Annotations: 2PQ4

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Dimeric alpha+beta barrel	8057004	3000089	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	PF03927	e2pq4A1	A: a+b two layers	X: Alpha-beta plaits	H: ACT-like (From Topology)	T: ACT-like	F: PF03927	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03927	NapD protein (NapD)	NapD protein	Uncharacterized protein involved in formation of periplasmic nitrate reductase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Protein napD	signal sequence binding binding peptide binding	negative regulation of protein transport protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process regulation of protein localization transport negative regulation of biological process negative regulation of transport localization cellular macromolecule localization negative regulation of cellular process negative regulation of protein transport protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process regulation of protein localization transport negative regulation of biological process negative regulation of transport localization cellular macromolecule localization negative regulation of cellular process negative regulation of protein localization regulation of biological process regulation of transport organic substance transport biological regulation regulation of establishment of protein localization negative regulation of establishment of protein localization regulation of protein transport establishment of localization protein transport regulation of cellular localization macromolecule localization cellular process	intracellular anatomical structure cytoplasm cellular anatomical entity
B	Periplasmic nitrate reductase precursor	cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding nitrate reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity molybdenum ion binding nitrate reductase (cytochrome) activity oxidoreductase activity, acting on a heme group of donors, nitrogenous group as acceptor cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding nitrate reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity molybdenum ion binding nitrate reductase (cytochrome) activity oxidoreductase activity, acting on a heme group of donors, nitrogenous group as acceptor oxidoreductase activity, acting on a heme group of donors organic cyclic compound binding molybdopterin cofactor binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding electron transfer activity	nitrate assimilation oxoacid metabolic process cellular metabolic process organic acid metabolic process reactive nitrogen species metabolic process nitrogen cycle metabolic process organic substance metabolic process metabolic process small molecule metabolic process cellular process nitrate metabolic process cellular respiration energy derivation by oxidation of organic compounds generation of precursor metabolites and energy nitrate assimilation oxoacid metabolic process cellular metabolic process organic acid metabolic process reactive nitrogen species metabolic process nitrogen cycle metabolic process organic substance metabolic process metabolic process small molecule metabolic process cellular process nitrate metabolic process cellular respiration energy derivation by oxidation of organic compounds generation of precursor metabolites and energy anaerobic respiration organonitrogen compound metabolic process Mo-molybdopterin cofactor biosynthetic process Mo-molybdopterin cofactor metabolic process organonitrogen compound biosynthetic process primary metabolic process prosthetic group metabolic process molybdopterin cofactor biosynthetic process organic cyclic compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process molybdopterin cofactor metabolic process organic cyclic compound biosynthetic process phosphate-containing compound metabolic process organic substance biosynthetic process protein metabolic process macromolecule metabolic process phosphorus metabolic process	protein-containing complex catalytic complex nitrate reductase complex oxidoreductase complex periplasmic space cellular anatomical entity outer membrane-bounded periplasmic space cell envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR005623	Chaperone NapD, nitrate reductase assembly	Family
B	IPR006963	Molybdopterin oxidoreductase, 4Fe-4S domain	Domain
B	IPR006657	Molybdopterin dinucleotide-binding domain	Domain
B	IPR006656	Molybdopterin oxidoreductase	Domain
B	IPR006311	Twin-arginine translocation pathway, signal sequence	Conserved Site
B	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
B	IPR010051	Periplasmic nitrate reductase, large subunit	Family
B	IPR041957	Nitrate reductase NapA-like, molybdopterin-binding domain	Domain
B	IPR027467	Molybdopterin oxidoreductase, molybdopterin cofactor binding site	Binding Site
B	IPR019546	Twin-arginine translocation pathway, signal sequence, bacterial/archaeal	Conserved Site

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.