Annotations: 9YCW

Crystal structure of USP16 ZnF-UBP domain

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)
C	ClpB_D2-small	e9ycwC1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: ClpB_D2-small	ECOD (v295.2)
A	TrkA_N	e9ycwA1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: TrkA_N	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF02148	Zn-finger in ubiquitin-hydrolases and other protein (zf-UBP)	Zn-finger in ubiquitin-hydrolases and other protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Ubiquitin carboxyl-terminal hydrolase 16	protein binding binding histone binding cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity transcription coactivator activity transcription regulator activity transcription coregulator activity ubiquitin binding protein binding binding histone binding cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity transcription coactivator activity transcription regulator activity transcription coregulator activity ubiquitin binding ubiquitin-like protein binding ubiquitin-like protein peptidase activity cysteine-type deubiquitinase activity deubiquitinase activity histone H2A deubiquitinase activity histone deubiquitinase activity histone modifying activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding ribonucleoprotein complex binding protein-containing complex binding ribosomal small subunit binding ribosome binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process mitotic nuclear division organelle fission mitotic cell cycle cellular component organization nuclear division organelle organization mitotic cell cycle process cell cycle cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process mitotic nuclear division organelle fission mitotic cell cycle cellular component organization nuclear division organelle organization mitotic cell cycle process cell cycle cellular component organization or biogenesis cell cycle process cell division protein-containing complex organization protein homotetramerization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization protein deubiquitination primary metabolic process monoubiquitinated protein deubiquitination protein modification by small protein removal macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation or removal RNA metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process regulation of cellular process positive regulation of protein metabolic process positive regulation of biological process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process regulation of translational elongation positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process translation regulation of gene expression positive regulation of translational elongation positive regulation of gene expression regulation of translation translational elongation regulation of macromolecule biosynthetic process regulation of metabolic process positive regulation of DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription ribonucleoprotein complex biogenesis positive regulation of cellular component biogenesis regulation of ribosome biogenesis regulation of cellular component biogenesis ribosome biogenesis positive regulation of ribosome biogenesis transcription by RNA polymerase II regulation of transcription by RNA polymerase II regulation of cell cycle proteolysis positive regulation of transcription by RNA polymerase II	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR001607	Zinc finger, UBP-type	Domain
A, B, C	IPR018200	Ubiquitin specific protease, conserved site	Conserved Site
A, B, C	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A, B, C	IPR050164	Ubiquitin carboxyl-terminal hydrolases	Family
A, B, C	IPR030849	Ubiquitin carboxyl-terminal hydrolase 16	Family
A, B, C	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C	IPR001394	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Domain
A, B, C	IPR028889	Ubiquitin specific protease USP, catalytic domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	: Q9Y5T5	Down syndrome Becker muscular dystrophy juvenile dermatomyositis pancreatic ductal adenocarcinoma dermatomyositis osteosarcoma plasma cell myeloma ovarian cancer progressive supranuclear palsy

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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.