2NOX | pdb_00002nox

Crystal structure of tryptophan 2,3-dioxygenase from Ralstonia metallidurans

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	d2noxa_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
B	d2noxb_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
C	d2noxc_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
D	d2noxd_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
E	d2noxe_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
F	d2noxf_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
G	d2noxg_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
H	d2noxh_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
I	d2noxi_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
J	d2noxj_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
K	d2noxk_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
L	d2noxl_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
M	d2noxm_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
N	d2noxn_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
O	d2noxo_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)
P	d2noxp_	All alpha proteins	Indolic compounds 2,3-dioxygenase-like	Indolic compounds 2,3-dioxygenase-like	automated matches	automated matches	(Cupriavidus metallidurans ) [TaxId: 119219 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
F	SCOP2 Family	Bacterial tryptophan 2, 3-dioxygenase-like	8087366	4001603	SCOP2 (2022-06-29)
F	SCOP2 Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2 (2022-06-29)
G	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	indolic compounds 2, 3-dioxygenase-like	8087367	3001961	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	Transketolase_C	e2noxA1	A: a/b three-layered sandwiches	X: Profilin-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Transketolase_C	ECOD (v294.1)
B	Sigma70_r4_2	e2noxB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
C	Sigma70_r4_2	e2noxC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
D	Sigma70_r4_2	e2noxD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
E	Sigma70_r4_2	e2noxE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
F	Sigma70_r4_2	e2noxF1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
G	Sigma70_r4_2	e2noxG1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
H	Sigma70_r4_2	e2noxH1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
I	Sigma70_r4_2	e2noxI1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
J	Sigma70_r4_2	e2noxJ1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
K	Sigma70_r4_2	e2noxK1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
L	Sigma70_r4_2	e2noxL1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
M	Sigma70_r4_2	e2noxM1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
N	Sigma70_r4_2	e2noxN1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
O	Sigma70_r4_2	e2noxO1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)
P	Sigma70_r4_2	e2noxP1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Sigma70_r4_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
C	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
D	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
E	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
F	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
G	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
H	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
I	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
J	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
K	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
L	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
M	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
N	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
O	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
P	1.20.58.480	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

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, I, J, K, L, M, N, O, P	Tryptophan 2,3-dioxygenase	binding tetrapyrrole binding heme binding oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen oxidoreductase activity L-tryptophan 2,3-dioxygenase activity oxidoreductase activity, acting on single donors with incorporation of molecular oxygen catalytic activity dioxygenase activity cation binding ion binding metal ion binding small molecule binding identical protein binding binding tetrapyrrole binding heme binding oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen oxidoreductase activity L-tryptophan 2,3-dioxygenase activity oxidoreductase activity, acting on single donors with incorporation of molecular oxygen catalytic activity dioxygenase activity cation binding ion binding metal ion binding small molecule binding identical protein binding protein binding	quinolinate metabolic process oxoacid metabolic process small molecule biosynthetic process dicarboxylic acid metabolic process pyridine-containing compound biosynthetic process carboxylic acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process quinolinate biosynthetic process biosynthetic process pyridine-containing compound metabolic process metabolic process cellular process quinolinate metabolic process oxoacid metabolic process small molecule biosynthetic process dicarboxylic acid metabolic process pyridine-containing compound biosynthetic process carboxylic acid metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process quinolinate biosynthetic process biosynthetic process pyridine-containing compound metabolic process metabolic process cellular process small molecule metabolic process dicarboxylic acid biosynthetic process NAD+ biosynthetic process nucleotide biosynthetic process nucleobase-containing compound metabolic process purine nucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process phosphorus metabolic process NAD+ metabolic process pyridine nucleotide biosynthetic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nicotinamide nucleotide biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process purine nucleotide biosynthetic process	protein-containing complex catalytic complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR004981	Tryptophan 2,3-dioxygenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR037217	Tryptophan/Indoleamine 2,3-dioxygenase-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR017485	Tryptophan 2,3-dioxygenase, bacterial	Family

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.