5YLY | pdb_00005yly

Crystal structure of the cytochrome b5 reductase domain of Ulva prolifera nitrate reductase

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)
B	d5ylyb1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	(Ulva prolifera ) [TaxId: 3117 ],	SCOPe (2.08)
B	d5ylyb2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	(Ulva prolifera ) [TaxId: 3117 ],	SCOPe (2.08)
A	d5ylya1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	(Ulva prolifera ) [TaxId: 3117 ],	SCOPe (2.08)
A	d5ylya2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	(Ulva prolifera ) [TaxId: 3117 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	VP4_haemagglut	e5ylyB1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)
A	DEAD	e5ylyA1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: DEAD	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
B	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)
A	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
A	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Nitrate reductase	oxidoreductase activity, acting on other nitrogenous compounds as donors, with NAD or NADP as acceptor nitrate reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors nitrate reductase [NAD(P)H] activity nitrate reductase (NADH) activity catalytic activity FAD binding flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding oxidoreductase activity, acting on other nitrogenous compounds as donors, with NAD or NADP as acceptor nitrate reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors nitrate reductase [NAD(P)H] activity nitrate reductase (NADH) activity 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, acting on a sulfur group of donors sulfite oxidase activity oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor tetrapyrrole binding heme binding cation binding transition metal ion binding molybdenum ion binding metal ion binding molybdopterin cofactor binding	nitrate assimilation nitrogen cycle metabolic process oxoacid metabolic process metabolic process cellular process small molecule metabolic process organic acid metabolic process nitrate metabolic process reactive nitrogen species metabolic process cellular response to stimulus cellular response to nitrogen compound response to stimulus response to oxygen-containing compound response to nitrogen compound nitrate assimilation nitrogen cycle metabolic process oxoacid metabolic process metabolic process cellular process small molecule metabolic process organic acid metabolic process nitrate metabolic process reactive nitrogen species metabolic process cellular response to stimulus cellular response to nitrogen compound response to stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound response to nitrite cellular response to chemical stimulus cellular response to nitrite response to chemical cellular response to reactive nitrogen species sulfur compound metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001709	Flavoprotein pyridine nucleotide cytochrome reductase	Domain
A, B	IPR001433	Oxidoreductase FAD/NAD(P)-binding	Domain
A, B	IPR005066	Moybdenum cofactor oxidoreductase, dimerisation	Domain
A, B	IPR008335	Eukaryotic molybdopterin oxidoreductase	Family
A, B	IPR017938	Riboflavin synthase-like beta-barrel	Homologous Superfamily
A, B	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B	IPR036400	Cytochrome b5-like heme/steroid binding domain superfamily	Homologous Superfamily
A, B	IPR018506	Cytochrome b5, heme-binding site	Binding Site
A, B	IPR022407	Oxidoreductase, molybdopterin binding site	Binding Site
A, B	IPR036374	Oxidoreductase, molybdopterin-binding domain superfamily	Homologous Superfamily
A, B	IPR039261	Ferredoxin-NADP reductase (FNR), nucleotide-binding domain	Homologous Superfamily
A, B	IPR008333	Flavoprotein pyridine nucleotide cytochrome reductase-like, FAD-binding domain	Domain
A, B	IPR000572	Oxidoreductase, molybdopterin-binding domain	Domain
A, B	IPR017927	FAD-binding domain, ferredoxin reductase-type	Domain
A, B	IPR001199	Cytochrome b5-like heme/steroid binding domain	Domain

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.