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Aliases for TNFSF11 Gene

Aliases for TNFSF11 Gene

  • Tumor Necrosis Factor (Ligand) Superfamily, Member 11 2 3
  • TRANCE 3 4 6
  • OPGL 3 4 6
  • Receptor Activator Of Nuclear Factor Kappa-B Ligand 3 4
  • TNF-Related Activation-Induced Cytokine 3 4
  • Osteoclast Differentiation Factor 3 4
  • Osteoprotegerin Ligand 3 4
  • OPTB2 3 6
  • RANKL 3 4
  • ODF 3 4
  • Receptor Activator Of Nuclear Factor Kappa B Ligand 3
  • Tumor Necrosis Factor Ligand Superfamily Member 11 3
  • CD254 Antigen 4
  • HRANKL2 3
  • CD254 3
  • SODF 3

External Ids for TNFSF11 Gene

Summaries for TNFSF11 Gene

Entrez Gene Summary for TNFSF11 Gene

  • This gene encodes a member of the tumor necrosis factor (TNF) cytokine family which is a ligand for osteoprotegerin and functions as a key factor for osteoclast differentiation and activation. This protein was shown to be a dentritic cell survival factor and is involved in the regulation of T cell-dependent immune response. T cell activation was reported to induce expression of this gene and lead to an increase of osteoclastogenesis and bone loss. This protein was shown to activate antiapoptotic kinase AKT/PKB through a signaling complex involving SRC kinase and tumor necrosis factor receptor-associated factor (TRAF) 6, which indicated this protein may have a role in the regulation of cell apoptosis. Targeted disruption of the related gene in mice led to severe osteopetrosis and a lack of osteoclasts. The deficient mice exhibited defects in early differentiation of T and B lymphocytes, and failed to form lobulo-alveolar mammary structures during pregnancy. Two alternatively spliced transcript variants have been found. [provided by RefSeq, Jul 2008]

GeneCards Summary for TNFSF11 Gene

TNFSF11 (Tumor Necrosis Factor (Ligand) Superfamily, Member 11) is a Protein Coding gene. Diseases associated with TNFSF11 include osteopetrosis, autosomal recessive 2 and tnfsf11-related autosomal recessive osteopetrosis. Among its related pathways are Akt Signaling and Akt Signaling. GO annotations related to this gene include cytokine activity and tumor necrosis factor receptor superfamily binding. An important paralog of this gene is TNFSF10.

UniProtKB/Swiss-Prot for TNFSF11 Gene

  • Cytokine that binds to TNFRSF11B/OPG and to TNFRSF11A/RANK. Osteoclast differentiation and activation factor. Augments the ability of dendritic cells to stimulate naive T-cell proliferation. May be an important regulator of interactions between T-cells and dendritic cells and may play a role in the regulation of the T-cell-dependent immune response. May also play an important role in enhanced bone-resorption in humoral hypercalcemia of malignancy.

Gene Wiki entry for TNFSF11 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNFSF11 Gene

Genomics for TNFSF11 Gene

Genomic Location for TNFSF11 Gene

Start:
42,562,736 bp from pter
End:
42,608,013 bp from pter
Size:
45,278 bases
Orientation:
Plus strand

Genomic View for TNFSF11 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TNFSF11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNFSF11 Gene

Regulatory Elements for TNFSF11 Gene

Proteins for TNFSF11 Gene

  • Protein details for TNFSF11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14788-TNF11_HUMAN
    Recommended name:
    Tumor necrosis factor ligand superfamily member 11
    Protein Accession:
    O14788
    Secondary Accessions:
    • O14723
    • Q96Q17
    • Q9P2Q3

    Protein attributes for TNFSF11 Gene

    Size:
    317 amino acids
    Molecular mass:
    35478 Da
    Quaternary structure:
    • Homotrimer (Probable). Interacts with TNFRSF11B.

    Three dimensional structures from OCA and Proteopedia for TNFSF11 Gene

    Alternative splice isoforms for TNFSF11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNFSF11 Gene

Proteomics data for TNFSF11 Gene at MOPED

Post-translational modifications for TNFSF11 Gene

  • The soluble form of isoform 1 derives from the membrane form by proteolytic processing (By similarity). The cleavage may be catalyzed by ADAM17.
  • Glycosylation at Asn171 and Asn198

Other Protein References for TNFSF11 Gene

No data available for DME Specific Peptides for TNFSF11 Gene

Domains for TNFSF11 Gene

Gene Families for TNFSF11 Gene

HGNC:
  • CD :CD molecules
  • TNFSF :Tumor necrosis factor (ligand) superfamily

Protein Domains for TNFSF11 Gene

UniProtKB/Swiss-Prot:

TNF11_HUMAN
Family:
  • Belongs to the tumor necrosis factor family.:
    • O14788
genes like me logo Genes that share domains with TNFSF11: view

