7UVA

Crystal structure of KDM2A histone demethylase catalytic domain in complex with an H3C36 peptide modified by UNC8015

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	JmjC_1	e7uvaA1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: JmjC_1	ECOD (1.6)
A	KOG1633_1	e7uvaA2	A: alpha bundles	X: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	H: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	T: C-terminal helical domain in Jumonji domain-containing histone demethylases	F: KOG1633_1	ECOD (1.6)
D	JmjC_1	e7uvaD2	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: JmjC_1	ECOD (1.6)
D	KOG1633_1	e7uvaD1	A: alpha bundles	X: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	H: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	T: C-terminal helical domain in Jumonji domain-containing histone demethylases	F: KOG1633_1	ECOD (1.6)
B	KOG1633_1	e7uvaB1	A: alpha bundles	X: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	H: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	T: C-terminal helical domain in Jumonji domain-containing histone demethylases	F: KOG1633_1	ECOD (1.6)
E	KOG1633_1	e7uvaE1	A: alpha bundles	X: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	H: C-terminal helical domain in Jumonji domain-containing histone demethylases (From Topology)	T: C-terminal helical domain in Jumonji domain-containing histone demethylases	F: KOG1633_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF17811	Jumonji helical domain (JHD)	Jumonji helical domain	This 4-helix bundle domain is associated with the Jumonji domain Pfam:PF02373 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	Lysine-specific demethylase 2A	histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity histone H3K36me/H3K36me2 demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity histone modifying activity catalytic activity 2-oxoglutarate-dependent dioxygenase activity transcription regulator activity histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity histone H3K36me/H3K36me2 demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity histone modifying activity catalytic activity 2-oxoglutarate-dependent dioxygenase activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity sequence-specific DNA binding DNA binding binding organic cyclic compound binding unmethylated CpG 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 cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of gene expression, epigenetic cellular component organization RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of cellular process cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of gene expression, epigenetic cellular component organization RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process chromatin organization chromatin remodeling positive regulation of macromolecule metabolic process cellular component organization or biogenesis positive regulation of cellular process transcription initiation at RNA polymerase II promoter regulation of biosynthetic process regulation of biological process epigenetic regulation of gene expression cellular metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression transcription initiation-coupled chromatin remodeling regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process rhythmic process circadian rhythm regulation of circadian rhythm negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death developmental process multicellular organismal process cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation anatomical structure development system development circadian regulation of gene expression embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development embryonic epithelial tube formation tube formation epithelial tube formation tube morphogenesis primary neural tube formation epithelial tube morphogenesis morphogenesis of embryonic epithelium epithelium development neural tube development tube development embryonic morphogenesis morphogenesis of an epithelium tissue development anatomical structure morphogenesis tissue morphogenesis neural tube closure neural tube formation anatomical structure formation involved in morphogenesis tube closure negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of transcription by competitive promoter binding negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of transcription by RNA polymerase II negative regulation of gene expression multicellular organism growth developmental growth growth neuroepithelial cell differentiation columnar/cuboidal epithelial cell differentiation epithelial cell differentiation heart morphogenesis pattern specification process embryonic heart tube development embryonic heart tube morphogenesis heart looping determination of bilateral symmetry animal organ morphogenesis embryonic organ development determination of left/right symmetry specification of symmetry embryonic organ morphogenesis heart development animal organ development determination of heart left/right asymmetry regionalization circulatory system development left/right pattern formation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle
B, E	Lysine-specific demethylase 2A	histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity histone H3K36me/H3K36me2 demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity histone modifying activity catalytic activity 2-oxoglutarate-dependent dioxygenase activity transcription regulator activity histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity histone H3K36me/H3K36me2 demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity histone modifying activity catalytic activity 2-oxoglutarate-dependent dioxygenase activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity sequence-specific DNA binding DNA binding binding organic cyclic compound binding unmethylated CpG 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 cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of gene expression, epigenetic cellular component organization RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of cellular process cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of gene expression, epigenetic cellular component organization RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process chromatin organization chromatin remodeling positive regulation of macromolecule metabolic process cellular component organization or biogenesis positive regulation of cellular process transcription initiation at RNA polymerase II promoter regulation of biosynthetic process regulation of biological process epigenetic regulation of gene expression cellular metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression transcription initiation-coupled chromatin remodeling regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process rhythmic process circadian rhythm regulation of circadian rhythm negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death developmental process multicellular organismal process cellular developmental process nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation anatomical structure development system development circadian regulation of gene expression embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development embryonic epithelial tube formation tube formation epithelial tube formation tube morphogenesis primary neural tube formation epithelial tube morphogenesis morphogenesis of embryonic epithelium epithelium development neural tube development tube development embryonic morphogenesis morphogenesis of an epithelium tissue development anatomical structure morphogenesis tissue morphogenesis neural tube closure neural tube formation anatomical structure formation involved in morphogenesis tube closure negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of transcription by competitive promoter binding negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of transcription by RNA polymerase II negative regulation of gene expression multicellular organism growth developmental growth growth neuroepithelial cell differentiation columnar/cuboidal epithelial cell differentiation epithelial cell differentiation heart morphogenesis pattern specification process embryonic heart tube development embryonic heart tube morphogenesis heart looping determination of bilateral symmetry animal organ morphogenesis embryonic organ development determination of left/right symmetry specification of symmetry embryonic organ morphogenesis heart development animal organ development determination of heart left/right asymmetry regionalization circulatory system development left/right pattern formation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle
C, F	Histone H3.2	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization	extracellular region cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome extracellular region cellular anatomical entity extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome chromatin chromosome intracellular organelle intracellular non-membrane-bounded organelle non-membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR001965	Zinc finger, PHD-type	Domain
A, D	IPR001810	F-box domain	Domain
A, D	IPR003347	JmjC domain	Domain
A, D	IPR041070	Jumonji, helical domain	Domain
A, D	IPR002857	Zinc finger, CXXC-type	Domain
A, D	IPR019787	Zinc finger, PHD-finger	Domain
A, D	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, D	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, D	IPR050690	JHDM1 Histone Demethylase	Family
A, D	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, D	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, D	IPR006553	Leucine-rich repeat, cysteine-containing subtype	Repeat
B, E	IPR001965	Zinc finger, PHD-type	Domain
B, E	IPR001810	F-box domain	Domain
B, E	IPR003347	JmjC domain	Domain
B, E	IPR041070	Jumonji, helical domain	Domain
B, E	IPR002857	Zinc finger, CXXC-type	Domain
B, E	IPR019787	Zinc finger, PHD-finger	Domain
B, E	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
B, E	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
B, E	IPR050690	JHDM1 Histone Demethylase	Family
B, E	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
B, E	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
B, E	IPR006553	Leucine-rich repeat, cysteine-containing subtype	Repeat
C, F	IPR009072	Histone-fold	Homologous Superfamily
C, F	IPR007125	Histone H2A/H2B/H3	Domain
C, F	IPR000164	Histone H3/CENP-A	Family