2BVH | pdb_00002bvh

Crystal structure of 6-hydoxy-D-nicotine oxidase from Arthrobacter nicotinovorans. Crystal Form 2 (P21)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
D	d2bvhd1	Alpha and beta proteins (a+b)	Ferredoxin-like	FAD-linked oxidases, C-terminal domain	6-hydroxy-d-nicotine oxidase	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
D	d2bvhd2	Alpha and beta proteins (a+b)	FAD-binding/transporter-associated domain-like	FAD-binding/transporter-associated domain-like	FAD-linked oxidases, N-terminal domain	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
C	d2bvhc1	Alpha and beta proteins (a+b)	Ferredoxin-like	FAD-linked oxidases, C-terminal domain	6-hydroxy-d-nicotine oxidase	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
C	d2bvhc2	Alpha and beta proteins (a+b)	FAD-binding/transporter-associated domain-like	FAD-binding/transporter-associated domain-like	FAD-linked oxidases, N-terminal domain	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
B	d2bvhb1	Alpha and beta proteins (a+b)	Ferredoxin-like	FAD-linked oxidases, C-terminal domain	6-hydroxy-d-nicotine oxidase	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
B	d2bvhb2	Alpha and beta proteins (a+b)	FAD-binding/transporter-associated domain-like	FAD-binding/transporter-associated domain-like	FAD-linked oxidases, N-terminal domain	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
A	d2bvha1	Alpha and beta proteins (a+b)	Ferredoxin-like	FAD-linked oxidases, C-terminal domain	6-hydroxy-d-nicotine oxidase	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)
A	d2bvha2	Alpha and beta proteins (a+b)	FAD-binding/transporter-associated domain-like	FAD-binding/transporter-associated domain-like	FAD-linked oxidases, N-terminal domain	6-hydroxy-d-nicotine oxidase	(Paenarthrobacter nicotinovorans ) [TaxId: 29320 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D		e2bvhD1	A: beta-clip	X: Cyclophilin-like	H: Cyclophilin-like	T:	F:	ECOD (20:10:01)
C		e2bvhC1	A: beta-clip	X: Cyclophilin-like	H: Cyclophilin-like	T:	F:	ECOD (20:10:01)
B		e2bvhB1	A: beta-clip	X: Cyclophilin-like	H: Cyclophilin-like	T:	F:	ECOD (20:10:01)
A		e2bvhA1	A: beta-clip	X: Cyclophilin-like	H: Cyclophilin-like	T:	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.43.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 2	CATH (4.3.0)
D	3.30.465.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 3	CATH (4.3.0)
D	3.40.462.20	Alpha Beta	3-Layer(aba) Sandwich	Vanillyl-alcohol Oxidase	Chain A, domain 3	CATH (4.3.0)
C	3.30.43.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 2	CATH (4.3.0)
C	3.30.465.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 3	CATH (4.3.0)
C	3.40.462.20	Alpha Beta	3-Layer(aba) Sandwich	Vanillyl-alcohol Oxidase	Chain A, domain 3	CATH (4.3.0)
B	3.30.43.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 2	CATH (4.3.0)
B	3.30.465.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 3	CATH (4.3.0)
B	3.40.462.20	Alpha Beta	3-Layer(aba) Sandwich	Vanillyl-alcohol Oxidase	Chain A, domain 3	CATH (4.3.0)
A	3.30.43.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 2	CATH (4.3.0)
A	3.30.465.10	Alpha Beta	2-Layer Sandwich	Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase	domain 3	CATH (4.3.0)
A	3.40.462.20	Alpha Beta	3-Layer(aba) Sandwich	Vanillyl-alcohol Oxidase	Chain A, domain 3	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	6-HYDROXY-D-NICOTINE OXIDASE	FAD binding flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-NH group of donors, oxygen as acceptor hydroxy-nicotine oxidase activity oxidoreductase activity, acting on the CH-NH group of donors catalytic activity FAD binding flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-NH group of donors, oxygen as acceptor hydroxy-nicotine oxidase activity oxidoreductase activity, acting on the CH-NH group of donors catalytic activity (R)-6-hydroxynicotine oxidase activity	alkaloid metabolic process metabolic process cellular process nicotine metabolic process catabolic process nicotine catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR016167	FAD-binding, type PCMH, subdomain 1	Homologous Superfamily
A, B, C, D	IPR016164	FAD-linked oxidase-like, C-terminal	Homologous Superfamily
A, B, C, D	IPR006094	FAD linked oxidase, N-terminal	Domain
A, B, C, D	IPR016166	FAD-binding domain, PCMH-type	Domain
A, B, C, D	IPR006093	Oxygen oxidoreductase covalent FAD-binding site	Binding Site
A, B, C, D	IPR050416	FAD-linked Oxidoreductases in Biosynthetic Pathways	Family
A, B, C, D	IPR012951	Berberine/berberine-like	Domain
A, B, C, D	IPR036318	FAD-binding, type PCMH-like superfamily	Homologous Superfamily
A, B, C, D	IPR016169	FAD-binding, type PCMH, subdomain 2	Homologous Superfamily

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.