Function for TNFSF11 Gene

Molecular function for TNFSF11 Gene

GENATLAS Biochemistry: tumor necrosis factor superfamily,member 11 TNFRSF11A (RANK) and OPG (osteprogerin ligand),localized in T cells bone marrow stromal cells,hypertrophic chondrocyte,stimulated by IL1B and TNFRSF11B,expressed in bone, brain,heart,kidney,skeletal muscle,skin,cooperating with prostaglandin,mediating osteoclastognesis and bone loss through systemic activation of T cells,regulating lymph node organogenesis lymphocyte development and interactions between T cells and dendritic cells,activating the antiapoptotic serine threonine kinase AKT/PKB through a signal complex involving TRAF6 and SRC
UniProtKB/Swiss-Prot Function: Cytokine that binds to TNFRSF11B/OPG and to TNFRSF11A/RANK. Osteoclast differentiation and activation factor. Augments the ability of dendritic cells to stimulate naive T-cell proliferation. May be an important regulator of interactions between T-cells and dendritic cells and may play a role in the regulation of the T-cell-dependent immune response. May also play an important role in enhanced bone-resorption in humoral hypercalcemia of malignancy.
UniProtKB/Swiss-Prot Induction: Up-regulated by T-cell receptor stimulation

LifeMap Function Summary for TNFSF11 Gene

It affects the following cells:

Gene Ontology (GO) - Molecular Function for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005125 cytokine activity NAS 9568710
GO:0005164 tumor necrosis factor receptor binding NAS 9312132
GO:0005515 protein binding --
GO:0032813 tumor necrosis factor receptor superfamily binding IC 19940926
genes like me logo Genes that share ontologies with TNFSF11: view
genes like me logo Genes that share phenotypes with TNFSF11: view

Animal Models for TNFSF11 Gene

MGI Knock Outs for TNFSF11:

miRNA for TNFSF11 Gene

miRTarBase miRNAs that target TNFSF11

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for TNFSF11 Gene

Localization for TNFSF11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNFSF11 Gene

Isoform 1: Cell membrane; Single-pass type II membrane protein.
Isoform 3: Cell membrane; Single-pass type II membrane protein.
Isoform 2: Cytoplasm.
Tumor necrosis factor ligand superfamily member 11, soluble form: Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TNFSF11 Gene COMPARTMENTS Subcellular localization image for TNFSF11 gene
Compartment Confidence
extracellular 5
plasma membrane 5
nucleus 2
cytoskeleton 1
endoplasmic reticulum 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region NAS 10708588
GO:0005615 extracellular space IEA --
GO:0005622 intracellular --
GO:0005737 cytoplasm IEA --
GO:0005887 integral component of plasma membrane NAS 9312132
genes like me logo Genes that share ontologies with TNFSF11: view

Pathways for TNFSF11 Gene

genes like me logo Genes that share pathways with TNFSF11: view

Gene Ontology (GO) - Biological Process for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001503 ossification IEA --
GO:0002158 osteoclast proliferation IEA --
GO:0002548 monocyte chemotaxis IDA 15248232
GO:0006955 immune response NAS 9312132
GO:0007257 activation of JUN kinase activity IEA --
genes like me logo Genes that share ontologies with TNFSF11: view

Compounds for TNFSF11 Gene

(2) Drugbank Compounds for TNFSF11 Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
Denosumab
615258-40-7 target antibody
Lenalidomide
  • CC-5013
191732-72-6 target inhibitor

(99) Novoseek inferred chemical compound relationships for TNFSF11 Gene

Compound -log(P) Hits PubMed IDs
denosumab 93.7 74
tartrate 65.2 6
1,25 dihydroxy vitamin d3 61.3 13
zoledronic acid 61.2 16
hcc-1 60.9 3
genes like me logo Genes that share compounds with TNFSF11: view

Transcripts for TNFSF11 Gene

Unigene Clusters for TNFSF11 Gene

Tumor necrosis factor (ligand) superfamily, member 11:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TNFSF11 Gene

No ASD Table

Relevant External Links for TNFSF11 Gene

GeneLoc Exon Structure for
TNFSF11
ECgene alternative splicing isoforms for
TNFSF11

Expression for TNFSF11 Gene

mRNA expression in normal human tissues for TNFSF11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TNFSF11 Gene

This gene is overexpressed in Small Intestine - Terminal Ileum (4.8).

