Annotations: 1DK3

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1dk3a_	All alpha proteins	SAM domain-like	DNA polymerase beta, N-terminal domain-like	DNA polymerase beta, N-terminal domain-like	DNA polymerase beta, N-terminal (8 kD)-domain	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	DNA polymerase beta N-terminal domain-like	8033321	3000524	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	HHH_8	e1dk3A1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_8	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.150.110	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	PF14716	Helix-hairpin-helix domain (HHH_8)	Helix-hairpin-helix domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA POLYMERASE BETA	catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding DNA-directed DNA polymerase activity DNA polymerase activity transferase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity DNA binding binding organic cyclic compound binding damaged DNA binding nucleic acid binding DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups cytoskeletal protein binding microtubule binding protein binding tubulin binding DNA-(apurinic or apyrimidinic site) endonuclease activity class I DNA-(apurinic or apyrimidinic site) endonuclease activity enzyme binding cation binding ion binding metal ion binding small molecule binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process developmental process multicellular organismal process gland development animal organ development salivary gland development anatomical structure morphogenesis multicellular organism development gland morphogenesis salivary gland morphogenesis anatomical structure development animal organ morphogenesis exocrine system development system development immune system development lymph node development immune system process hematopoietic or lymphoid organ development multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells immunoglobulin production cellular biosynthetic process somatic cell DNA recombination V(D)J recombination somatic recombination of immunoglobulin gene segments immunoglobulin heavy chain V-D-J recombination organic substance biosynthetic process somatic diversification of immune receptors production of molecular mediator of immune response DNA recombination cellular metabolic process gene expression macromolecule biosynthetic process somatic diversification of immunoglobulins immunoglobulin V(D)J recombination biosynthetic process somatic diversification of immune receptors via germline recombination within a single locus apoptotic process cell death programmed cell death somatic diversification of immune receptors via somatic mutation somatic hypermutation of immunoglobulin genes pyrimidine dimer repair DNA repair embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development response to organic substance response to alcohol response to chemical response to oxygen-containing compound response to ethanol spleen development regulation of biological process regulation of cellular process signaling biological regulation intracellular signal transduction cell communication apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to DNA damage signal transduction intrinsic apoptotic signaling pathway neuron apoptotic process base-excision repair response to ionizing radiation response to radiation response to abiotic stimulus response to gamma radiation base-excision repair, gap-filling defense response inflammatory response double-strand break repair double-strand break repair via nonhomologous end joining response to oxygen levels response to hyperoxia response to increased oxygen levels	intracellular anatomical structure cytoplasm cellular anatomical entity protein-containing complex polymeric cytoskeletal fiber spindle spindle microtubule intracellular organelle cytoskeleton organelle intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer intracellular anatomical structure cytoplasm cellular anatomical entity protein-containing complex polymeric cytoskeletal fiber spindle spindle microtubule intracellular organelle cytoskeleton organelle intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton non-membrane-bounded organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR037160	DNA polymerase, thumb domain superfamily	Homologous Superfamily
A	IPR019843	DNA polymerase family X, binding site	Binding Site
A	IPR029398	DNA polymerase beta, thumb domain	Domain
A	IPR002008	DNA polymerase family X, beta-like	Family
A	IPR043519	Nucleotidyltransferase superfamily	Homologous Superfamily
A	IPR027421	DNA polymerase lambda lyase domain superfamily	Homologous Superfamily
A	IPR003583	Helix-hairpin-helix DNA-binding motif, class 1	Domain
A	IPR028207	DNA polymerase beta, palm domain	Domain
A	IPR022312	DNA polymerase family X	Family
A	IPR010996	DNA polymerase beta-like, N-terminal domain	Domain
A	IPR018944	DNA polymerase lambda, fingers domain	Domain
A	IPR002054	DNA-directed DNA polymerase X	Domain

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.