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Guidelines

MIRAGE

ubiquitin specific peptidase 4

Summary

Gene Symbol

USP4

Organism

Homo sapiens (human)

External Links

NCBI Gene

7375

PubChem

7375

Alliance of Genome Resources

HGNC:12627

JoGo

USP4

TogoVar

USP4

Annotation

Keyword

3D-structure
Alternative splicing
Cytoplasm
Metal-binding
Nucleus
Phosphoprotein
Proteomics identification
Proto-oncogene
Reference proteome
Repeat
Thiol protease
Ubl conjugation
Ubl conjugation pathway
Zinc

Proteins

Displaying **all 2** entries
UniProt	Protein Name
Q08AK7
Q13107	Deubiquitinating enzyme 4 Ubiquitin thioesterase 4 Ubiquitin-specific-processing protease 4 Ubiquitous nuclear protein homolog

Annotation information from UniProt.

Gene Ontology (GO)

Displaying entries **1 - 5** of 10 in total

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GO Term	Evidence Code	PMID
spliceosomal tri-snRNP complex assembly	IMP
proteolysis
protein deubiquitination	TAS
protein deubiquitination	IDA
protein deubiquitination	IMP

GO Hierarchy

biological process

cellular process [inference]

metabolic process [inference]

macromolecule metabolic process [inference]

protein metabolic process [inference]

proteolysis

protein modification process [inference]

post-translational protein modification [inference]

protein modification by small protein conjugation or removal [inference]

protein modification by small protein removal [inference]

protein deubiquitination

macromolecule modification [inference]

protein modification process [inference]

post-translational protein modification [inference]

protein modification by small protein conjugation or removal [inference]

protein modification by small protein removal [inference]

protein deubiquitination

primary metabolic process [inference]

protein metabolic process [inference]

proteolysis

protein modification process [inference]

post-translational protein modification [inference]

protein modification by small protein conjugation or removal [inference]

protein modification by small protein removal [inference]

protein deubiquitination

cellular component organization or biogenesis [inference]

cellular component organization [inference]

cellular component assembly [inference]

protein-containing complex assembly [inference]

protein-RNA complex assembly [inference]

spliceosomal snRNP assembly [inference]

spliceosomal tri-snRNP complex assembly

protein-containing complex organization [inference]

protein-containing complex assembly [inference]

protein-RNA complex assembly [inference]

spliceosomal snRNP assembly [inference]

spliceosomal tri-snRNP complex assembly

protein-RNA complex organization [inference]

protein-RNA complex assembly [inference]

spliceosomal snRNP assembly [inference]

spliceosomal tri-snRNP complex assembly

localization [inference]

macromolecule localization [inference]

intracellular protein localization [inference]

protein localization to cell surface

biological regulation [inference]

regulation of biological process [inference]

regulation of signaling [inference]

regulation of signal transduction [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of intracellular signal transduction [inference]

regulation of TOR signaling [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of TORC1 signaling [inference]

positive regulation of TORC1 signaling

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of signaling [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of biological process [inference]

positive regulation of signaling [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of cellular process [inference]

positive regulation of cell communication [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of response to stimulus [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

negative regulation of biological process [inference]

negative regulation of cellular process [inference]

negative regulation of metabolic process [inference]

negative regulation of macromolecule metabolic process [inference]

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of response to stimulus [inference]

regulation of signal transduction [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of intracellular signal transduction [inference]

regulation of TOR signaling [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of TORC1 signaling [inference]

positive regulation of TORC1 signaling

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of response to stimulus [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of cellular process [inference]

regulation of cell communication [inference]

regulation of signal transduction [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of intracellular signal transduction [inference]

regulation of TOR signaling [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of TORC1 signaling [inference]

positive regulation of TORC1 signaling

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

positive regulation of cell communication [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

regulation of metabolic process [inference]

negative regulation of metabolic process [inference]

negative regulation of macromolecule metabolic process [inference]

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of macromolecule metabolic process [inference]

negative regulation of macromolecule metabolic process [inference]

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of protein metabolic process [inference]

regulation of protein modification process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of post-translational protein modification [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of protein modification by small protein conjugation or removal [inference]

regulation of protein ubiquitination [inference]

negative regulation of protein ubiquitination

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of primary metabolic process [inference]

regulation of protein metabolic process [inference]

regulation of protein modification process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of post-translational protein modification [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of protein modification by small protein conjugation or removal [inference]

regulation of protein ubiquitination [inference]

negative regulation of protein ubiquitination

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

positive regulation of cellular process [inference]

positive regulation of cell communication [inference]

positive regulation of signal transduction [inference]

positive regulation of intracellular signal transduction [inference]

positive regulation of TOR signaling [inference]

positive regulation of TORC1 signaling

negative regulation of cellular process [inference]

negative regulation of metabolic process [inference]

negative regulation of macromolecule metabolic process [inference]

negative regulation of protein metabolic process [inference]

negative regulation of protein modification process [inference]

negative regulation of post-translational protein modification [inference]

negative regulation of protein modification by small protein conjugation or removal [inference]

negative regulation of protein ubiquitination

regulation of biological quality [inference]

regulation of protein stability

Displaying entries **1 - 5** of 10 in total

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GO Term	Evidence Code	PMID
nucleus	EXP
nucleus	IDA
nucleus	IBA
nucleus	IEA
nucleoplasm	IDA

GO Hierarchy

cellular component

cellular anatomical structure [inference]

organelle [inference]

membrane-bounded organelle [inference]

intracellular membrane-bounded organelle [inference]

nucleus

vacuole [inference]

lytic vacuole [inference]

lysosome

intracellular organelle [inference]

intracellular membrane-bounded organelle [inference]

nucleus

vacuole [inference]

lytic vacuole [inference]

lysosome

Displaying entries **1 - 5** of 8 in total

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GO Term	Evidence Code	PMID
cysteine-type deubiquitinase activity	EXP
cysteine-type deubiquitinase activity	TAS
cysteine-type deubiquitinase activity	IDA
cysteine-type deubiquitinase activity	IEA
protein binding	IPI

GO Hierarchy

molecular function

catalytic activity [inference]

hydrolase activity [inference]

peptidase activity [inference]

cysteine-type peptidase activity [inference]

cysteine-type deubiquitinase activity

ubiquitin-like protein peptidase activity [inference]

deubiquitinase activity [inference]

cysteine-type deubiquitinase activity

catalytic activity, acting on a protein [inference]

peptidase activity [inference]

cysteine-type peptidase activity [inference]

cysteine-type deubiquitinase activity

ubiquitin-like protein peptidase activity [inference]

deubiquitinase activity [inference]

cysteine-type deubiquitinase activity

binding [inference]

protein binding

signaling receptor binding [inference]

G protein-coupled receptor binding [inference]

adenosine receptor binding

identical protein binding

small molecule binding [inference]

ion binding [inference]

cation binding [inference]

metal ion binding

Gene Ontology information from NCBI Gene and UniProt.

OrthoDB (Group)

Group level

Eukaryota

Group Name

ubiquitin carboxyl-terminal hydrolase

Functional Category

E: Amino acid transport and metabolism
O: Posttranslational modification, protein turnover, chaperones
T: Signal transduction mechanisms

Displaying **all 2** entries
Gene Ontology
hydrolase activity
proteolysis

Displaying **all 5** entries
InterPro
Papain-like cysteine peptidase superfamily
Peptidase C19, ubiquitin carboxyl-terminal hydrolase
Peptidase C19, ubiquitin-specific peptidase, DUSP domain
Ubiquitin specific protease domain
Ubiquitin specific protease, conserved site

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Last updated: April 6, 2026