8HFP

Crystal structure of the methyl-CpG-binding domain of SETDB2 in complex with the cysteine-rich domain of C11orf46 protein

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B [auth C]	PF01429	e8hfpC1	A: a+b two layers	X: DNA-binding domain	H: Methyl-CpG-binding domain, MBD (From Topology)	T: Methyl-CpG-binding domain, MBD	F: PF01429	ECOD (1.6)
D	PF01429	e8hfpD1	A: a+b two layers	X: DNA-binding domain	H: Methyl-CpG-binding domain, MBD (From Topology)	T: Methyl-CpG-binding domain, MBD	F: PF01429	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	ARL14 effector protein	-	-	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol anchoring junction cell junction focal adhesion cell-substrate junction membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol anchoring junction cell junction focal adhesion cell-substrate junction membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cell periphery plasma membrane membrane nucleoplasm
B [auth C], D	Histone-lysine N-methyltransferase SETDB2	protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups histone H3K9 methyltransferase activity transferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K9 monomethyltransferase activity histone methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups histone H3K9 methyltransferase activity transferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K9 monomethyltransferase activity histone methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity DNA binding binding organic cyclic compound binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process cell cycle mitotic cell cycle cell division chromosome segregation cell cycle process methylation developmental process multicellular organism development multicellular organismal process left/right axis specification anatomical structure development pattern specification process left/right pattern formation axis specification regionalization protein-DNA complex organization cellular component organization protein-containing complex organization chromatin organization heterochromatin organization cellular component organization or biogenesis positive regulation of organelle organization cellular component biogenesis regulation of heterochromatin formation regulation of chromatin organization regulation of DNA methylation-dependent heterochromatin formation regulation of chromosome organization regulation of organelle organization positive regulation of chromosome organization negative regulation of gene expression negative regulation of gene expression, epigenetic regulation of cellular component organization positive regulation of cellular component organization positive regulation of biological process positive regulation of DNA methylation-dependent heterochromatin formation positive regulation of heterochromatin formation DNA methylation-dependent heterochromatin formation positive regulation of chromatin organization chromatin remodeling positive regulation of cellular process heterochromatin formation positive regulation of cellular component biogenesis epigenetic regulation of gene expression chromosome organization regulation of cellular component biogenesis organelle organization facultative heterochromatin formation heart morphogenesis embryo development embryonic heart tube development tube morphogenesis embryonic heart tube morphogenesis heart looping determination of bilateral symmetry animal organ morphogenesis epithelial tube morphogenesis embryonic organ development determination of left/right symmetry system development specification of symmetry embryonic organ morphogenesis heart development epithelium development tube development animal organ development embryonic morphogenesis morphogenesis of an epithelium determination of heart left/right asymmetry tissue development circulatory system development anatomical structure morphogenesis tissue morphogenesis	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromosome non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR029264	ARF7 effector protein, C-terminal	Domain
A, C [auth B]	IPR026515	ARL14 effector protein	Family
B [auth C], D	IPR007728	Pre-SET domain	Domain
B [auth C], D	IPR046341	SET domain superfamily	Homologous Superfamily
B [auth C], D	IPR001214	SET domain	Domain
B [auth C], D	IPR047232	Histone-lysine N-methyltransferase SETDB1/2-like, methyl-CpG binding domains	Domain
B [auth C], D	IPR016177	DNA-binding domain superfamily	Homologous Superfamily
B [auth C], D	IPR001739	Methyl-CpG DNA binding	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C [auth B]	Pharos: Q8N8R7	intellectual disability ovarian cancer Mental deficiency polycystic ovary syndrome
B [auth C], D	Pharos: Q96T68	gastric cancer intellectual disability ovarian cancer gastric carcinoma large cell medulloblastoma pituitary cancer hepatocellular carcinoma osteosarcoma subependymal giant cell astrocytoma

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 R01GM133198.