USP17L11

Summary

USP17L11 (ubiquitin specific peptidase 17 like family member 11, HGNC:44439) is a protein-coding gene on chromosome 4p16.1, encoding Ubiquitin carboxyl-terminal hydrolase 17-like protein 11 (C9JVI0). Deubiquitinating enzyme that removes conjugated ubiquitin from specific proteins to regulate different cellular processes that may include cell proliferation, progression through the cell cycle, apoptosis, cell migration, and the cellular response to viral infection.

Predicted to enable cysteine-type deubiquitinase activity. Predicted to be involved in regulation of apoptotic process and regulation of protein stability. Predicted to be located in endoplasmic reticulum. Predicted to be active in cytosol and nucleus.

Source: NCBI Gene 100287178 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_001256854

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:44439
Approved symbol	USP17L11
Name	ubiquitin specific peptidase 17 like family member 11
Location	4p16.1
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000233136
Ensembl biotype	protein_coding
Entrez	100287178

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000457736

RefSeq mRNA: 12 — MANE Select: NM_001256854 NM_001256854, NM_001421629, NM_001421630, NM_001421634, NM_001421688, NM_001421905, NM_001421913, NM_001421916, NM_001421920, NM_001421921, NM_001421923, NM_001421928

CCDS: CCDS59455

Canonical transcript exons

ENST00000457736 — 1 exons

Exon	Start	End
ENSE00001754283	9215405	9216997

Expression profiles

Bgee: expression breadth broad, 31 present calls, max score 39.86.

Top tissues by expression

110 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
cortical plate	UBERON:0005343	39.86	gold quality
ganglionic eminence	UBERON:0004023	38.77	gold quality
sural nerve	UBERON:0015488	37.45	gold quality
colonic epithelium	UBERON:0000397	37.20	gold quality
ventricular zone	UBERON:0003053	36.48	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
skeletal muscle tissue	UBERON:0001134	33.38	gold quality
superior frontal gyrus	UBERON:0002661	33.31	gold quality
bone marrow	UBERON:0002371	32.78	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
urinary bladder	UBERON:0001255	31.80	silver quality
primary visual cortex	UBERON:0002436	31.79	silver quality
monocyte	CL:0000576	31.10	silver quality
muscle tissue	UBERON:0002385	31.06	gold quality
leukocyte	CL:0000738	30.78	silver quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
prefrontal cortex	UBERON:0000451	29.81	gold quality
tonsil	UBERON:0002372	29.27	gold quality
nucleus accumbens	UBERON:0001882	28.62	gold quality
gall bladder	UBERON:0002110	28.36	gold quality
duodenum	UBERON:0002114	28.14	gold quality
islet of Langerhans	UBERON:0000006	27.60	gold quality
lymph node	UBERON:0000029	27.57	gold quality
blood	UBERON:0000178	27.33	gold quality
cerebral cortex	UBERON:0000956	26.93	silver quality
caudate nucleus	UBERON:0001873	26.87	silver quality
right frontal lobe	UBERON:0002810	26.64	silver quality
adrenal tissue	UBERON:0018303	26.63	gold quality
vermiform appendix	UBERON:0001154	26.42	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	26.32	silver quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.17

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Paralogs (71): USP2 (ENSG00000036672), USP28 (ENSG00000048028), USP36 (ENSG00000055483), USP13 (ENSG00000058056), USP33 (ENSG00000077254), USP40 (ENSG00000085982), USP48 (ENSG00000090686), USP14 (ENSG00000101557), USP11 (ENSG00000102226), USP10 (ENSG00000103194), USP31 (ENSG00000103404), USP42 (ENSG00000106346), USP5 (ENSG00000111667), USP4 (ENSG00000114316), USP9Y (ENSG00000114374), USP34 (ENSG00000115464), USP35 (ENSG00000118369), USP45 (ENSG00000123552), USP22 (ENSG00000124422), USP9X (ENSG00000124486), USP6 (ENSG00000129204), USP29 (ENSG00000131864), USP26 (ENSG00000134588), USP30 (ENSG00000135093), USP15 (ENSG00000135655), USP37 (ENSG00000135913), USP44 (ENSG00000136014), USP20 (ENSG00000136878), USP8 (ENSG00000138592), USP3 (ENSG00000140455), USP21 (ENSG00000143258), USP43 (ENSG00000154914), USP25 (ENSG00000155313), USP16 (ENSG00000156256), USP24 (ENSG00000162402), USP1 (ENSG00000162607), USP49 (ENSG00000164663), USP38 (ENSG00000170185), USP50 (ENSG00000170236), USP47 (ENSG00000170242)

Protein

Protein identifiers

Ubiquitin carboxyl-terminal hydrolase 17-like protein 11 — C9JVI0 (reviewed: C9JVI0)

All UniProt accessions (1): C9JVI0

UniProt curated annotations — full annotation on UniProt →

Function. Deubiquitinating enzyme that removes conjugated ubiquitin from specific proteins to regulate different cellular processes that may include cell proliferation, progression through the cell cycle, apoptosis, cell migration, and the cellular response to viral infection.

