5UM9 | pdb_00005um9

Flap endonuclease 1 (FEN1) D86N with 5'-flap substrate DNA and Sm3+

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	5' to 3' exonuclease, C-terminal subdomain	8032928	3000537	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PIN domain-like	8032931	3001041	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	ECH_1	e5um9A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Immunoglobulin-related	T: HAD-like	F: ECH_1	ECOD (v294.1)

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	PF00867	XPG I-region (XPG_I)	XPG I-region	-	Family
A	PF00752	XPG N-terminal domain (XPG_N)	XPG N-terminal domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth F]	DNA (5'-D(APCPCPGPTPCP*C)-3')	-	-	-
C [auth E]	DNA (5'-D(PTPCPTPTPGPAPGPGPCPAPGPAPGPT)-3')	-	-	-
B [auth D]	DNA (5'-D(APCPTPCPTPGPCPCPTPCPAPAPGPAPCPGPGPT)-3')	-	-	-
A	Flap endonuclease 1	5'-flap endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA nuclease activity DNA endonuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity flap endonuclease activity DNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity cation binding manganese ion binding 5'-flap endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA nuclease activity DNA endonuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity flap endonuclease activity DNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding 5'-3' exonuclease activity exonuclease activity DNA binding damaged DNA binding nucleic acid binding magnesium ion binding double-stranded DNA binding RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity RNA nuclease activity RNA endonuclease activity DNA exonuclease activity double-stranded DNA exodeoxyribonuclease activity DNA exonuclease activity, producing 5'-phosphomonoesters	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 behavior multicellular organismal process system process learning or memory nervous system process cognition memory positive regulation of organelle organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization positive regulation of biological process cellular component organization positive regulation of cell cycle process cellular component organization or biogenesis cell cycle regulation of cell cycle positive regulation of cellular process cell cycle process regulation of biological process regulation of cell cycle process biological regulation chromosome organization sister chromatid cohesion regulation of chromosome organization positive regulation of sister chromatid cohesion regulation of organelle organization positive regulation of cell cycle positive regulation of chromosome organization organelle organization regulation of sister chromatid cohesion response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV UV protection cellular response to stimulus double-strand break repair DNA recombination cellular response to stress DNA damage response response to stress recombinational repair double-strand break repair via homologous recombination DNA repair DNA-templated DNA replication nuclear DNA replication telomere organization cell cycle DNA replication telomere maintenance via semi-conservative replication telomere maintenance base-excision repair, gap-filling base-excision repair	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen membrane nucleoplasm protein-containing complex chromosome chromosome, telomeric region chromosomal region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR023426	Flap endonuclease 1	Family
A	IPR008918	Helix-hairpin-helix motif, class 2	Conserved Site
A	IPR019974	XPG conserved site	Conserved Site
A	IPR006084	XPG/Rad2 endonuclease	Family
A	IPR006086	XPG-I domain	Domain
A	IPR029060	PIN-like domain superfamily	Homologous Superfamily
A	IPR036279	5'-3' exonuclease, C-terminal domain superfamily	Homologous Superfamily
A	IPR006085	XPG, N-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P39748	colorectal cancer malignant colon neoplasm metabolic syndrome X non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma aortic stenosis rheumatoid arthritis breast cancer xeroderma pigmentosum group G colorectal carcinoma ductal breast carcinoma in situ gallbladder disease large cell medulloblastoma lung cancer malignant mesothelioma colorectal cancer malignant colon neoplasm metabolic syndrome X non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma aortic stenosis rheumatoid arthritis breast cancer xeroderma pigmentosum group G colorectal carcinoma ductal breast carcinoma in situ gallbladder disease large cell medulloblastoma lung cancer malignant mesothelioma nasal cavity disease osteosarcoma pancreatic intraductal papillary-mucinous neoplasm asthma subependymal giant cell astrocytoma colorectal adenoma Colorectal Neoplasms endogenous depression inflammatory bowel disease laryngeal squamous cell carcinoma lymphoplasmacytic lymphoma medulloblastoma nasopharyngeal carcinoma ovarian cancer psoriasis bipolar I disorder ulcerative colitis Crohn disease endometriosis invasive ductal breast carcinoma lung adenocarcinoma

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.