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VCP
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  • VCP
PROTEIN STRUCTURE
ANTIBODIES
AND
VALIDATION
Protein structures
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.

VCP
Synonyms CDC48, IBMPFD, p97, TERA
Gene descriptioni

Full gene name according to HGNC.

Valosin containing protein
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Read more
Disease related genes
Enzymes
Human disease related genes
Plasma proteins
Potential drug targets
Transporters
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.

Read more
Intracellular
Protein evidence Evidence at protein level (all genes)
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 9
Cytoband p13.3
Chromosome location (bp) 35053928 - 35072668
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

15
Ensembl ENSG00000165280 (version 103.38)
Entrez gene 7415
HGNC HGNC:12666
UniProt P55072 (UniProt - Evidence at protein level)
neXtProt NX_P55072
Antibodypedia VCP antibodies


PROTEIN STRUCTUREi

The Structure section provides predicted structures from the Alphafold protein structure database and available experimental structures from Protein Data Bank (PDB).

In the Structure drop-down menu all experimental structures from PDB are available for selection and display. The structures are displayed using the NGL Viewer and can be zoomed-in and rotated either manually or by checking the Autorotate box. The Color scheme can be selected to show the residue index, chain name or confidence score (as B-factors and pLDDT score for experimental and predicted structures, respectively). The positions for available antigen sequences in the structure are shown if Antigens is turned to ON, and the Variants slider can be used to show the positions of clinical and population variants.https://github.com/nglviewer/ngl

Read more

Predicted


Description: Structure prediction from Alphafold project. Structure version 2

# Chains: 1      # Clinical variants: 20      # Population variants: 155

Experimental

Description: Cryo-EM structure of human p97 bound to UPCDC30245 inhibitor (Electron microscopy)

# Chains: 1      # Clinical variants: 20      # Population variants: 155

Antigens:

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On

Variants:

Off
Clinical
Population

Color scheme:

Confidence
Residue index
Chain name

Autorotate:

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On



PROTEIN BROWSERi

The protein browser displays the antigen location on the target protein(s) and the features of the target protein. The tabs at the top of the protein view section can be used to switch between the different splice variants to which an antigen has been mapped.

At the top of the view, the position of the antigen (identified by the corresponding HPA identifier) is shown as a green bar. A yellow triangle on the bar indicates a <100% sequence identity to the protein target.

Below the antigens, the maximum percent sequence identity of the protein to all other proteins from other human genes is displayed, using a sliding window of 10 aa residues (HsID 10) or 50 aa residues (HsID 50). The region with the lowest possible identity is always selected for antigen design, with a maximum identity of 60% allowed for designing a single-target antigen (read more).

The curve in blue displays the predicted antigenicity i.e. the tendency for different regions of the protein to generate an immune response, with peak regions being predicted to be more antigenic.The curve shows average values based on a sliding window approach using an in-house propensity scale. (read more).

If a signal peptide is predicted by a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius (turquoise) and/or transmembrane regions (orange) are predicted by MDM, these are displayed.

Low complexity regions are shown in yellow and InterPro regions in green. Common (purple) and unique (grey) regions between different splice variants of the gene are also displayed (read more), and at the bottom of the protein view is the protein scale.
«
VCP-201
VCP-202
VCP-203
VCP-209
VCP-212
VCP-215
VCP-217
VCP-219
VCP-221
VCP-227
VCP-228
VCP-231
VCP-232
VCP-233
VCP-234
»


PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The ENSP identifier links to the Ensembl website protein summary, while the ENST identifier links to the Ensembl website transcript summary for the selected splice variant. The data in the UniProt column can be expanded to show links to all matching UniProt identifiers for this protein.