Subcellular location. Nucleus. Endoplasmic reticulum.

Similarity. Belongs to the peptidase C19 family. USP17 subfamily.

RefSeq proteins (12): NP_001243783, NP_001408558, NP_001408559, NP_001408563, NP_001408617, NP_001408834, NP_001408842, NP_001408845, NP_001408849, NP_001408850, NP_001408852, NP_001408857 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001394	Peptidase_C19_UCH	Domain
IPR018200	USP_CS	Conserved_site
IPR028889	USP	Domain
IPR038765	Papain-like_cys_pep_sf	Homologous_superfamily
IPR050164	Peptidase_C19	Family

Pfam: PF00443

UniProt features (9 total): compositionally biased region 3, region of interest 2, active site 2, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-C9JVI0-F1	68.53	0.45

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (2): 89 (nucleophile); 334 (proton acceptor)

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-5689880	Ub-specific processing proteases

MSigDB gene sets: 14 (showing top): GOBP_PROTEIN_MODIFICATION_BY_SMALL_PROTEIN_REMOVAL, GOMF_CYSTEINE_TYPE_PEPTIDASE_ACTIVITY, chr4p16, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, GOBP_REGULATION_OF_PROTEIN_STABILITY, GOBP_PROTEOLYSIS, GOMF_PEPTIDASE_ACTIVITY, GOMF_UBIQUITIN_LIKE_PROTEIN_PEPTIDASE_ACTIVITY, REACTOME_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, REACTOME_DEUBIQUITINATION, REACTOME_UB_SPECIFIC_PROCESSING_PROTEASES, GOBP_REGULATION_OF_PROGRAMMED_CELL_DEATH, GOBP_PROTEIN_MODIFICATION_PROCESS, GOMF_DEUBIQUITINASE_ACTIVITY

GO Biological Process (4): proteolysis (GO:0006508), protein deubiquitination (GO:0016579), regulation of protein stability (GO:0031647), regulation of apoptotic process (GO:0042981)

GO Molecular Function (4): cysteine-type deubiquitinase activity (GO:0004843), peptidase activity (GO:0008233), cysteine-type peptidase activity (GO:0008234), hydrolase activity (GO:0016787)

GO Cellular Component (3): nucleus (GO:0005634), endoplasmic reticulum (GO:0005783), cytosol (GO:0005829)

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
Deubiquitination	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
intracellular membrane-bounded organelle	2
cytoplasm	2
protein metabolic process	1
cysteine-type deubiquitinase activity	1
protein modification by small protein removal	1
regulation of biological quality	1
apoptotic process	1
regulation of programmed cell death	1
cysteine-type peptidase activity	1
deubiquitinase activity	1
hydrolase activity	1
catalytic activity, acting on a protein	1
peptidase activity	1
catalytic activity	1
endomembrane system	1
cellular anatomical structure	1

Protein interactions and networks

STRING

106 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
USP17L11	GOLGA6L9	A6NEM1	621
USP17L11	PRAMEF15	P0DUQ1	582
USP17L11	OR8K3	Q8NH51	530
USP17L11	LRRIQ3	A6PVS8	479
USP17L11	NBPF15	Q8N660	447
USP17L11	AHNAK2	Q8IVF2	415
USP17L11	ZNF717	Q9BY31	397
USP17L11	MEGF6	O75095	380
USP17L11	DNAH6	Q9C0G6	366
USP17L11	PABPC3	Q9H361	323
USP17L11	PRR19	A6NJB7	305
USP17L11	MUC19	Q7Z5P9	296
USP17L11	TMEM145	Q8NBT3	295
USP17L11	SH2D4B	Q5SQS7	295
USP17L11	DYDC1	Q8WWB3	289

IntAct

2 interactions, top by confidence:

A	B	Type	Score
M		psi-mi:“MI:0914”(association)	0.350

BioGRID (5): USP17L11 (Positive Genetic), USP17L11 (Affinity Capture-MS), USP17L11 (Affinity Capture-MS), USP17L11 (Affinity Capture-MS), USP17L11 (Affinity Capture-MS)

ESM2 similar proteins: A2A5N8, A6NCW0, A6NCW7, A8MUK1, B1AQJ2, B2RQC2, C9J2P7, C9JJH3, C9JLJ4, C9JPN9, C9JVI0, D3ZWK4, D6R901, D6R9N7, D6RA61, D6RBM5, D6RBQ6, D6RCP7, D6RJB6, E9Q9U0, G5E8G2, G5E8I7, O94966, P0C7H9, P0C7I0, P35125, P51784, Q0E2F9, Q0WX57, Q2TAC6, Q3UJD6, Q4KLL9, Q5R7G8, Q5TKR9, Q61068, Q66HE5, Q6J1Y9, Q6PFD6, Q6QN14, Q6R6M4

