Annotations: 3ZD9

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	5_3_exonuc	e3zd9A1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: 5_3_exonuc	ECOD (1.6)
A	5_3_exonuc_N	e3zd9A2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: 5_3_exonuc_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1010	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	5'-nuclease	CATH (4.3.0)
A	1.10.150.20	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02739	5'-3' exonuclease, N-terminal resolvase-like domain (5_3_exonuc_N)	5'-3' exonuclease, N-terminal resolvase-like domain	-	Domain
A	PF01367	5'-3' exonuclease, C-terminal SAM fold (5_3_exonuc)	5'-3' exonuclease, C-terminal SAM fold	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	PROTEIN XNI	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding organic cyclic compound binding nucleic acid binding potassium ion binding alkali metal ion binding 5'-flap endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding organic cyclic compound binding nucleic acid binding potassium ion binding alkali metal ion binding 5'-flap endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid endodeoxyribonuclease activity, producing 5'-phosphomonoesters hydrolase activity DNA nuclease activity DNA endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA flap endonuclease activity endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters catalytic activity	DNA-templated DNA replication lagging strand elongation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA strand elongation organic substance metabolic process DNA replication DNA replication, Okazaki fragment processing metabolic process DNA strand elongation involved in DNA replication macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002421	5'-3' exonuclease	Domain
A	IPR020045	DNA polymerase I-like, H3TH domain	Domain
A	IPR038969	Flap endonuclease	Family
A	IPR029060	PIN-like domain superfamily	Homologous Superfamily
A	IPR036279	5'-3' exonuclease, C-terminal domain superfamily	Homologous Superfamily
A	IPR008918	Helix-hairpin-helix motif, class 2	Conserved Site
A	IPR020046	5'-3' exonuclease, alpha-helical arch, N-terminal	Domain
A	IPR022895	Flap endonuclease Xni	Family

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.