Protein interactions - USP15 - The Human Protein Atlas

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	USP15
Synonyms	KIAA0529, UNPH4
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin specific peptidase 15
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic proteins Plasma proteins
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.	Intracellular
Protein evidence	Evidence at protein level (all genes)

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression analysis and annotation data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Neutrophils - Innate immunity signal integration (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Cell type enhanced (Neutrophil progenitors, Neutrophils)
Tissue expression cluster (RNA)ⁱ The RNA data was used to cluster genes according to their expression across tissues. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Bone marrow - Innate immune response (mainly)
Tissue specificity (RNA)ⁱ The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected.	Tissue enhanced (Bone marrow)
Subcellular locationⁱ Main subcellular location based on data generated in the subcellular section of the Human Protein Atlas.	Localized to the Cytosol In addition localized to the Nucleoplasm, Nuclear bodies
Secretome annotationⁱ All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are: secreted into blood locally secreted or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes.	Not available

GENE INFORMATIONⁱ Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.
Chromosome	12
Cytoband	q14.1
Chromosome location (bp)	62260338 - 62417431
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8
Ensembl	ENSG00000135655 (version 109)
Entrez gene	9958
HGNC	HGNC:12613
UniProt	Q9Y4E8
GeneCards	USP15

ASSAYSⁱ

Interaction

Metabolic

INTERACTIONⁱ

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e.g. Brain enriched, Localized to mitochondria, Bone marrow - Innate immune response

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Cluster

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Consensus

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Interaction:

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Number of interactions:

Interaction	# Consensus	# IntAct	# BioGrid	# OpenCell	# BioPlex
CARD9	3	52	8	0	0
PSMD6	38	30	57	29	13
SPDL1	1	6	5	1	0
SYVN1	10	8	51	5	0
TRIM21	3	24	107	0	0

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View all protein interaction data in IntAct

Interaction	# Consensus	# IntAct	# BioGrid	# OpenCell	# BioPlex
CARD9	3	52	8	0	0
CCDC57	1	32	2	0	0
INCA1	9	205	10	0	0
MAD1L1	5	38	12	0	6
PLK1	35	51	218	5	10
SPDL1	1	6	5	1	0
SYVN1	10	8	51	5	0
TIFAB	0	2	0	0	0
TRIM21	3	24	107	0	0
URM1	1	4	1	0	0

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Predicted location

Cell type specificity

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Number of interactions:

Interaction	# Consensus	# IntAct	# BioGrid	# OpenCell	# BioPlex
ADSL	0	0	5	1	0
AKAP7	3	1	10	3	0
BMI1	14	18	88	0	5
BMPR1A	3	3	20	0	21
BRAP	3	5	14	0	1
CARD9	3	52	8	0	0
CASP6	1	122	5	0	2
CDC73	15	31	44	10	5
COPS7A	12	3	39	2	14
CTNNB1	47	85	285	13	13
CUL3	40	45	771	2	0
CUL4B	6	11	169	4	0
ECHS1	2	3	15	0	4
EIF4A1	14	7	42	40	2
FHL1	3	4	26	1	0
FUS	14	28	150	6	0
GLUL	1	2	7	11	28
GOLGA2	21	350	58	11	0
H2BC21	15	31	91	0	0
HAPSTR1	1	2	33	0	0
HECTD1	2	1	92	2	4
HUWE1	5	5	209	2	0
IL1R2	0	2	1	0	17
IRS2	8	8	20	0	0
KIF15	2	1	9	0	1
KPNA2	31	37	85	43	7
LSM2	13	29	30	0	6
LSM4	21	15	30	18	18
LSM6	17	14	18	15	24
LSM8	10	14	13	1	5
MDC1	7	7	73	0	0
MEPCE	22	0	149	13	16
MYH10	2	2	37	5	0
NOTCH1	7	11	70	0	19
OSBPL3	7	22	12	7	0
PARP1	80	28	281	158	1
PHB2	2	4	81	2	1
PPIH	5	11	11	14	1
PPP4R3A	2	1	15	13	0
PRKN	11	11	1405	0	0
PRPF3	33	37	57	26	21
PRPF31	11	118	57	0	0
PRPF4	21	8	45	21	0
PSMD14	13	9	101	3	8
PSMD6	38	30	57	29	13
PSMD7	23	11	54	20	16
RIGI	4	8	35	0	0
RMDN3	6	24	19	4	0
RNF20	6	13	33	3	3
RNF213	0	1	11	1	0
RNF26	4	5	19	0	0
RNF40	10	10	26	39	0
RPL10A	23	6	94	39	58
SARS2	1	1	5	0	4
SART3	21	14	60	12	12
SERPINB4	2	3	4	0	36
SMAD1	9	14	38	0	0
SMAD2	17	23	69	0	0
SMAD3	28	52	128	0	2
SMAD4	22	74	71	0	16
SMAD6	1	2	16	0	0
SMAD7	5	7	46	0	0
SMURF2	9	12	59	0	4
SPAG9	3	4	13	2	0
SPDL1	1	6	5	1	0
STK33	0	0	7	0	1
SYVN1	10	8	51	5	0
TBK1	22	30	74	1	14
TGFBR1	2	3	43	1	0
TRAF6	31	60	155	0	3
TRIM21	3	24	107	0	0
TRIM25	3	3	190	0	0
TRIM27	20	235	63	0	0
TUBA1A	12	9	90	0	121
TUT1	2	2	7	3	11
UBC	35	59	463	4	0
UBE2S	1	2	24	0	3
USP11	5	7	95	0	2
USP14	8	1	76	9	0
USP4	1	2	35	0	0
USP7	28	28	212	7	11
VCP	57	56	348	43	5
WWP2	18	52	140	1	1
XDH	0	0	2	0	1
YAP1	31	32	304	10	0
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Predicted location

