Annotations: 4Z97

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF12436	e4z97A4	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF12436	ECOD (1.6)
A	PF14533	e4z97A3	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF14533	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF14533	Ubiquitin-specific protease C-terminal (USP7_C2)	Ubiquitin-specific protease C-terminal	-	Family
A	PF12436	ICP0-binding domain of Ubiquitin-specific protease 7 (USP7_ICP0_bdg)	ICP0-binding domain of Ubiquitin-specific protease 7	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ubiquitin carboxyl-terminal hydrolase 7	p53 binding protein binding binding ubiquitin-like protein peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity K48-linked deubiquitinase activity catalytic activity deubiquitinase activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity cysteine-type deubiquitinase activity	regulation of cellular process cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of cellular process cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression regulation of molecular function biosynthetic process regulation of DNA-binding transcription factor activity organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process regulation of protein stability regulation of biological quality protein stabilization negative regulation of biological process negative regulation of gene expression via chromosomal CpG island methylation negative regulation of cellular metabolic process protein-DNA complex organization cellular component organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process protein-containing complex organization epigenetic regulation of gene expression negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic rhythmic process circadian rhythm regulation of circadian rhythm regulation of localization cellular localization regulation of transport transport intracellular transport regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport endosomal transport localization regulation of cellular localization cytosolic transport establishment of localization in cell retrograde transport, endosome to Golgi regulation of retrograde transport, endosome to Golgi regulation of intracellular transport positive regulation of DNA demethylation positive regulation of biological process positive regulation of metabolic process DNA modification regulation of DNA demethylation positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process DNA metabolic process positive regulation of DNA metabolic process DNA demethylation DNA dealkylation macromolecule modification demethylation regulation of DNA metabolic process organonitrogen compound metabolic process protein ubiquitination protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal protein deubiquitination monoubiquitinated protein deubiquitination protein modification by small protein removal cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair negative regulation of DNA-binding transcription factor activity negative regulation of NF-kappaB transcription factor activity negative regulation of molecular function catabolic process negative regulation of proteolysis negative regulation of proteolysis involved in protein catabolic process proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process negative regulation of protein catabolic process regulation of proteolysis involved in protein catabolic process regulation of proteolysis modification-dependent macromolecule catabolic process proteolysis negative regulation of protein metabolic process negative regulation of ubiquitin-dependent protein catabolic process organonitrogen compound catabolic process negative regulation of catabolic process negative regulation of proteasomal ubiquitin-dependent protein catabolic process regulation of protein metabolic process proteasomal protein catabolic process protein catabolic process regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process negative regulation of proteasomal protein catabolic process regulation of proteasomal protein catabolic process ubiquitin-dependent protein catabolic process organic substance catabolic process regulation of protein catabolic process symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms symbiont-mediated disruption of host cell PML body symbiont-mediated disruption of host cellular anatomical entity disruption of anatomical structure in another organism regulation of telomere maintenance regulation of cellular component organization telomere organization chromosome organization regulation of chromosome organization regulation of organelle organization telomere maintenance organelle organization telomere capping regulation of telomere capping signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication negative regulation of TORC1 signaling regulation of intracellular signal transduction negative regulation of TOR signaling signal transduction regulation of TORC1 signaling TOR signaling regulation of signaling regulation of TOR signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication TORC1 signaling monosaccharide metabolic process negative regulation of small molecule metabolic process gluconeogenesis negative regulation of gluconeogenesis regulation of small molecule metabolic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process negative regulation of carbohydrate metabolic process carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process hexose biosynthetic process regulation of gluconeogenesis regulation of carbohydrate biosynthetic process glucose metabolic process signal transduction by p53 class mediator regulation of signal transduction by p53 class mediator	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 protein-containing complex intracellular non-membrane-bounded organelle chromosome non-membrane-bounded organelle nuclear body PML body
B [auth C]	DNA (cytosine-5)-methyltransferase 1	DNA-methyltransferase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding protein-containing complex binding chromatin binding promoter-specific chromatin binding DNA-methyltransferase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding protein-containing complex binding chromatin binding promoter-specific chromatin binding DNA binding DNA (cytosine-5-)-methyltransferase activity S-adenosylmethionine-dependent methyltransferase activity 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	regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of gene expression via chromosomal CpG island methylation negative regulation of cellular metabolic process protein-DNA complex organization cellular component organization organic substance metabolic process chromatin organization organic substance biosynthetic process negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of gene expression via chromosomal CpG island methylation negative regulation of cellular metabolic process protein-DNA complex organization cellular component organization organic substance metabolic process chromatin organization organic substance biosynthetic process 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 protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular 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 positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of gene expression positive regulation of cellular biosynthetic process regulation of vascular associated smooth muscle cell proliferation cell population proliferation positive regulation of vascular associated smooth muscle cell proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation vascular associated smooth muscle cell proliferation negative regulation of phenotypic switching multicellular organismal process smooth muscle cell differentiation cellular developmental process regulation of developmental process regulation of smooth muscle cell differentiation regulation of cell differentiation negative regulation of muscle cell differentiation muscle cell differentiation muscle structure development regulation of cell differentiation involved in phenotypic switching multicellular organism development vascular associated smooth muscle cell differentiation cell differentiation involved in phenotypic switching regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching cell differentiation anatomical structure development negative regulation of cell differentiation system development developmental process negative regulation of developmental process vascular associated smooth muscle cell differentiation involved in phenotypic switching reversible differentiation negative regulation of vascular associated smooth muscle cell differentiation regulation of vascular associated smooth muscle cell differentiation negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching phenotypic switching vasculature development circulatory system development negative regulation of smooth muscle cell differentiation regulation of muscle cell differentiation regulation of phenotypic switching negative regulation of cell differentiation involved in phenotypic switching RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription organic cyclic compound metabolic process nucleic acid biosynthetic process organic cyclic compound biosynthetic process DNA methylation-dependent heterochromatin formation heterochromatin formation facultative heterochromatin formation epigenetic programming of gene expression cellular response to bisphenol A cellular response to stimulus response to organic substance response to stimulus cellular response to organic cyclic compound response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical cellular response to organic substance response to organic cyclic compound response to bisphenol A muscle cell apoptotic process smooth muscle cell apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of muscle cell apoptotic process regulation of programmed cell death cell death regulation of smooth muscle cell apoptotic process negative regulation of vascular associated smooth muscle cell apoptotic process vascular associated smooth muscle cell apoptotic process negative regulation of smooth muscle cell apoptotic process negative regulation of apoptotic process negative regulation of muscle cell apoptotic process regulation of vascular associated smooth muscle cell apoptotic process apoptotic process programmed cell death cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid regulation of primary metabolic process negative regulation of RNA biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of RNA biosynthetic process	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 protein-containing complex pericentric heterochromatin 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 protein-containing complex pericentric heterochromatin protein-DNA complex chromatin chromosome heterochromatin chromosomal region intracellular non-membrane-bounded organelle chromosome, centromeric region non-membrane-bounded organelle replication fork germ cell nucleus female germ cell nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR028889	Ubiquitin specific protease domain	Domain
A	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
A	IPR024729	Ubiquitin carboxyl-terminal hydrolase 7, ICP0-binding domain	Domain
A	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A	IPR002083	MATH/TRAF domain	Domain
A	IPR029346	Ubiquitin carboxyl-terminal hydrolase, C-terminal	Domain
A	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
A	IPR008974	TRAF-like	Homologous Superfamily
B [auth C]	IPR001025	Bromo adjacent homology (BAH) domain	Domain
B [auth C]	IPR018117	DNA methylase, C-5 cytosine-specific, active site	Active Site
B [auth C]	IPR002857	Zinc finger, CXXC-type	Domain
B [auth C]	IPR022702	DNA (cytosine-5)-methyltransferase 1, replication foci domain	Domain
B [auth C]	IPR031303	DNA methylase, C-5 cytosine-specific, conserved site	Conserved Site
B [auth C]	IPR017198	DNA (cytosine-5)-methyltransferase 1-like	Family
B [auth C]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
B [auth C]	IPR010506	DMAP1-binding domain	Domain
B [auth C]	IPR043151	Bromo adjacent homology (BAH) domain superfamily	Homologous Superfamily
B [auth C]	IPR001525	C-5 cytosine methyltransferase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q93009	urinary bladder cancer prostate cancer Hao-Fountain syndrome Prostatic Neoplasms intellectual disability urinary bladder neoplasm
B [auth C]	Pharos: P26358	hereditary sensory neuropathy-deafness-dementia syndrome medulloblastoma tubular adenocarcinoma carcinoma melanotic medulloblastoma hearing loss disorder prostate cancer hereditary sensory and autonomic neuropathy type 4 sarcomatoid carcinoma breast carcinoma malignant colon neoplasm Charcot-Marie-Tooth disease Clear-cell metastatic renal cell carcinoma adenocarcinoma prostate intraepithelial neoplasia hereditary sensory neuropathy-deafness-dementia syndrome medulloblastoma tubular adenocarcinoma carcinoma melanotic medulloblastoma hearing loss disorder prostate cancer hereditary sensory and autonomic neuropathy type 4 sarcomatoid carcinoma breast carcinoma malignant colon neoplasm Charcot-Marie-Tooth disease Clear-cell metastatic renal cell carcinoma adenocarcinoma prostate intraepithelial neoplasia childhood medulloblastoma dementia medullomyoblastoma with myogenic differentiation adult medulloblastoma granular cell carcinoma peripheral neuropathy asthma autosomal dominant cerebellar ataxia, deafness and narcolepsy breast cancer invasive ductal breast carcinoma lymphoplasmacytic lymphoma chronic myelomonocytic leukemia acute myeloid leukemia cribriform carcinoma dermatomyositis gastric cancer myopathy pancreatic intraductal papillary-mucinous neoplasm hereditary sensory and autonomic neuropathy psoriasis astrocytic tumor benign colon neoplasm juvenile dermatomyositis ulcerative colitis cribriform carcinoma of breast desmoplastic/nodular medulloblastoma adrenal cortex carcinoma gastric neoplasm anxiety disorder hematologic disease peripheral nervous system disease hereditary sensory and autonomic neuropathy type 1 hereditary sensory and autonomic neuropathy type 5 rheumatoid arthritis schizophrenia bipolar disorder intellectual disability sensory peripheral neuropathy cancer Kleine-Levin syndrome undifferentiated carcinoma malignant mesothelioma colonic neoplasm myelodysplastic syndrome ovarian cancer hereditary diffuse gastric adenocarcinoma hereditary sensory and autonomic neuropathy type 2 Riley-Day syndrome

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.