7JL5 | pdb_00007jl5

Crystal structure of human NEIL3 tandem zinc finger GRF domains

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	WHD_ROQ1	e7jl5A01	A: a/b three-layered sandwiches	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: WHD_ROQ1	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF06839	GRF zinc finger (Zn_ribbon_GRF)	GRF zinc finger	This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This ...	This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to Pfam:PF01396.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Endonuclease 8-like 3	protein-containing complex binding binding MCM complex binding DNA binding damaged DNA binding nucleic acid binding double-stranded DNA binding DNA-(apurinic or apyrimidinic site) endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid DNA nuclease activity DNA endonuclease activity catalytic activity, acting on DNA nuclease activity protein-containing complex binding binding MCM complex binding DNA binding damaged DNA binding nucleic acid binding double-stranded DNA binding DNA-(apurinic or apyrimidinic site) endonuclease activity endonuclease activity catalytic activity, acting on a nucleic acid DNA nuclease activity DNA endonuclease activity catalytic activity, acting on DNA nuclease activity class I DNA-(apurinic or apyrimidinic site) endonuclease activity lyase activity catalytic activity carbon-oxygen lyase activity hydrolase activity, acting on glycosyl bonds hydrolase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA secondary structure binding bubble DNA binding single-stranded DNA binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process base-excision repair DNA modification cellular response to stress DNA damage response depurination response to stress macromolecule modification metabolic process cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process base-excision repair DNA modification cellular response to stress DNA damage response depurination response to stress macromolecule modification metabolic process cellular process macromolecule metabolic process base-excision repair, AP site formation DNA repair interstrand cross-link repair single strand break repair	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR000214	Zinc finger, DNA glycosylase/AP lyase-type	Domain
A, B	IPR015887	DNA glycosylase/AP lyase, zinc finger domain, DNA-binding site	Binding Site
A, B	IPR012319	Formamidopyrimidine-DNA glycosylase, catalytic domain	Domain
A, B	IPR015886	Formamidopyrimidine-DNA glycosylase, H2TH DNA-binding	Domain
A, B	IPR010666	Zinc finger, GRF-type	Domain
A, B	IPR035937	Formamidopyrimidine-DNA glycosylase, N-terminal	Homologous Superfamily
A, B	IPR036443	Zinc finger, RanBP2-type superfamily	Homologous Superfamily
A, B	IPR001876	Zinc finger, RanBP2-type	Domain
A, B	IPR010979	Small ribosomal subunit protein uS13-like, H2TH	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q8TAT5	atypical teratoid rhabdoid tumor hepatocellular carcinoma large cell medulloblastoma malignant glioma ovarian cancer peripheral neuropathy breast cancer IgA glomerulonephritis lung adenocarcinoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor glioblastoma invasive ductal breast carcinoma lung cancer atypical teratoid rhabdoid tumor hepatocellular carcinoma large cell medulloblastoma malignant glioma ovarian cancer peripheral neuropathy breast cancer IgA glomerulonephritis lung adenocarcinoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor glioblastoma invasive ductal breast carcinoma lung cancer osteosarcoma peripheral nervous system disease psoriasis

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.