cellular response to stress response to stress cellular response to oxidative stress cellular response to chemical stress secondary alcohol biosynthetic process cholesterol biosynthetic process sterol metabolic process steroid metabolic process cholesterol metabolic process lipid biosynthetic process alcohol metabolic process secondary alcohol metabolic process sterol biosynthetic process alcohol biosynthetic process steroid biosynthetic process hexose metabolic process glucose metabolic process response to alcohol response to oxygen-containing compound response to ethanol negative regulation of metabolic process reactive oxygen species metabolic process negative regulation of reactive oxygen species metabolic process regulation of metabolic process regulation of reactive oxygen species metabolic process head development brain development nervous system development substantia nigra development central nervous system development midbrain development neural nucleus development generation of precursor metabolites and energy NADPH regeneration pentose-phosphate shunt pentose-phosphate shunt, oxidative branch erythrocyte development homeostatic process hemopoiesis erythrocyte maturation developmental maturation erythrocyte differentiation multicellular organismal-level homeostasis anatomical structure maturation myeloid cell differentiation immune system process myeloid cell development homeostasis of number of cells cell maturation myeloid cell homeostasis erythrocyte homeostasis response to nutrient levels response to food	cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular membraneless organelle intracellular organelle cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure intracellular membraneless organelle intracellular organelle centrosome microtubule organizing center cytoskeleton centriolar satellite membraneless organelle microtubule cytoskeleton cytoplasm cytosol cell periphery cytoplasmic side of plasma membrane cytoplasmic side of membrane plasma membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR019796	Glucose-6-phosphate dehydrogenase, active site	Active Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR022674	Glucose-6-phosphate dehydrogenase, NAD-binding	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR022675	Glucose-6-phosphate dehydrogenase, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001282	Glucose-6-phosphate dehydrogenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H	Pharos: P11413	G6PD deficiency congenital nonspherocytic hemolytic anemia favism chronic granulomatous disease hemolytic anemia malaria anemia, nonspherocytic hemolytic, due to G6PD deficiency familial hemolytic anemia phagocyte bactericidal dysfunction contact dermatitis Hemolysis inborn errors of metabolism acute kidney failure acute myeloid leukemia subependymal giant cell astrocytoma G6PD deficiency congenital nonspherocytic hemolytic anemia favism chronic granulomatous disease hemolytic anemia malaria anemia, nonspherocytic hemolytic, due to G6PD deficiency familial hemolytic anemia phagocyte bactericidal dysfunction contact dermatitis Hemolysis inborn errors of metabolism acute kidney failure acute myeloid leukemia subependymal giant cell astrocytoma cancer glioblastoma lung cancer anemia tuberculosis bipolar disorder granulomatous disease, chronic, X-linked invasive ductal breast carcinoma psoriasis breast cancer congenital anemia

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.