Annotations: 7DUF

Crystal structure of VIM1 PHD finger.

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	HATPase_c	e7dufB1	A: alpha arrays	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: HATPase_c	ECOD (v295)
A	EGF_Teneurin	e7dufA1	A: alpha arrays	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: EGF_Teneurin	ECOD (v295)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	E3 ubiquitin-protein ligase ORTHRUS 2	protein binding binding histone binding DNA binding double-stranded DNA binding double-stranded methylated DNA binding nucleic acid binding chromatin binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity protein binding binding histone binding DNA binding double-stranded DNA binding double-stranded methylated DNA binding nucleic acid binding chromatin binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity nucleoside phosphate binding nucleotide binding methyl-CpNpG binding heterocyclic compound binding small molecule binding sequence-specific DNA binding methyl-CpG binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding methyl-CpNpN binding	regulation of cellular process negative regulation of biological process negative regulation of gene expression via chromosomal CpG island methylation cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process epigenetic regulation of gene expression negative regulation of metabolic process biological regulation regulation of cellular process negative regulation of biological process negative regulation of gene expression via chromosomal CpG island methylation cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process epigenetic regulation of gene expression negative regulation of metabolic process biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process cell division cellular component biogenesis cellular component assembly heterochromatin formation heterochromatin organization pericentric heterochromatin formation constitutive heterochromatin formation primary metabolic process protein ubiquitination macromolecule modification protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromocenter membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015947	PUA-like superfamily	Homologous Superfamily
A, B	IPR001965	Zinc finger, PHD-type	Domain
A, B	IPR003105	SRA-YDG	Domain
A, B	IPR019787	Zinc finger, PHD-finger	Domain
A, B	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A, B	IPR027370	Zinc finger, RING-type, eukaryotic	Domain
A, B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B	IPR047529	E3 ubiquitin-protein ligase ORTHRUS 1-5, second RING finger, HC subclass	Domain
A, B	IPR047498	E3 ubiquitin-protein ligase ORTHRUS 1/2-like, first RING finger, HC subclass	Domain
A, B	IPR045134	UHRF1/2-like	Family
A, B	IPR001841	Zinc finger, RING-type	Domain
A, B	IPR036987	SRA-YDG superfamily	Homologous Superfamily

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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.

7DUF | pdb_00007duf

Crystal structure of VIM1 PHD finger.

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage