3WJA | pdb_00003wja

The crystal structure of human cytosolic NADP(+)-dependent malic enzyme in apo form

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3wjaa2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3wjaa1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3wjab2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3wjab1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	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	Malic_M	e3wjaA1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: HTH	T: Ribbon-helix-helix	F: Malic_M	ECOD (v294.1)
B	Malic_M	e3wjaB1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: HTH	T: Ribbon-helix-helix	F: Malic_M	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Malic enzyme, N-terminal domain	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)
B	3.40.50.10380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Malic enzyme, N-terminal domain	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00390	Malic enzyme, N-terminal domain (malic)	Malic enzyme, N-terminal domain		Domain
A, B	PF03949	Malic enzyme, NAD binding domain (Malic_M)	Malic enzyme, NAD binding domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	NADP-dependent malic enzyme	oxidoreductase activity malate dehydrogenase (decarboxylating) (NADP+) 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 malic enzyme activity malate dehydrogenase activity catalytic activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding oxidoreductase activity malate dehydrogenase (decarboxylating) (NADP+) 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 malic enzyme activity malate dehydrogenase activity catalytic activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding oxaloacetate decarboxylase activity carboxy-lyase activity lyase activity carbon-carbon lyase activity electron transfer activity magnesium ion binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding nucleoside phosphate binding ADP binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding NADP binding NAD binding identical protein binding protein 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 carbohydrate metabolic process oxoacid metabolic process malate metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process organic acid metabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis NAD+ metabolic process nucleotide biosynthetic process nucleobase-containing compound biosynthetic process biosynthetic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process regulation of cellular process regulation of primary metabolic process regulation of small molecule metabolic process regulation of nucleotide metabolic process regulation of NADP metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process biological regulation regulation of purine nucleotide metabolic process regulation of phosphorus metabolic process regulation of metabolic process response to carbohydrate response to stimulus response to chemical response to oxygen-containing compound response to hormone response to endogenous stimulus	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR012302	Malic enzyme, NAD-binding	Domain
A, B	IPR046346	Aminoacid dehydrogenase-like, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR015884	Malic enzyme, conserved site	Conserved Site
A, B	IPR012301	Malic enzyme, N-terminal domain	Domain
A, B	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B	IPR037062	Malic enzyme, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR001891	Malic oxidoreductase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P48163	obesity disorder Weight Gain medulloblastoma ovarian cancer primitive neuroectodermal tumor tuberculosis amyotrophic lateral sclerosis atypical teratoid rhabdoid tumor breast carcinoma drug-induced liver injury hepatocellular carcinoma lung cancer malignant glioma myopathy oligodendroglioma obesity disorder Weight Gain medulloblastoma ovarian cancer primitive neuroectodermal tumor tuberculosis amyotrophic lateral sclerosis atypical teratoid rhabdoid tumor breast carcinoma drug-induced liver injury hepatocellular carcinoma lung cancer malignant glioma myopathy oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma psoriasis ulcerative colitis astrocytic tumor bipolar disorder breast fibroadenoma ductal breast carcinoma in situ large cell medulloblastoma malignant colon neoplasm MALT lymphoma nasopharyngeal carcinoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia rheumatoid arthritis atopic eczema breast cancer Crohn disease glioblastoma malignant ependymoma

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.