5VBN

Crystal Structure of human DNA polymerase epsilon B-subunit in complex with C-terminal domain of catalytic subunit

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	F_UNCLASSIFIED	e5vbnA1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF04042	e5vbnA2	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: Metallo-dependent phosphatases (From Topology)	T: Metallo-dependent phosphatases	F: PF04042	ECOD (1.6)
C [auth E]	F_UNCLASSIFIED	e5vbnE1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth E]	PF04042	e5vbnE2	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: Metallo-dependent phosphatases (From Topology)	T: Metallo-dependent phosphatases	F: PF04042	ECOD (1.6)
B	F_UNCLASSIFIED	e5vbnB1	A: few secondary structure elements	X: Rubredoxin-like	H: Zinc finger domain of DNA polymerase-alpha (From Topology)	T: Zinc finger domain of DNA polymerase-alpha	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF22912	e5vbnB2	A: few secondary structure elements	X: Rubredoxin-like	H: Zinc finger domain of DNA polymerase-alpha (From Topology)	T: Zinc finger domain of DNA polymerase-alpha	F: PF22912	ECOD (1.6)
D [auth F]	F_UNCLASSIFIED	e5vbnF2	A: few secondary structure elements	X: Rubredoxin-like	H: Zinc finger domain of DNA polymerase-alpha (From Topology)	T: Zinc finger domain of DNA polymerase-alpha	F: F_UNCLASSIFIED	ECOD (1.6)
D [auth F]	PF22912	e5vbnF1	A: few secondary structure elements	X: Rubredoxin-like	H: Zinc finger domain of DNA polymerase-alpha (From Topology)	T: Zinc finger domain of DNA polymerase-alpha	F: PF22912	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth E]	PF04042	DNA polymerase alpha/epsilon subunit B (DNA_pol_E_B)	DNA polymerase alpha/epsilon subunit B	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth E]	DNA polymerase epsilon subunit 2	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding organic cyclic compound binding nucleic acid binding	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 cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair 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 cellular response to stimulus postreplication repair response to stimulus cellular biosynthetic process DNA synthesis involved in DNA repair nucleic acid biosynthetic process cellular response to stress response to stress organic substance biosynthetic process DNA repair translesion synthesis cellular metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process biosynthetic process DNA damage response organic cyclic compound biosynthetic process cellular process error-prone translesion synthesis DNA biosynthetic process DNA-templated DNA replication	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle cellular anatomical entity epsilon DNA polymerase complex DNA polymerase complex transferase complex, transferring phosphorus-containing groups organelle lumen organelle intracellular non-membrane-bounded organelle intracellular protein-containing complex nuclear lumen nuclear body nucleoplasm
B, D [auth F]	DNA polymerase epsilon catalytic subunit A	binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule 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 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters single-stranded DNA exodeoxyribonuclease activity binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule 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 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters single-stranded DNA exodeoxyribonuclease activity catalytic activity, acting on DNA nuclease activity hydrolase activity, acting on ester bonds 3'-5'-DNA exonuclease activity catalytic activity exonuclease activity single-stranded DNA 3'-5' DNA exonuclease activity protein-containing complex binding chromatin binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups DNA binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding	cellular process cell cycle mitotic cell cycle 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 DNA-templated DNA replication leading strand elongation cellular process cell cycle mitotic cell cycle 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 DNA-templated DNA replication leading strand elongation DNA strand elongation DNA strand elongation involved in DNA replication cellular response to stimulus response to stimulus DNA-templated DNA replication maintenance of fidelity DNA replication proofreading cellular response to stress DNA damage response response to stress DNA repair developmental process multicellular organism development multicellular organismal process anatomical structure development animal organ development embryonic organ development embryo development mitotic cell cycle process cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle phase transition cell cycle process nucleotide-excision repair, DNA gap filling nucleotide-excision repair base-excision repair, gap-filling base-excision repair cellular biosynthetic process DNA synthesis involved in DNA repair nucleic acid biosynthetic process organic substance biosynthetic process cellular metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process biosynthetic process organic cyclic compound biosynthetic process DNA biosynthetic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle cellular anatomical entity epsilon DNA polymerase complex DNA polymerase complex transferase complex, transferring phosphorus-containing groups organelle lumen organelle intracellular non-membrane-bounded organelle intracellular protein-containing complex nuclear lumen cell periphery plasma membrane membrane nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth E]	IPR016266	DNA polymerase epsilon, subunit B	Family
A, C [auth E]	IPR024639	DNA polymerase epsilon subunit B, N-terminal	Domain
A, C [auth E]	IPR007185	DNA polymerase alpha/delta/epsilon, subunit B	Domain
B, D [auth F]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
B, D [auth F]	IPR006134	DNA-directed DNA polymerase, family B, multifunctional domain	Domain
B, D [auth F]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
B, D [auth F]	IPR023211	DNA polymerase, palm domain superfamily	Homologous Superfamily
B, D [auth F]	IPR006172	DNA-directed DNA polymerase, family B	Family
B, D [auth F]	IPR029703	DNA polymerase epsilon catalytic subunit	Family
B, D [auth F]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
B, D [auth F]	IPR013697	DNA polymerase epsilon, catalytic subunit A, C-terminal	Domain
B, D [auth F]	IPR006133	DNA-directed DNA polymerase, family B, exonuclease domain	Domain
B, D [auth F]	IPR042087	DNA polymerase family B, thumb domain	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C [auth E]	Pharos: P56282	acute myeloid leukemia breast cancer invasive ductal breast carcinoma malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor adrenal cortex carcinoma ductal breast carcinoma in situ large cell medulloblastoma malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm psoriasis atypical teratoid rhabdoid tumor acute myeloid leukemia breast cancer invasive ductal breast carcinoma malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor adrenal cortex carcinoma ductal breast carcinoma in situ large cell medulloblastoma malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm psoriasis atypical teratoid rhabdoid tumor glioblastoma lung cancer medulloblastoma ovarian cancer pilocytic astrocytoma
B, D [auth F]	Pharos: Q07864	facial dysmorphism-immunodeficiency-livedo-short stature syndrome colorectal cancer, susceptibility to, 12 colorectal cancer malignant mesothelioma medulloblastoma mismatch repair cancer syndrome osteosarcoma prostate carcinoma acute lymphoblastic leukemia skin neoplasm atrial fibrillation colorectal adenocarcinoma colorectal carcinoma endometriosis gastric carcinoma facial dysmorphism-immunodeficiency-livedo-short stature syndrome colorectal cancer, susceptibility to, 12 colorectal cancer malignant mesothelioma medulloblastoma mismatch repair cancer syndrome osteosarcoma prostate carcinoma acute lymphoblastic leukemia skin neoplasm atrial fibrillation colorectal adenocarcinoma colorectal carcinoma endometriosis gastric carcinoma Lymphomatous meningitis ovarian cancer psoriasis acute myeloid leukemia stomach carcinoma in situ benign colon neoplasm endometrium carcinoma in situ gastric neoplasm Lynch syndrome non-small cell lung carcinoma pancreatic adenocarcinoma skin cancer acute promyelocytic leukemia uterine disease benign neoplasm of stomach endometrial carcinoma

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.