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TNF
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  • TNF
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.

TNF
Synonyms DIF, TNF-alpha, TNFA, TNFSF2
Gene descriptioni

Full gene name according to HGNC.

Tumor necrosis factor
Protein classi

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

Read more
Cancer-related genes
Candidate cardiovascular disease genes
Disease related genes
FDA approved drug targets
Human disease related genes
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.

Read more
Intracellular,Secreted
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 6
Cytoband p21.33
Chromosome location (bp) 31575565 - 31578336
Number of transcriptsi

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

1
Ensembl ENSG00000232810 (version 103.38)
Entrez gene 7124
HGNC HGNC:11892
UniProt P01375 (UniProt - Evidence at protein level)
neXtProt NX_P01375
Antibodypedia TNF 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: 1      # Population variants: 107

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.
TNF-208


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)
TNF-208
ENSP00000398698
ENST00000449264
P01375 [Direct mapping]
Tumor necrosis factor Tumor necrosis factor, membrane form Intracellular domain 1 Intracellular domain 2 C-domain 1 C-domain 2 Tumor necrosis factor, soluble form
Q5STB3 [Target identity:100%; Query identity:100%]
C-domain 1
Show all
   MEMSAT3 predicted membrane proteins
   MEMSAT-SVM predicted membrane proteins
   Phobius predicted membrane proteins
   SCAMPI predicted membrane proteins
   THUMBUP predicted membrane proteins
   TMHMM predicted membrane proteins
Predicted secreted proteins
   SPOCTOPUS predicted secreted proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Plasma proteins
Cancer-related genes
   Candidate cancer biomarkers
   Mutated cancer genes
Candidate cardiovascular disease genes
Disease related genes
FDA approved drug targets
   Biotech drugs
   Small molecule drugs
Human disease related genes
   Immune system diseases
   Allergies and autoimmune diseases
Mapped to neXtProt
   neXtProt - Evidence at protein level
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000122 [negative regulation of transcription by RNA polymerase II]
GO:0000165 [MAPK cascade]
GO:0000185 [activation of MAPKKK activity]
GO:0000187 [activation of MAPK activity]
GO:0000976 [transcription regulatory region sequence-specific DNA binding]
GO:0001774 [microglial cell activation]
GO:0001819 [positive regulation of cytokine production]
GO:0001891 [phagocytic cup]
GO:0001932 [regulation of protein phosphorylation]
GO:0001934 [positive regulation of protein phosphorylation]
GO:0001937 [negative regulation of endothelial cell proliferation]
GO:0002020 [protease binding]
GO:0002439 [chronic inflammatory response to antigenic stimulus]
GO:0002637 [regulation of immunoglobulin production]
GO:0002719 [negative regulation of cytokine production involved in immune response]
GO:0002876 [positive regulation of chronic inflammatory response to antigenic stimulus]
GO:0002925 [positive regulation of humoral immune response mediated by circulating immunoglobulin]
GO:0005125 [cytokine activity]
GO:0005164 [tumor necrosis factor receptor binding]
GO:0005515 [protein binding]
GO:0005576 [extracellular region]
GO:0005615 [extracellular space]
GO:0005886 [plasma membrane]
GO:0005887 [integral component of plasma membrane]
GO:0006006 [glucose metabolic process]
GO:0006357 [regulation of transcription by RNA polymerase II]
GO:0006919 [activation of cysteine-type endopeptidase activity involved in apoptotic process]
GO:0006952 [defense response]
GO:0006954 [inflammatory response]
GO:0006955 [immune response]
GO:0006959 [humoral immune response]
GO:0007249 [I-kappaB kinase/NF-kappaB signaling]
GO:0007254 [JNK cascade]
GO:0007275 [multicellular organism development]
GO:0008625 [extrinsic apoptotic signaling pathway via death domain receptors]
GO:0008630 [intrinsic apoptotic signaling pathway in response to DNA damage]
GO:0009615 [response to virus]
GO:0009651 [response to salt stress]
GO:0009887 [animal organ morphogenesis]
GO:0009897 [external side of plasma membrane]
GO:0009986 [cell surface]
GO:0010033 [response to organic substance]
GO:0010573 [vascular endothelial growth factor production]
GO:0010628 [positive regulation of gene expression]