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 Gene Ontology terms assigned to this protein are listed if expanding the Gene ontology column. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide (according to a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius) and the number of predicted transmembrane region(s) (according to MDM) are also reported.
Splice variant UniProt Protein class Gene ontology Length & mass Signal peptide
(predicted)
Transmembrane regions
(predicted)
VCP-201
ENSP00000351777
ENST00000358901
P55072 [Direct mapping]
Transitional endoplasmic reticulum ATPase
V9HW80 [Target identity:100%; Query identity:100%]
15S Mg(2+)-ATPase p97 subunit
Show all
Enzymes
   ENZYME proteins
   Hydrolases
Transporters
   Primary Active Transporters
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Plasma proteins
Disease related genes
Potential drug targets
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Mapped to neXtProt
   neXtProt - Evidence at protein level
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding]
GO:0000502 [proteasome complex]
GO:0003723 [RNA binding]
GO:0005102 [signaling receptor binding]
GO:0005515 [protein binding]
GO:0005524 [ATP binding]
GO:0005576 [extracellular region]
GO:0005634 [nucleus]
GO:0005654 [nucleoplasm]
GO:0005737 [cytoplasm]
GO:0005783 [endoplasmic reticulum]
GO:0005789 [endoplasmic reticulum membrane]
GO:0005811 [lipid droplet]
GO:0005829 [cytosol]
GO:0006281 [DNA repair]
GO:0006302 [double-strand break repair]
GO:0006457 [protein folding]
GO:0006511 [ubiquitin-dependent protein catabolic process]
GO:0006734 [NADH metabolic process]
GO:0006888 [endoplasmic reticulum to Golgi vesicle-mediated transport]
GO:0006914 [autophagy]
GO:0006919 [activation of cysteine-type endopeptidase activity involved in apoptotic process]
GO:0006974 [cellular response to DNA damage stimulus]
GO:0008289 [lipid binding]
GO:0010494 [cytoplasmic stress granule]
GO:0010498 [proteasomal protein catabolic process]
GO:0010918 [positive regulation of mitochondrial membrane potential]
GO:0016236 [macroautophagy]
GO:0016567 [protein ubiquitination]
GO:0016579 [protein deubiquitination]
GO:0016787 [hydrolase activity]
GO:0016887 [ATPase activity]
GO:0019079 [viral genome replication]
GO:0019903 [protein phosphatase binding]
GO:0019904 [protein domain specific binding]
GO:0019985 [translesion synthesis]
GO:0030433 [ubiquitin-dependent ERAD pathway]
GO:0030968 [endoplasmic reticulum unfolded protein response]
GO:0030970 [retrograde protein transport, ER to cytosol]
GO:0031334 [positive regulation of protein-containing complex assembly]
GO:0031593 [polyubiquitin modification-dependent protein binding]
GO:0031625 [ubiquitin protein ligase binding]
GO:0032436 [positive regulation of proteasomal ubiquitin-dependent protein catabolic process]
GO:0032510 [endosome to lysosome transport via multivesicular body sorting pathway]
GO:0032991 [protein-containing complex]
GO:0034098 [VCP-NPL4-UFD1 AAA ATPase complex]
GO:0034605 [cellular response to heat]
GO:0034774 [secretory granule lumen]
GO:0035578 [azurophil granule lumen]
GO:0035617 [stress granule disassembly]
GO:0035800 [deubiquitinase activator activity]
GO:0035861 [site of double-strand break]
GO:0036297 [interstrand cross-link repair]
GO:0036435 [K48-linked polyubiquitin modification-dependent protein binding]
GO:0036503 [ERAD pathway]
GO:0036513 [Derlin-1 retrotranslocation complex]
GO:0042288 [MHC class I protein binding]
GO:0042802 [identical protein binding]
GO:0042981 [regulation of apoptotic process]
GO:0043161 [proteasome-mediated ubiquitin-dependent protein catabolic process]
GO:0043231 [intracellular membrane-bounded organelle]
GO:0043312 [neutrophil degranulation]
GO:0043531 [ADP binding]
GO:0044389 [ubiquitin-like protein ligase binding]
GO:0044877 [protein-containing complex binding]
GO:0045184 [establishment of protein localization]