SOURCE GeneReport for Unigene cluster for TNFSF11 Gene Hs.333791

mRNA Expression by UniProt/SwissProt for TNFSF11 Gene

O14788-TNF11_HUMAN
Tissue specificity: Highest in the peripheral lymph nodes, weak in spleen, peripheral blood Leukocytes, bone marrow, heart, placenta, skeletal muscle, stomach and thyroid
genes like me logo Genes that share expressions with TNFSF11: view

Orthologs for TNFSF11 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TNFSF11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TNFSF11 36
  • 99.26 (n)
  • 99.37 (a)
TNFSF11 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TNFSF11 36
  • 87.55 (n)
  • 89.87 (a)
TNFSF11 37
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNFSF11 36
  • 89.21 (n)
  • 88.89 (a)
TNFSF11 37
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tnfsf11 36
  • 83.07 (n)
  • 85.08 (a)
Tnfsf11 16
Tnfsf11 37
  • 84 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TNFSF11 37
  • 73 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TNFSF11 37
  • 78 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tnfsf11 36
  • 82.33 (n)
  • 82.33 (a)
chicken
(Gallus gallus)
Aves TNFSF11 36
  • 68.41 (n)
  • 61.45 (a)
TNFSF11 37
  • 40 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNFSF11 37
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnfsf11 36
  • 54.26 (n)
  • 45.04 (a)
zebrafish
(Danio rerio)
Actinopterygii tnfsf11 37
  • 23 (a)
OneToOne
Species with no ortholog for TNFSF11:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TNFSF11 Gene

ENSEMBL:
Gene Tree for TNFSF11 (if available)
TreeFam:
Gene Tree for TNFSF11 (if available)

Paralogs for TNFSF11 Gene

Paralogs for TNFSF11 Gene

Selected SIMAP similar genes for TNFSF11 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for TNFSF11 Gene

genes like me logo Genes that share paralogs with TNFSF11: view

Variants for TNFSF11 Gene

Sequence variations from dbSNP and Humsavar for TNFSF11 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type MAF
rs189398 -- 42,592,810(-) tgaga(C/T)tcact intron-variant
rs238222 -- 42,604,925(-) GCGCC(C/T)GTAAT intron-variant
rs238223 -- 42,605,250(-) GTTCA(C/T)TGCTG intron-variant
rs346574 -- 42,606,367(-) ATTGG(C/T)ATTTC intron-variant
rs346575 -- 42,607,182(+) ACGGG(G/T)TGACC utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TNFSF11 Gene

Variant ID Type Subtype PubMed ID
esv33319 CNV Loss 17666407
nsv832593 CNV Gain 17160897
esv2747320 CNV Deletion 23290073

Relevant External Links for TNFSF11 Gene

HapMap Linkage Disequilibrium report
TNFSF11
Human Gene Mutation Database (HGMD)
TNFSF11

Disorders for TNFSF11 Gene

(1) OMIM Diseases for TNFSF11 Gene (602642)

UniProtKB/Swiss-Prot

TNF11_HUMAN
  • Osteopetrosis, autosomal recessive 2 (OPTB2) [MIM:259710]: A rare genetic disease characterized by abnormally dense bone, due to defective resorption of immature bone. Osteopetrosis occurs in two forms: a severe autosomal recessive form occurring in utero, infancy, or childhood, and a benign autosomal dominant form occurring in adolescence or adulthood. Recessive osteopetrosis commonly manifests in early infancy with macrocephaly, feeding difficulties, evolving blindness and deafness, bone marrow failure, severe anemia, and hepatosplenomegaly. Deafness and blindness are generally thought to represent effects of pressure on nerves. OPTB2 is characterized by paucity of osteoclasts, suggesting a molecular defect in osteoclast development. {ECO:0000269 PubMed:17632511}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(93) Novoseek inferred disease relationships for TNFSF11 Gene

Disease -log(P) Hits PubMed IDs
bone destruction 90.1 56
bone diseases 86.4 67
osteolysis 85.3 78
bone loss 85 93
osteolytic 84.9 46

Relevant External Links for TNFSF11

Genetic Association Database (GAD)
TNFSF11
Human Genome Epidemiology (HuGE) Navigator
TNFSF11
genes like me logo Genes that share disorders with TNFSF11: view

Publications for TNFSF11 Gene

  1. TRANCE is a novel ligand of the tumor necrosis factor receptor family that activates c-Jun N-terminal kinase in T cells. (PMID: 9312132) Wong B.R. … Choi Y. (J. Biol. Chem. 1997) 2 3 4 23
  2. Cancer cells responsible for humoral hypercalcemia express mRNA encoding a secreted form of ODF/TRANCE that induces osteoclast formation. (PMID: 10708588) Nagai M. … Sato N. (Biochem. Biophys. Res. Commun. 2000) 3 4 23
  3. Interaction between RANKL and HLA-DRB1 genotypes may contribute to younger age at onset of seropositive rheumatoid arthritis in an inception cohort. (PMID: 15476205) Wu H. … Tsao B.P. (Arthritis Rheum. 2004) 3 23 49
  4. Association of TNFSF11 gene promoter polymorphisms with bone mineral density in postmenopausal women. (PMID: 16730419) Mencej S. … Marc J. (Maturitas 2006) 3 23 49
  5. Osteoclast-poor human osteopetrosis due to mutations in the gene encoding RANKL. (PMID: 17632511) Sobacchi C. … Helfrich M.H. (Nat. Genet. 2007) 3 4 23

Products for TNFSF11 Gene

Sources for TNFSF11 Gene

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