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Aliases for TNFRSF11B Gene

Aliases for TNFRSF11B Gene

  • Tumor Necrosis Factor Receptor Superfamily, Member 11b 2 3
  • Osteoprotegerin 2 3 4
  • OCIF 3 4 6
  • OPG 3 4 6
  • Osteoclastogenesis Inhibitory Factor 3 4
  • Tumor Necrosis Factor Receptor Superfamily Member 11B 3
  • TR1 3

External Ids for TNFRSF11B Gene

Previous Symbols for TNFRSF11B Gene

  • OPG

Summaries for TNFRSF11B Gene

Entrez Gene Summary for TNFRSF11B Gene

  • The protein encoded by this gene is a member of the TNF-receptor superfamily. This protein is an osteoblast-secreted decoy receptor that functions as a negative regulator of bone resorption. This protein specifically binds to its ligand, osteoprotegerin ligand, both of which are key extracellular regulators of osteoclast development. Studies of the mouse counterpart also suggest that this protein and its ligand play a role in lymph-node organogenesis and vascular calcification. Alternatively spliced transcript variants of this gene have been reported, but their full length nature has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for TNFRSF11B Gene

TNFRSF11B (Tumor Necrosis Factor Receptor Superfamily, Member 11b) is a Protein Coding gene. Diseases associated with TNFRSF11B include paget disease, juvenile and bone cancer. Among its related pathways are Osteoblast Signaling and Transcription_Role of VDR in regulation of genes involved in osteoporosis. GO annotations related to this gene include receptor activity and cytokine activity. An important paralog of this gene is TNFRSF14.

UniProtKB/Swiss-Prot for TNFRSF11B Gene

  • Acts as decoy receptor for TNFSF11/RANKL and thereby neutralizes its function in osteoclastogenesis. Inhibits the activation of osteoclasts and promotes osteoclast apoptosis in vitro. Bone homeostasis seems to depend on the local ratio between TNFSF11 and TNFRSF11B. May also play a role in preventing arterial calcification. May act as decoy receptor for TNFSF10/TRAIL and protect against apoptosis. TNFSF10/TRAIL binding blocks the inhibition of osteoclastogenesis.

Gene Wiki entry for TNFRSF11B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNFRSF11B Gene

Genomics for TNFRSF11B Gene

Genomic Location for TNFRSF11B Gene

Start:
118,923,557 bp from pter
End:
118,952,200 bp from pter
Size:
28,644 bases
Orientation:
Minus strand

Genomic View for TNFRSF11B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TNFRSF11B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNFRSF11B Gene

Regulatory Elements for TNFRSF11B Gene

Proteins for TNFRSF11B Gene

  • Protein details for TNFRSF11B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00300-TR11B_HUMAN
    Recommended name:
    Tumor necrosis factor receptor superfamily member 11B
    Protein Accession:
    O00300
    Secondary Accessions:
    • B2R9A8
    • O60236
    • Q53FX6
    • Q9UHP4

    Protein attributes for TNFRSF11B Gene

    Size:
    401 amino acids
    Molecular mass:
    46026 Da
    Quaternary structure:
    • Homodimer. Interacts with TNFSF10 and TNFSF11.

    Three dimensional structures from OCA and Proteopedia for TNFRSF11B Gene

neXtProt entry for TNFRSF11B Gene

Proteomics data for TNFRSF11B Gene at MOPED

Post-translational modifications for TNFRSF11B Gene

Other Protein References for TNFRSF11B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TNFRSF11B Gene

Domains for TNFRSF11B Gene

Gene Families for TNFRSF11B Gene

HGNC:
  • TNFRSF :Tumor necrosis factor receptor superfamily
IUPHAR :

UniProtKB/Swiss-Prot:

TR11B_HUMAN
Domain:
  • Contains 2 death domains.:
    • O00300
Similarity:
  • Contains 4 TNFR-Cys repeats.:
    • O00300
genes like me logo Genes that share domains with TNFRSF11B: view

Function for TNFRSF11B Gene

Molecular function for TNFRSF11B Gene

GENATLAS Biochemistry: tumor necrosis factor receptor superfamily,member 11B,expressed in lymphoid cells and up-regulated by CD40 (TNFRSF5) stimulation,involved in osteoclastogenesis,secreted form down-regulating osteoclast differentiation by binding the osteoprotegerin ligand (TNFSF11)
UniProtKB/Swiss-Prot Function: Acts as decoy receptor for TNFSF11/RANKL and thereby neutralizes its function in osteoclastogenesis. Inhibits the activation of osteoclasts and promotes osteoclast apoptosis in vitro. Bone homeostasis seems to depend on the local ratio between TNFSF11 and TNFRSF11B. May also play a role in preventing arterial calcification. May act as decoy receptor for TNFSF10/TRAIL and protect against apoptosis. TNFSF10/TRAIL binding blocks the inhibition of osteoclastogenesis.
UniProtKB/Swiss-Prot Induction: Up-regulated by increasing calcium-concentration in the medium and estrogens. Down-regulated by glucocorticoids