GO:0045202 [synapse]
GO:0045732 [positive regulation of protein catabolic process]
GO:0045879 [negative regulation of smoothened signaling pathway]
GO:0046034 [ATP metabolic process]
GO:0048471 [perinuclear region of cytoplasm]
GO:0050807 [regulation of synapse organization]
GO:0051228 [mitotic spindle disassembly]
GO:0055085 [transmembrane transport]
GO:0061857 [endoplasmic reticulum stress-induced pre-emptive quality control]
GO:0070062 [extracellular exosome]
GO:0070842 [aggresome assembly]
GO:0070987 [error-free translesion synthesis]
GO:0071712 [ER-associated misfolded protein catabolic process]
GO:0072389 [flavin adenine dinucleotide catabolic process]
GO:0090263 [positive regulation of canonical Wnt signaling pathway]
GO:0097352 [autophagosome maturation]
GO:0098978 [glutamatergic synapse]
GO:0106300 []
GO:1903006 [positive regulation of protein K63-linked deubiquitination]
GO:1903007 [positive regulation of Lys63-specific deubiquitinase activity]
GO:1903715 [regulation of aerobic respiration]
GO:1903843 [cellular response to arsenite ion]
GO:1903862 [positive regulation of oxidative phosphorylation]
GO:1904288 [BAT3 complex binding]
GO:1904813 [ficolin-1-rich granule lumen]
GO:1904949 [ATPase complex]
GO:1905634 [regulation of protein localization to chromatin]
GO:1990381 [ubiquitin-specific protease binding]
GO:1990730 [VCP-NSFL1C complex]
GO:2000158 [positive regulation of ubiquitin-specific protease activity]
GO:2001171 [positive regulation of ATP biosynthetic process]
Show all
806 aa
89.3 kDa
No 0
VCP-202
ENSP00000399456
ENST00000417448
C9JUP7 [Direct mapping]
Transitional endoplasmic reticulum ATPase
Show all
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding]
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
761 aa
84.5 kDa
No 0
VCP-203
ENSP00000392088
ENST00000448530
C9IZA5 [Direct mapping]
Transitional endoplasmic reticulum ATPase
Show all
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000166 [nucleotide binding]
GO:0005524 [ATP binding]
GO:0005654 [nucleoplasm]
GO:0005829 [cytosol]
GO:0016787 [hydrolase activity]
Show all
761 aa
84.5 kDa
No 0
VCP-209
ENSP00000504354
ENST00000677257
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
804 aa
89.1 kDa
No 0
VCP-212
ENSP00000503426
ENST00000678650
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
761 aa
84.5 kDa
No 0
VCP-215
ENSP00000506658
ENST00000679449
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
107 aa
12 kDa
No 0
VCP-217
ENSP00000506216
ENST00000679647
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
733 aa
80.6 kDa
No 0
VCP-219
ENSP00000504990
ENST00000679862
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
760 aa
84.4 kDa
No 0
VCP-221
ENSP00000506338
ENST00000679902
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
772 aa
86.1 kDa
No 0
VCP-227
ENSP00000506387
ENST00000680834
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
Show all
237 aa
25.9 kDa
No 0
VCP-228
ENSP00000505674
ENST00000680900
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
102 aa
11.5 kDa
No 0
VCP-231
ENSP00000505230
ENST00000681335
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005524 [ATP binding]
GO:0016787 [hydrolase activity]
Show all
754 aa
83.4 kDa
No 0
VCP-232
ENSP00000505509
ENST00000681386
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
55 aa
6.4 kDa
No 0
VCP-233
ENSP00000505847
ENST00000681537
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
76 aa
9.4 kDa
No 0
VCP-234
ENSP00000505893
ENST00000681562
   SCAMPI predicted membrane proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Human disease related genes
   Musculoskeletal diseases
   Muscular diseases
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
110 aa
12.3 kDa
No 0

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The Human Protein Atlas project is funded
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