2OKK

The X-ray crystal structure of the 65kDa isoform of Glutamic Acid Decarboxylase (GAD65)

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
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pyridoxal-dependent decarboxylase	8101596	4003328	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PLP-dependent transferases	8101597	3000954	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)
A	Pyridoxal_deC	e2okkA3	A: a+b two layers	X: C-terminal domain in some PLP-dependent transferases (From Topology)	H: C-terminal domain in some PLP-dependent transferases (From Topology)	T: C-terminal domain in some PLP-dependent transferases	F: Pyridoxal_deC	ECOD (1.6)
A	Aminotran_5_N	e2okkA2	A: a/b three-layered sandwiches	X: PLP-dependent transferases (From Topology)	H: PLP-dependent transferases (From Topology)	T: PLP-dependent transferases	F: Aminotran_5_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.1150.170	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1		CATH (4.3.0)
A	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00282	Pyridoxal-dependent decarboxylase conserved domain (Pyridoxal_deC)	Pyridoxal-dependent decarboxylase conserved domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Glutamate decarboxylase 2	vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding glutamate decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding glutamate decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity protein-containing complex binding organic acid binding amino acid binding carboxylic acid binding glutamate binding	response to stimulus response to chemical response to xenobiotic stimulus gamma-aminobutyric acid metabolic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process response to stimulus response to chemical response to xenobiotic stimulus gamma-aminobutyric acid metabolic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process non-proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process gamma-aminobutyric acid biosynthetic process small molecule metabolic process metabolic process cellular process monocarboxylic acid metabolic process non-proteinogenic amino acid biosynthetic process response to ketone response to lipid response to hormone response to steroid hormone response to endogenous stimulus response to progesterone response to oxygen-containing compound response to organic cyclic compound cellular response to endogenous stimulus cellular response to growth factor stimulus cellular response to nerve growth factor stimulus cellular response to brain-derived neurotrophic factor stimulus response to nerve growth factor response to growth factor response to decreased oxygen levels cellular response to stimulus cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to chemical stimulus cellular response to stress response to hypoxia response to stress response to oxygen levels response to abiotic stimulus catabolic process glutamine family amino acid catabolic process dicarboxylic acid catabolic process organic acid catabolic process alpha-amino acid metabolic process glutamine family amino acid metabolic process cellular catabolic process succinate metabolic process carboxylic acid catabolic process gamma-aminobutyrate shunt glutamate metabolic process amino acid catabolic process glutamate catabolic process dicarboxylic acid metabolic process L-amino acid catabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process small molecule catabolic process response to nutrient levels response to caloric restriction trans-synaptic signaling synaptic signaling regulation of biological process signaling anterograde trans-synaptic signaling biological regulation cell-cell signaling chemical synaptic transmission cell communication response to nitrogen compound response to cocaine response to alkaloid	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane presynapse synapse cell junction presynaptic membrane plasma membrane region synaptic membrane membrane-bounded organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane presynapse synapse cell junction presynaptic membrane plasma membrane region synaptic membrane membrane-bounded organelle clathrin-sculpted gamma-aminobutyric acid transport vesicle clathrin-sculpted vesicle intracellular vesicle clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane intracellular membrane-bounded organelle intracellular organelle coated vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane organelle clathrin-coated vesicle coated vesicle vesicle organelle membrane clathrin-coated vesicle membrane GABA-ergic synapse Golgi membrane Golgi apparatus endomembrane system perinuclear region of cytoplasm somatodendritic compartment cell body neuronal cell body transport vesicle membrane synaptic vesicle synaptic vesicle membrane transport vesicle exocytic vesicle membrane secretory vesicle exocytic vesicle axon cell projection neuron projection plasma membrane bounded cell projection inhibitory synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002129	Pyridoxal phosphate-dependent decarboxylase	Family
A	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
A	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily
A	IPR021115	Pyridoxal-phosphate binding site	Binding Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q05329	diabetic retinopathy cocaine dependence bipolar disorder visual epilepsy major depressive disorder cocaine abuse schizophrenia Generalized seizures inborn carbohydrate metabolic disorder malignant ependymoma astrocytic tumor autoimmune disease pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor glioblastoma diabetic retinopathy cocaine dependence bipolar disorder visual epilepsy major depressive disorder cocaine abuse schizophrenia Generalized seizures inborn carbohydrate metabolic disorder malignant ependymoma astrocytic tumor autoimmune disease pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor glioblastoma large cell medulloblastoma malignant glioma medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia anxiety disorder atypical teratoid rhabdoid tumor ovarian cancer pilocytic astrocytoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	LLP	Parent Component: LYS RESID: AA0119 PSI-MOD : N6-pyridoxal phosphate-L-lysine MOD:00128

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.