Gene Ontology (GO) - Molecular Function for TNFRSF11B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity TAS 9108485
GO:0005125 cytokine activity TAS 9168977
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with TNFRSF11B: view
genes like me logo Genes that share phenotypes with TNFRSF11B: view

Animal Models for TNFRSF11B Gene

MGI Knock Outs for TNFRSF11B:

miRNA for TNFRSF11B Gene

miRTarBase miRNAs that target TNFRSF11B

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for TNFRSF11B Gene

Localization for TNFRSF11B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNFRSF11B Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TNFRSF11B Gene COMPARTMENTS Subcellular localization image for TNFRSF11B gene
Compartment Confidence
extracellular 5
nucleus 3
cytoskeleton 1
cytosol 1
lysosome 1
mitochondrion 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for TNFRSF11B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS 9108485
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005615 extracellular space IDA 15516325
genes like me logo Genes that share ontologies with TNFRSF11B: view

Pathways for TNFRSF11B Gene

genes like me logo Genes that share pathways with TNFRSF11B: view

Pathways by source for TNFRSF11B Gene

1 GeneGo (Thomson Reuters Life Sciences Research) pathway for TNFRSF11B Gene
3 Sino Biological pathways for TNFRSF11B Gene

Gene Ontology (GO) - Biological Process for TNFRSF11B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system development TAS 9108485
GO:0006915 apoptotic process IEA --
GO:0007165 signal transduction IEA --
GO:0007584 response to nutrient IEA --
GO:0010035 response to inorganic substance --
genes like me logo Genes that share ontologies with TNFRSF11B: view

Compounds for TNFRSF11B Gene

(1) HMDB Compounds for TNFRSF11B Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2

(107) Novoseek inferred chemical compound relationships for TNFRSF11B Gene

Compound -log(P) Hits PubMed IDs
denosumab 84.1 7
zoledronic acid 66.8 29
deoxypyridinoline 66.1 15
hcc-1 61.2 3
1,25 dihydroxy vitamin d3 59.4 8
genes like me logo Genes that share compounds with TNFRSF11B: view

Transcripts for TNFRSF11B Gene

mRNA/cDNA for TNFRSF11B Gene

Unigene Clusters for TNFRSF11B Gene

Tumor necrosis factor receptor superfamily, member 11b:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TNFRSF11B Gene

No ASD Table

Relevant External Links for TNFRSF11B Gene

GeneLoc Exon Structure for
TNFRSF11B
ECgene alternative splicing isoforms for
TNFRSF11B

Expression for TNFRSF11B Gene

mRNA expression in normal human tissues for TNFRSF11B Gene

mRNA differential expression in normal tissues according to GTEx for TNFRSF11B Gene

This gene is overexpressed in Artery - Aorta (17.4) and Artery - Coronary (14.9).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for TNFRSF11B Gene

SOURCE GeneReport for Unigene cluster for TNFRSF11B Gene Hs.81791

mRNA Expression by UniProt/SwissProt for TNFRSF11B Gene

O00300-TR11B_HUMAN
Tissue specificity: Highly expressed in adult lung, heart, kidney, liver, spleen, thymus, prostate, ovary, small intestine, thyroid, lymph node, trachea, adrenal gland, testis, and bone marrow. Detected at very low levels in brain, placenta and skeletal muscle. Highly expressed in fetal kidney, liver and lung
genes like me logo Genes that share expressions with TNFRSF11B: view

Orthologs for TNFRSF11B Gene

This gene was present in the common ancestor of chordates.