GO:0010629 [negative regulation of gene expression]
GO:0010693 [negative regulation of alkaline phosphatase activity]
GO:0010803 [regulation of tumor necrosis factor-mediated signaling pathway]
GO:0010888 [negative regulation of lipid storage]
GO:0014068 [positive regulation of phosphatidylinositol 3-kinase signaling]
GO:0016020 [membrane]
GO:0016021 [integral component of membrane]
GO:0019221 [cytokine-mediated signaling pathway]
GO:0030198 [extracellular matrix organization]
GO:0030316 [osteoclast differentiation]
GO:0030730 [sequestering of triglyceride]
GO:0030866 [cortical actin cytoskeleton organization]
GO:0031334 [positive regulation of protein-containing complex assembly]
GO:0031622 [positive regulation of fever generation]
GO:0031663 [lipopolysaccharide-mediated signaling pathway]
GO:0032715 [negative regulation of interleukin-6 production]
GO:0032722 [positive regulation of chemokine production]
GO:0032724 [positive regulation of fractalkine production]
GO:0032729 [positive regulation of interferon-gamma production]
GO:0032731 [positive regulation of interleukin-1 beta production]
GO:0032755 [positive regulation of interleukin-6 production]
GO:0032757 [positive regulation of interleukin-8 production]
GO:0033138 [positive regulation of peptidyl-serine phosphorylation]
GO:0033209 [tumor necrosis factor-mediated signaling pathway]
GO:0034116 [positive regulation of heterotypic cell-cell adhesion]
GO:0035509 [negative regulation of myosin-light-chain-phosphatase activity]
GO:0042127 [regulation of cell population proliferation]
GO:0042531 [positive regulation of tyrosine phosphorylation of STAT protein]
GO:0042742 [defense response to bacterium]
GO:0042802 [identical protein binding]
GO:0043065 [positive regulation of apoptotic process]
GO:0043068 [positive regulation of programmed cell death]
GO:0043122 [regulation of I-kappaB kinase/NF-kappaB signaling]
GO:0043123 [positive regulation of I-kappaB kinase/NF-kappaB signaling]
GO:0043154 [negative regulation of cysteine-type endopeptidase activity involved in apoptotic process]
GO:0043242 [negative regulation of protein-containing complex disassembly]
GO:0043243 [positive regulation of protein-containing complex disassembly]
GO:0043280 [positive regulation of cysteine-type endopeptidase activity involved in apoptotic process]
GO:0043406 [positive regulation of MAP kinase activity]
GO:0043491 [protein kinase B signaling]
GO:0043507 [positive regulation of JUN kinase activity]
GO:0043525 [positive regulation of neuron apoptotic process]
GO:0043537 [negative regulation of blood vessel endothelial cell migration]
GO:0045071 [negative regulation of viral genome replication]
GO:0045121 [membrane raft]
GO:0045123 [cellular extravasation]
GO:0045429 [positive regulation of nitric oxide biosynthetic process]
GO:0045598 [regulation of fat cell differentiation]
GO:0045599 [negative regulation of fat cell differentiation]
GO:0045662 [negative regulation of myoblast differentiation]
GO:0045668 [negative regulation of osteoblast differentiation]
GO:0045670 [regulation of osteoclast differentiation]
GO:0045672 [positive regulation of osteoclast differentiation]
GO:0045732 [positive regulation of protein catabolic process]
GO:0045785 [positive regulation of cell adhesion]
GO:0045860 [positive regulation of protein kinase activity]
GO:0045892 [negative regulation of transcription, DNA-templated]
GO:0045893 [positive regulation of transcription, DNA-templated]
GO:0045930 [negative regulation of mitotic cell cycle]
GO:0045944 [positive regulation of transcription by RNA polymerase II]
GO:0045994 [positive regulation of translational initiation by iron]
GO:0046325 [negative regulation of glucose import]
GO:0046330 [positive regulation of JNK cascade]
GO:0046427 [positive regulation of receptor signaling pathway via JAK-STAT]
GO:0048143 [astrocyte activation]
GO:0048566 [embryonic digestive tract development]
GO:0048661 [positive regulation of smooth muscle cell proliferation]
GO:0050708 [regulation of protein secretion]
GO:0050727 [regulation of inflammatory response]
GO:0050729 [positive regulation of inflammatory response]
GO:0050766 [positive regulation of phagocytosis]
GO:0050768 [negative regulation of neurogenesis]
GO:0050796 [regulation of insulin secretion]
GO:0050806 [positive regulation of synaptic transmission]
GO:0050807 [regulation of synapse organization]
