3K40

Crystal structure of Drosophila 3,4-dihydroxyphenylalanine decarboxylase

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3k40a_	Alpha and beta proteins (a/b)	PLP-dependent transferase-like	PLP-dependent transferases	Pyridoxal-dependent decarboxylase	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
B	d3k40b_	Alpha and beta proteins (a/b)	PLP-dependent transferase-like	PLP-dependent transferases	Pyridoxal-dependent decarboxylase	automated matches	Fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pyridoxal-dependent decarboxylase	8083279	4003328	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PLP-dependent transferases	8083280	3000954	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	PLP-dependent transferases	8083280	3000954	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)
A	Pyridoxal_deC	e3k40A3	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	e3k40A2	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)
B	Pyridoxal_deC	e3k40B3	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)
B	Aminotran_5_N	e3k40B2	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	1.20.1340.10	Mainly Alpha	Up-down Bundle	dopa decarboxylase, N-terminal domain	dopa decarboxylase, N-terminal domain	CATH (4.3.0)
A	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (4.3.0)
A	3.90.1150.10	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Aspartate Aminotransferase, domain 1	CATH (4.3.0)
B	1.20.1340.10	Mainly Alpha	Up-down Bundle	dopa decarboxylase, N-terminal domain	dopa decarboxylase, N-terminal domain	CATH (4.3.0)
B	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (4.3.0)
B	3.90.1150.10	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Aspartate Aminotransferase, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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, B	Aromatic-L-amino-acid decarboxylase	aromatic-L-amino-acid decarboxylase activity 5-hydroxy-L-tryptophan 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 aromatic-L-amino-acid decarboxylase activity 5-hydroxy-L-tryptophan 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 L-dopa decarboxylase activity	behavior multicellular organismal process system process learning or memory long-term memory nervous system process cognition memory amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process organic hydroxy compound metabolic process metabolic process catechol-containing compound metabolic process behavior multicellular organismal process system process learning or memory long-term memory nervous system process cognition memory amine metabolic process catecholamine metabolic process phenol-containing compound metabolic process organic hydroxy compound metabolic process metabolic process catechol-containing compound metabolic process biogenic amine metabolic process serotonin metabolic process indole-containing compound metabolic process primary amino compound biosynthetic process primary amino compound metabolic process ammonium ion metabolic process biosynthetic process indole-containing compound biosynthetic process organic hydroxy compound biosynthetic process phenol-containing compound biosynthetic process serotonin biosynthetic process response to stimulus response to stress response to wounding developmental process regulation of adult chitin-containing cuticle pigmentation regulation of biological process chitin-based cuticle sclerotization cuticle development molting cycle process developmental pigmentation biological regulation regulation of developmental pigmentation developmental maturation regulation of pigmentation multicellular organism development pigmentation regulation of cuticle pigmentation molting cycle cuticle pigmentation anatomical structure development molting cycle, chitin-based cuticle adult chitin-containing cuticle pigmentation imaginal disc development animal organ development wing disc development oxoacid metabolic process dopamine metabolic process amino acid metabolic process organic acid metabolic process alpha-amino acid metabolic process biogenic amine biosynthetic process dopamine biosynthetic process catecholamine biosynthetic process catechol-containing compound biosynthetic process small molecule metabolic process tyrosine metabolic process dopamine biosynthetic process from tyrosine erythrose 4-phosphate/phosphoenolpyruvate family amino acid metabolic process aromatic amino acid metabolic process cellular metabolic process carboxylic acid metabolic process primary metabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process amine biosynthetic process cellular process anesthesia-resistant memory indolalkylamine metabolic process serotonin biosynthetic process from tryptophan response to hydrogen peroxide response to oxidative stress response to chemical response to oxygen-containing compound response to reactive oxygen species response to abiotic stimulus thermosensory behavior response to temperature stimulus taxis thermotaxis response to external stimulus locomotion	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
A, B	IPR015422	Pyridoxal phosphate-dependent transferase, small domain	Homologous Superfamily
A, B	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily
A, B	IPR010977	Aromatic-L-amino-acid decarboxylase	Family
A, B	IPR002129	Pyridoxal phosphate-dependent decarboxylase	Family
A, B	IPR021115	Pyridoxal-phosphate binding site	Binding Site

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B	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.