Annotations: 5EXH

Crystal structure of mTET3-CXXC domain in complex with 5-carboxylcytosine DNA at 1.3 Angstroms resolution.

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2 Family	CXXC zinc-finger domain	8053019	4006601	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	CXXC zinc-finger domain	8053020	3002156	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	IBR_2	e5exhC1	A: a/b three-layered sandwiches	X: HhH/H2TH	H: Head and neck region of the ectodomain of paramyxoviruses fusion glycoprotein	T: Head and neck region of the ectodomain of paramyxoviruses fusion glycoprotein	F: IBR_2	ECOD (v294.1)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DNA (5'-D(GPAPAPTPCP(1CC)PGPGPAPTPTPC)-3')	-	-	-
C	Methylcytosine dioxygenase TET3	DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding methyl-CpG binding small molecule binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding oxidoreductase activity catalytic activity, acting on DNA oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen DNA 5-methylcytosine dioxygenase activity catalytic activity, acting on a nucleic acid catalytic activity 2-oxoglutarate-dependent dioxygenase activity dioxygenase activity	regulation of biosynthetic process epigenetic programming of gene expression regulation of biological process regulation of cellular process epigenetic programming in the zygotic pronuclei epigenetic regulation of gene expression epigenetic programing of male pronucleus biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization regulation of biosynthetic process epigenetic programming of gene expression regulation of biological process regulation of cellular process epigenetic programming in the zygotic pronuclei epigenetic regulation of gene expression epigenetic programing of male pronucleus biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization chromatin remodeling cellular process regulation of macromolecule biosynthetic process metabolic process cellular component organization or biogenesis macromolecule metabolic process regulation of metabolic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein O-linked glycosylation protein metabolic process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription positive regulation of gene expression via chromosomal CpG island demethylation positive regulation of gene expression, epigenetic transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation positive regulation of gene expression transcription initiation-coupled chromatin remodeling	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome membrane-bounded organelle female pronucleus nucleus pronucleus intracellular membrane-bounded organelle cytoplasm membrane-enclosed lumen intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome membrane-bounded organelle female pronucleus nucleus pronucleus intracellular membrane-bounded organelle cytoplasm membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen male pronucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR002857	Zinc finger, CXXC-type	Domain
C	IPR046942	Methylcytosine dioxygenase TET1-3, oxygenase domain	Domain
C	IPR024779	2OGFeDO JBP1/TET, oxygenase domain	Domain
C	IPR040175	Methylcytosine dioxygenase TET1/2/3	Family

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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.

5EXH | pdb_00005exh

Crystal structure of mTET3-CXXC domain in complex with 5-carboxylcytosine DNA at 1.3 Angstroms resolution.

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage