Annotations: 3NKM

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Phosphodiest_C	e3nkmA4	A: a+b two layers	X: Alpha-beta plaits	H: Phosphonoacetate hydrolase insertion domain (From Topology)	T: Phosphonoacetate hydrolase insertion domain	F: Phosphodiest_C	ECOD (1.6)
A	Phosphodiest_N	e3nkmA3	A: a/b three-layered sandwiches	X: Alkaline phosphatase-like (From Topology)	H: Alkaline phosphatase-like (From Topology)	T: Alkaline phosphatase-like	F: Phosphodiest_N	ECOD (1.6)
A	Endonuclease_NS	e3nkmA5	A: few secondary structure elements	X: His-Me finger endonucleases (From Homology)	H: His-Me finger endonucleases	T: His-Me finger endonucleases	F: Endonuclease_NS	ECOD (1.6)
A	Somatomedin_B	e3nkmA1	A: few secondary structure elements	X: Somatomedin B domain (From Topology)	H: Somatomedin B domain (From Topology)	T: Somatomedin B domain	F: Somatomedin_B	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	4.10.410.20	Few Secondary Structures	Irregular	Factor Xa Inhibitor		CATH (4.3.0)
A	3.40.720.10	Alpha Beta	3-Layer(aba) Sandwich	Alkaline Phosphatase, subunit A	Alkaline Phosphatase, subunit A	CATH (4.3.0)
A	3.40.570.10	Alpha Beta	3-Layer(aba) Sandwich	Extracellular Endonuclease	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01033	Somatomedin B domain (Somatomedin_B)	Somatomedin B domain	-	Family
A	PF01663	Type I phosphodiesterase / nucleotide pyrophosphatase (Phosphodiest)	Type I phosphodiesterase / nucleotide pyrophosphatase	-	Family
A	PF01223	DNA/RNA non-specific endonuclease (Endonuclease_NS)	DNA/RNA non-specific endonuclease	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ectonucleotide pyrophosphatase/phosphodiesterase family member 2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding organic cyclic compound binding nucleic acid binding phosphoric ester hydrolase activity phospholipase D activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity carboxylic ester hydrolase activity hydrolase activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding organic cyclic compound binding nucleic acid binding phosphoric ester hydrolase activity phospholipase D activity hydrolase activity, acting on ester bonds phosphoric diester hydrolase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity phospholipase activity lipase activity cargo receptor activity scavenger receptor activity lysophospholipase activity nuclease activity phosphodiesterase I activity exonuclease activity pyrophosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides dinucleotide phosphatase activity hydrolase activity, acting on acid anhydrides polysaccharide binding carbohydrate binding transition metal ion binding zinc ion binding alkylglycerophosphoethanolamine phosphodiesterase activity	phospholipid metabolic process organophosphate metabolic process phosphate-containing compound metabolic process metabolic process cellular process primary metabolic process phosphorus metabolic process lipid metabolic process ovulation cycle rhythmic process estrous cycle reproductive process multicellular organismal reproductive process response to stimulus phospholipid metabolic process organophosphate metabolic process phosphate-containing compound metabolic process metabolic process cellular process primary metabolic process phosphorus metabolic process lipid metabolic process ovulation cycle rhythmic process estrous cycle reproductive process multicellular organismal reproductive process response to stimulus immune response immune system process lipid catabolic process catabolic process phospholipid catabolic process glycerophospholipid metabolic process glycerolipid catabolic process organophosphate catabolic process phosphatidylcholine catabolic process phosphatidylcholine metabolic process glycerolipid metabolic process glycerophospholipid catabolic process positive regulation of substrate adhesion-dependent cell spreading regulation of biological process regulation of cellular process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion biological regulation positive regulation of biological process cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading positive regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization cell-substrate junction assembly positive regulation of cell-substrate junction organization cellular component organization cellular component biogenesis cellular component assembly cell junction assembly regulation of cell-substrate junction organization cellular component organization or biogenesis focal adhesion assembly positive regulation of focal adhesion assembly positive regulation of cellular component biogenesis positive regulation of cell-matrix adhesion regulation of cellular component biogenesis regulation of cell junction assembly positive regulation of cell junction assembly cell junction organization cell-matrix adhesion regulation of cell-matrix adhesion cell-substrate junction organization regulation of focal adhesion assembly regulation of cell-substrate junction assembly cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cell chemotaxis cellular response to stimulus chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility locomotion negative regulation of biological process negative regulation of cell-matrix adhesion negative regulation of cell adhesion negative regulation of cellular process negative regulation of cell-substrate adhesion sphingolipid catabolic process membrane lipid metabolic process sphingolipid metabolic process membrane lipid catabolic process regulation of developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell morphogenesis regulation of cell morphogenesis positive regulation of developmental process cell projection morphogenesis regulation of lamellipodium organization anatomical structure development regulation of lamellipodium morphogenesis positive regulation of cell projection organization regulation of anatomical structure morphogenesis developmental process plasma membrane bounded cell projection organization positive regulation of lamellipodium morphogenesis regulation of cell projection organization positive regulation of lamellipodium organization anatomical structure morphogenesis lamellipodium organization lamellipodium morphogenesis regulation of plasma membrane bounded cell projection organization multicellular organismal process positive regulation of nervous system development cellular developmental process cell development regulation of cell differentiation regulation of neurogenesis regulation of gliogenesis positive regulation of gliogenesis regulation of cell development regulation of nervous system development multicellular organism development neurogenesis gliogenesis positive regulation of cell differentiation cell differentiation regulation of multicellular organismal process positive regulation of neurogenesis positive regulation of oligodendrocyte differentiation system development regulation of multicellular organismal development regulation of glial cell differentiation positive regulation of cell development nervous system development positive regulation of glial cell differentiation central nervous system development oligodendrocyte differentiation glial cell differentiation positive regulation of multicellular organismal process regulation of oligodendrocyte differentiation regulation of protein modification process positive regulation of phosphorylation regulation of protein phosphorylation positive regulation of protein metabolic process peptidyl-tyrosine modification positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of peptidyl-tyrosine phosphorylation positive regulation of protein modification process regulation of phosphate metabolic process peptidyl-amino acid modification positive regulation of macromolecule metabolic process protein metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process regulation of peptidyl-tyrosine phosphorylation regulation of macromolecule metabolic process macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process peptidyl-tyrosine phosphorylation regulation of metabolic process positive regulation of locomotion regulation of cell motility positive regulation of cell migration positive regulation of epithelial cell migration tissue migration ameboidal-type cell migration positive regulation of cell motility regulation of cell migration epithelial cell migration regulation of epithelial cell migration epithelium migration regulation of locomotion	cell periphery cellular anatomical structure plasma membrane membrane extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044929	DNA/RNA non-specific endonuclease superfamily	Homologous Superfamily
A	IPR020821	ENPP1-3/EXOG-like, endonuclease/phosphodiesterase domain	Domain
A	IPR001212	Somatomedin B domain	Domain
A	IPR017850	Alkaline-phosphatase-like, core domain superfamily	Homologous Superfamily
A	IPR002591	Type I phosphodiesterase/nucleotide pyrophosphatase/phosphate transferase	Family
A	IPR020436	Somatomedin B domain, chordata	Domain
A	IPR044925	His-Me finger superfamily	Homologous Superfamily
A	IPR036024	Somatomedin B-like domain superfamily	Homologous Superfamily
A	IPR001604	DNA/RNA non-specific endonuclease/pyrophosphatase/phosphodiesterase 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.