Orthologs for TNFRSF11B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TNFRSF11B 36
  • 99.42 (n)
  • 99.5 (a)
TNFRSF11B 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TNFRSF11B 36
  • 87.61 (n)
  • 88.53 (a)
TNFRSF11B 37
  • 88 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNFRSF11B 36
  • 89.19 (n)
  • 91.77 (a)
TNFRSF11B 37
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tnfrsf11b 36
  • 83.96 (n)
  • 85.04 (a)
Tnfrsf11b 16
Tnfrsf11b 37
  • 86 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TNFRSF11B 37
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TNFRSF11B 37
  • 70 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tnfrsf11b 36
  • 84 (n)
  • 86.5 (a)
chicken
(Gallus gallus)
Aves TNFRSF11B 36
  • 71.74 (n)
  • 69.58 (a)
TNFRSF11B 37
  • 70 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNFRSF11B 37
  • 66 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnfrsf11b 36
  • 58.27 (n)
  • 49.59 (a)
zebrafish
(Danio rerio)
Actinopterygii CABZ01053483.1 37
  • 19 (a)
ManyToMany
Species with no ortholog for TNFRSF11B:
  • 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 TNFRSF11B Gene

ENSEMBL:
Gene Tree for TNFRSF11B (if available)
TreeFam:
Gene Tree for TNFRSF11B (if available)

Paralogs for TNFRSF11B Gene

Paralogs for TNFRSF11B Gene

Selected SIMAP similar genes for TNFRSF11B Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with TNFRSF11B: view

Variants for TNFRSF11B Gene

Sequence variations from dbSNP and Humsavar for TNFRSF11B Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type MAF
rs882763 -- 118,932,212(+) AAAAA(C/T)GTGGG intron-variant
rs1032128 -- 118,939,534(+) TGGTT(A/G)CATTG intron-variant
rs1032129 -- 118,939,661(+) gaagg(A/C)atttg intron-variant
rs1131380 -- 118,926,523(-) CAAAG(A/C)CCAAG reference, missense
rs1385502 -- 118,950,060(+) TGTTT(C/G)TCTAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TNFRSF11B Gene

Variant ID Type Subtype PubMed ID
essv8481 CNV CNV 17122850
essv5532 CNV CNV 17122850
esv2737483 CNV Deletion 23290073
esv2005767 CNV Deletion 18987734
esv2737484 CNV Deletion 23290073
esv2737486 CNV Deletion 23290073
esv2737487 CNV Deletion 23290073

Relevant External Links for TNFRSF11B Gene

HapMap Linkage Disequilibrium report
TNFRSF11B
Human Gene Mutation Database (HGMD)
TNFRSF11B

Disorders for TNFRSF11B Gene

(1) OMIM Diseases for TNFRSF11B Gene (602643)

UniProtKB/Swiss-Prot

TR11B_HUMAN
  • Juvenile Paget disease (JPD) [MIM:239000]: Rare autosomal recessive osteopathy that presents in infancy or early childhood. The disorder is characterized by rapidly remodeling woven bone, osteopenia, debilitating fractures, and deformities due to a markedly accelerated rate of bone remodeling throughout the skeleton. Approximately 40 cases of JPD have been reported worldwide. Unless it is treated with drugs that block osteoclast-mediated skeletal resorption, the disease can be fatal. {ECO:0000269 PubMed:12189164}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(92) Novoseek inferred disease relationships for TNFRSF11B Gene

Disease -log(P) Hits PubMed IDs
paget disease, juvenile 88.7 19
bone diseases 86.9 57
bone destruction 85.6 31
bone loss 84.4 106
osteoporosis 83.4 130

Relevant External Links for TNFRSF11B

Genetic Association Database (GAD)
TNFRSF11B
Human Genome Epidemiology (HuGE) Navigator
TNFRSF11B
genes like me logo Genes that share disorders with TNFRSF11B: view

Publications for TNFRSF11B Gene

  1. Isolation of a novel cytokine from human fibroblasts that specifically inhibits osteoclastogenesis. (PMID: 9168977) Tsuda E. … Higashio K. (Biochem. Biophys. Res. Commun. 1997) 3 4 23
  2. Characterization of structural domains of human osteoclastogenesis inhibitory factor. (PMID: 9478964) Yamaguchi K. … Higashio K. (J. Biol. Chem. 1998) 3 4 23
  3. Identity of osteoclastogenesis inhibitory factor (OCIF) and osteoprotegerin (OPG): a mechanism by which OPG/OCIF inhibits osteoclastogenesis in vitro. (PMID: 9492069) Yasuda H. … Higashio K. (Endocrinology 1998) 3 4 23
  4. Osteoprotegerin is a receptor for the cytotoxic ligand TRAIL. (PMID: 9603945) Emery J.G. … Young P.R. (J. Biol. Chem. 1998) 3 4 23
  5. Investigation of the genetic influence of the OPG, VDR (Fok1), and COLIA1 Sp1 polymorphisms on BMD in the Irish population. (PMID: 12073153) Wynne F. … Quane K.A. (Calcif. Tissue Int. 2002) 3 23 49

Products for TNFRSF11B Gene

Sources for TNFRSF11B Gene

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