Annotations: 3IAY

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth A]	DNA_pol_B_exo1_2nd_1	e3iayA4	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: DNA_pol_B_exo1_2nd_1	ECOD (1.6)
C [auth A]	DNA_pol_B_2nd	e3iayA3	A: alpha bundles	X: thumb domain in bacteriophage RB69-like DNA polymerase I (From Topology)	H: thumb domain in bacteriophage RB69-like DNA polymerase I (From Topology)	T: thumb domain in bacteriophage RB69-like DNA polymerase I	F: DNA_pol_B_2nd	ECOD (1.6)
C [auth A]	DNA_pol_B_1st_1	e3iayA1	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: DNA_pol_B_1st_1	ECOD (1.6)
C [auth A]	DNA_pol_B_exo1_1st	e3iayA5	A: a+b two layers	X: Alpha-beta plaits	H: Family B DNA polymerase insertion domain (From Topology)	T: Family B DNA polymerase insertion domain	F: DNA_pol_B_exo1_1st	ECOD (1.6)
C [auth A]	DNA_pol_B_exo1_3rd	e3iayA2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: DNA_pol_B_exo1_3rd	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth A]	2.40.50.730	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (4.2.0)
C [auth A]	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (4.2.0)
C [auth A]	6.10.140.1540	Special	Helix non-globular	Helix Hairpins		CATH (4.2.0)
C [auth A]	1.10.132.60	Mainly Alpha	Orthogonal Bundle	Topoisomerase I	Chain A, domain 4	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A]	PF24055	DNA polymerase delta catalytic subunit-like, N-terminal domain (POL3_N)	DNA polymerase delta catalytic subunit-like, N-terminal domain	This domain is found towards the N-terminal of DNA polymerase delta catalytic subunit from Saccharomyces cerevisiae (POL3) and similar eukaryotic protein sequences. POL3 is the catalytic component of DNA polymerase delta (DNA polymerase III), which p ...	This domain is found towards the N-terminal of DNA polymerase delta catalytic subunit from Saccharomyces cerevisiae (POL3) and similar eukaryotic protein sequences. POL3 is the catalytic component of DNA polymerase delta (DNA polymerase III), which participates in chromosomal DNA replication. This domain shows an alpha-beta configuration [1,6].	Domain
C [auth A]	PF03104	DNA polymerase family B, exonuclease domain (DNA_pol_B_exo1)	DNA polymerase family B, exonuclease domain	-	Family
C [auth A]	PF00136	DNA polymerase family B (DNA_pol_B)	DNA polymerase family B	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A]	DNA polymerase delta catalytic subunit	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding DNA exonuclease activity catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding DNA exonuclease activity catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on DNA 3'-5'-DNA exonuclease activity exonuclease activity catalytic activity DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups DNA binding nucleic acid binding molecular adaptor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA replication, removal of RNA primer catabolic process RNA metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleic acid catabolic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA replication, removal of RNA primer catabolic process RNA metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleic acid catabolic process RNA catabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity cellular response to stimulus response to stimulus DNA replication proofreading cellular response to stress DNA damage response response to stress DNA repair nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA-templated DNA biosynthetic process nucleic acid biosynthetic process biosynthetic process DNA biosynthetic process nucleotide-excision repair, DNA gap filling nucleotide-excision repair base-excision repair, gap-filling base-excision repair double-strand break repair double-strand break repair via nonhomologous end joining	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome membraneless organelle replication fork delta DNA polymerase complex catalytic complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups organelle lumen organelle intracellular protein-containing complex nuclear lumen replisome
B [auth T]	5'-D(TPAPAPGPGPTPAPGPGPGPGPAPGPGPAPT)-3'	-	-	-
A [auth P]	5'-D(APTPCPCPTPCPCPCPCPTPAP(DOC))-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
C [auth A]	IPR006134	DNA-directed DNA polymerase, family B, multifunctional domain	Domain
C [auth A]	IPR050240	DNA polymerase type-B	Family
C [auth A]	IPR017964	DNA-directed DNA polymerase, family B, conserved site	Conserved Site
C [auth A]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
C [auth A]	IPR023211	DNA polymerase, palm domain superfamily	Homologous Superfamily
C [auth A]	IPR006172	DNA-directed DNA polymerase, family B	Family
C [auth A]	IPR025687	C4-type zinc-finger of DNA polymerase delta	Domain
C [auth A]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
C [auth A]	IPR006133	DNA-directed DNA polymerase, family B, exonuclease domain	Domain
C [auth A]	IPR056435	DNA polymerase delta/zeta catalytic subunit, N-terminal domain	Domain
C [auth A]	IPR042087	DNA polymerase family B, thumb domain	Homologous Superfamily

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.