GO:0050830 [defense response to Gram-positive bacterium]
GO:0050890 [cognition]
GO:0050900 [leukocyte migration]
GO:0050901 [leukocyte tethering or rolling]
GO:0050995 [negative regulation of lipid catabolic process]
GO:0051000 [positive regulation of nitric-oxide synthase activity]
GO:0051044 [positive regulation of membrane protein ectodomain proteolysis]
GO:0051091 [positive regulation of DNA-binding transcription factor activity]
GO:0051092 [positive regulation of NF-kappaB transcription factor activity]
GO:0051173 [positive regulation of nitrogen compound metabolic process]
GO:0051222 [positive regulation of protein transport]
GO:0051384 [response to glucocorticoid]
GO:0051798 [positive regulation of hair follicle development]
GO:0051897 [positive regulation of protein kinase B signaling]
GO:0051966 [regulation of synaptic transmission, glutamatergic]
GO:0055037 [recycling endosome]
GO:0060252 [positive regulation of glial cell proliferation]
GO:0060557 [positive regulation of vitamin D biosynthetic process]
GO:0060559 [positive regulation of calcidiol 1-monooxygenase activity]
GO:0060664 [epithelial cell proliferation involved in salivary gland morphogenesis]
GO:0060693 [regulation of branching involved in salivary gland morphogenesis]
GO:0061044 [negative regulation of vascular wound healing]
GO:0061048 [negative regulation of branching involved in lung morphogenesis]
GO:0070374 [positive regulation of ERK1 and ERK2 cascade]
GO:0070886 [positive regulation of calcineurin-NFAT signaling cascade]
GO:0071222 [cellular response to lipopolysaccharide]
GO:0071230 [cellular response to amino acid stimulus]
GO:0071316 [cellular response to nicotine]
GO:0071407 [cellular response to organic cyclic compound]
GO:0071550 [death-inducing signaling complex assembly]
GO:0071677 [positive regulation of mononuclear cell migration]
GO:0071803 [positive regulation of podosome assembly]
GO:0072577 [endothelial cell apoptotic process]
GO:0072659 [protein localization to plasma membrane]
GO:0097190 [apoptotic signaling pathway]
GO:0097191 [extrinsic apoptotic signaling pathway]
GO:0097527 [necroptotic signaling pathway]
GO:0150078 [positive regulation of neuroinflammatory response]
GO:0150129 [positive regulation of interleukin-33 production]
GO:1900017 [positive regulation of cytokine production involved in inflammatory response]
GO:1900222 [negative regulation of amyloid-beta clearance]
GO:1901224 [positive regulation of NIK/NF-kappaB signaling]
GO:1901647 [positive regulation of synoviocyte proliferation]
GO:1901671 [positive regulation of superoxide dismutase activity]
GO:1902004 [positive regulation of amyloid-beta formation]
GO:1902895 [positive regulation of pri-miRNA transcription by RNA polymerase II]
GO:1903078 [positive regulation of protein localization to plasma membrane]
GO:1903140 [regulation of establishment of endothelial barrier]
GO:1903347 [negative regulation of bicellular tight junction assembly]
GO:1903721 [positive regulation of I-kappaB phosphorylation]
GO:1903799 [negative regulation of production of miRNAs involved in gene silencing by miRNA]
GO:1904707 [positive regulation of vascular associated smooth muscle cell proliferation]
GO:1904996 [positive regulation of leukocyte adhesion to vascular endothelial cell]
GO:1904999 [positive regulation of leukocyte adhesion to arterial endothelial cell]
GO:2000010 [positive regulation of protein localization to cell surface]
GO:2000272 [negative regulation of signaling receptor activity]
GO:2000304 [positive regulation of ceramide biosynthetic process]
GO:2000334 [positive regulation of blood microparticle formation]
GO:2000343 [positive regulation of chemokine (C-X-C motif) ligand 2 production]
GO:2000351 [regulation of endothelial cell apoptotic process]
GO:2000377 [regulation of reactive oxygen species metabolic process]
GO:2001234 [negative regulation of apoptotic signaling pathway]
GO:2001238 [positive regulation of extrinsic apoptotic signaling pathway]
GO:2001240 [negative regulation of extrinsic apoptotic signaling pathway in absence of ligand]
Show all
233 aa
25.6 kDa
No 0

Contact

  • NEWS ARTICLES
  • PRESS ROOM
  • contact@proteinatlas.org

The Project

  • INTRODUCTION
  • ORGANIZATION
  • PUBLICATIONS

The Human Protein Atlas

  • DOWNLOADABLE DATA
  • LICENCE & CITATION
  • HELP & FAQ
The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.