Diamond homologs: A1L1K8, A6NCW0, A6NCW7, A8MUK1, C9J2P7, C9JJH3, C9JLJ4, C9JPN9, C9JVI0, D6R901, D6R9N7, D6RA61, D6RBQ6, D6RCP7, D6RJB6, G1SW77, P0C7H9, P0C7I0, Q0WX57, Q5JVS0, Q5XJA5, Q6AXS5, Q6NRY1, Q6PB22, Q6R6M4, Q7RTZ2, Q8NC51, Q9CY58, Q9I9R0, Q9JKS5, A0JM59, A5PMR2, A5PN09, A6H8I0, A6NNY8, A6QNM7, A7Z056, B1AY13, B1WBD7, D3ZJ96

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

69 predictions. Top by Δscore:

Variant	Effect	Δscore
4:9216695:G:GT	donor_gain	0.5400
4:9216696:A:T	donor_gain	0.5200
4:9216678:TGGA:T	donor_gain	0.4900
4:9216769:CGAAG:C	donor_loss	0.4700
4:9216770:GAAGG:G	donor_loss	0.4700
4:9216771:AAGGT:A	donor_loss	0.4700
4:9216772:AGG:A	donor_loss	0.4700
4:9216773:GG:G	donor_loss	0.4700
4:9216774:GT:G	donor_loss	0.4700
4:9216775:T:A	donor_loss	0.4700
4:9216768:TCGAA:T	donor_loss	0.4400
4:9215519:G:GC	acceptor_gain	0.4200
4:9216776:A:C	donor_loss	0.4200
4:9216622:A:T	donor_gain	0.4000
4:9216768:TCGA:T	donor_gain	0.4000
4:9216503:GCC:G	donor_gain	0.3700
4:9215672:T:TA	acceptor_gain	0.3500
4:9215673:A:AA	acceptor_gain	0.3500
4:9216522:T:G	acceptor_gain	0.3500
4:9215612:C:CG	donor_gain	0.3400
4:9215612:C:G	donor_gain	0.3300
4:9216608:C:T	donor_gain	0.3300
4:9216679:GGAA:G	donor_gain	0.3300
4:9216148:A:T	donor_gain	0.3200
4:9216681:A:T	donor_gain	0.3200
4:9216742:G:GT	donor_gain	0.3100
4:9215599:G:GT	donor_gain	0.3000
4:9216521:A:AG	acceptor_gain	0.2900
4:9216548:A:AG	donor_gain	0.2900
4:9216549:G:GG	donor_gain	0.2900

AlphaMissense

3496 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
4:9216251:T:C	F283L	0.998
4:9216253:C:A	F283L	0.998
4:9216253:C:G	F283L	0.998
4:9216456:A:T	D351V	0.997
4:9216457:T:A	D351E	0.997
4:9216457:T:G	D351E	0.997
4:9215656:T:A	N84K	0.995
4:9215656:T:G	N84K	0.995
4:9216440:T:A	W346R	0.995
4:9216440:T:C	W346R	0.995
4:9216455:G:C	D351H	0.995
4:9216456:A:C	D351A	0.995
4:9215894:T:C	F164L	0.993
4:9215896:T:A	F164L	0.993
4:9215896:T:G	F164L	0.993
4:9216192:C:A	A263D	0.993
4:9216456:A:G	D351G	0.993
4:9216011:T:C	S203P	0.992
4:9216402:G:A	G333E	0.992
4:9216406:T:A	H334Q	0.992
4:9216406:T:G	H334Q	0.992
4:9215680:C:A	N92K	0.991
4:9215680:C:G	N92K	0.991
4:9215861:T:C	F153L	0.991
4:9215863:C:A	F153L	0.991
4:9215863:C:G	F153L	0.991
4:9215884:T:A	D160E	0.991
4:9215884:T:G	D160E	0.991
4:9216023:T:C	C207R	0.991
4:9216243:T:C	L280S	0.991

dbSNP variants (sampled 300 via entrez): RS1157175648 (4:9214848 C>A,T), RS1157368803 (4:9215471 T>C,G), RS1158158930 (4:9215162 G>C,T), RS1160304431 (4:9214651 C>A,G), RS1161433027 (4:9215431 A>T), RS1161816864 (4:9213463 C>T), RS1161839834 (4:9214898 C>A,T), RS1164990410 (4:9214515 T>C,G), RS1165191296 (4:9215057 G>C,T), RS1165237274 (4:9215236 T>A,G), RS1166154414 (4:9214977 A>G,T), RS1166992972 (4:9215304 G>A), RS1169288620 (4:9214776 T>G), RS1169932727 (4:9214508 G>A,T), RS1170049409 (4:9214983 A>ACC,ACT)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

1 total (human), top 1 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
2-methyl-4-isothiazolin-3-one	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.