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Number of interactions:

Interaction	# Consensus	# IntAct	# BioGrid	# OpenCell	# BioPlex
PSMD12	41	9	60	47	20
PSMD6	38	30	57	29	13
SEM1	14	12	33	50	0

METABOLIC SUMMARYⁱ In this summary the pathway/subsystems to which the gene belongs is shown together with the associated cellular compartment for the reactions based on metabolite information. The number of proteins and metabolites in the pathway is shown as well as the number of reactions for the selected gene. By clicking on a pathway in the summary table the associated metabolic network map is shown, together with a gene-tissue heatmap that shows the expression of genes in that pathway in different tissues.
Gene USP15 is associated with 1 reactions in 1 different subsystems, and present in the compartments: Cytosol. Provided by metabolicatlas.org
Pathway / Subsystem	Subsystem-associated compartments	# proteins	# metabolites	# reactions for this protein
Isolated	Cytosol, Mitochondria, Peroxisome, Endoplasmic reticulum, Extracellular, Nucleus, Golgi apparatus	524	320	1

PROTEIN INFORMATIONⁱ The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database. The Splice variant identifier links to the Ensembl website protein summary for the selected splice variant. The data in the Swissprot and TrEMBL columns links to corresponding pages in the UniProt database. The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide and number of predicted transmembrane region(s) according to in-house majority decision methods based on sets of predictors are also reported.
Splice variant	SwissProt	TrEMBL	Protein class	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
USP15-201	Q9Y4E8		Enzymes Metabolic proteins Predicted intracellular proteins Plasma proteins Mapped to neXtProt Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014) Show all	981 aa 112.4 kDa	No	0
USP15-202	Q9Y4E8		Enzymes Metabolic proteins Predicted intracellular proteins Plasma proteins Mapped to neXtProt Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014) Show all	235 aa 27.1 kDa	No	0
USP15-203	Q9Y4E8		Enzymes Metabolic proteins Predicted intracellular proteins Plasma proteins Mapped to neXtProt Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014) Show all	952 aa 109.3 kDa	No	0
USP15-205		F8VVY7	Metabolic proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)	106 aa 12.3 kDa	No	0
USP15-210		F8VZG8	Metabolic proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)	139 aa 16.1 kDa	No	0
USP15-212		H0YI31	Metabolic proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)	240 aa 27.6 kDa	No	0
USP15-214		H0YI26	Metabolic proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)	157 aa 18.2 kDa	No	0
USP15-215		F8W0H4	Metabolic proteins Predicted intracellular proteins Protein evidence (Ezkurdia et al 2014)	175 aa 20.1 kDa	No	0
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