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O08712

- TR11B_MOUSE

UniProt

O08712 - TR11B_MOUSE

Protein

Tumor necrosis factor receptor superfamily member 11B

Gene

Tnfrsf11b

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 117 (01 Oct 2014)
      Sequence version 1 (01 Jul 1997)
      Previous versions | rss
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    Functioni

    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.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei400 – 4001Involved in dimerizationBy similarity

    GO - Biological processi

    1. apoptotic process Source: UniProtKB-KW
    2. extracellular matrix organization Source: MGI
    3. negative regulation of bone resorption Source: Ensembl
    4. negative regulation of odontogenesis of dentin-containing tooth Source: MGI
    5. response to arsenic-containing substance Source: Ensembl
    6. response to drug Source: Ensembl
    7. response to estrogen Source: Ensembl
    8. response to magnesium ion Source: Ensembl
    9. response to nutrient Source: Ensembl
    10. signal transduction Source: InterPro

    Keywords - Molecular functioni

    Receptor

    Keywords - Biological processi

    Apoptosis

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Tumor necrosis factor receptor superfamily member 11B
    Alternative name(s):
    Osteoclastogenesis inhibitory factor
    Osteoprotegerin
    Gene namesi
    Name:Tnfrsf11b
    Synonyms:Ocif, Opg
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 15

    Organism-specific databases

    MGIiMGI:109587. Tnfrsf11b.

    Subcellular locationi

    GO - Cellular componenti

    1. extracellular space Source: Ensembl
    2. proteinaceous extracellular matrix Source: MGI

    Keywords - Cellular componenti

    Secreted

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2121By similarityAdd
    BLAST
    Chaini22 – 401380Tumor necrosis factor receptor superfamily member 11BPRO_0000034588Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi41 ↔ 541 PublicationPROSITE-ProRule annotation
    Disulfide bondi44 ↔ 621 PublicationPROSITE-ProRule annotation
    Disulfide bondi65 ↔ 801 PublicationPROSITE-ProRule annotation
    Disulfide bondi83 ↔ 971 PublicationPROSITE-ProRule annotation
    Disulfide bondi87 ↔ 1051 PublicationPROSITE-ProRule annotation
    Glycosylationi98 – 981N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi107 ↔ 1181 PublicationPROSITE-ProRule annotation
    Disulfide bondi124 ↔ 1421 PublicationPROSITE-ProRule annotation
    Disulfide bondi145 ↔ 1601 PublicationPROSITE-ProRule annotation
    Glycosylationi165 – 1651N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi166 ↔ 1851 PublicationPROSITE-ProRule annotation
    Glycosylationi178 – 1781N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi289 – 2891N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PRIDEiO08712.

    PTM databases

    PhosphoSiteiO08712.

    Expressioni

    Tissue specificityi

    Highly expressed in liver, lung, stomach, intestines and calvaria. Highly expressed in decidua and placenta, and in embryo.

    Developmental stagei

    Detected in embryo at high levels on day 7, whereas expression decreases at day 11 and increases from day 15 to 17. On day 15 found in developing bone primordia, brachiocephalic artery and ductus arteriosus, left main bronchus, abdominal aorta and midgut.

    Inductioni

    Up-regulated by TGF-beta and estrogens. Down-regulated by 1,25-dihdroxyvitamin D3 and parathyroid hormone.

    Gene expression databases

    ArrayExpressiO08712.
    BgeeiO08712.
    GenevestigatoriO08712.

    Interactioni

    Subunit structurei

    Homodimer. Interacts with TNFSF10 and TNFSF11.1 Publication

    Protein-protein interaction databases

    DIPiDIP-59980N.

    Structurei

    Secondary structure

    1
    401
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi35 – 373
    Beta strandi48 – 525
    Beta strandi56 – 583
    Beta strandi61 – 644
    Beta strandi91 – 955
    Beta strandi99 – 1013
    Beta strandi104 – 1074
    Beta strandi111 – 1144
    Beta strandi117 – 1204
    Beta strandi128 – 1325
    Beta strandi141 – 1444
    Beta strandi155 – 1573

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4E4DX-ray2.70R22-197[»]
    ProteinModelPortaliO08712.
    SMRiO08712. Positions 28-162.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati24 – 6239TNFR-Cys 1Add
    BLAST
    Repeati65 – 10541TNFR-Cys 2Add
    BLAST
    Repeati107 – 14236TNFR-Cys 3Add
    BLAST
    Repeati145 – 18541TNFR-Cys 4Add
    BLAST
    Domaini198 – 26972Death 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini283 – 36583Death 2PROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 2 death domains.PROSITE-ProRule annotation
    Contains 4 TNFR-Cys repeats.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat, Signal

    Phylogenomic databases

    eggNOGiNOG80702.
    HOGENOMiHOG000273896.
    HOVERGENiHBG061495.
    InParanoidiO08712.
    KOiK05148.
    OMAiDIDLCEN.
    OrthoDBiEOG786H2Q.
    PhylomeDBiO08712.
    TreeFamiTF331157.

    Family and domain databases

    Gene3Di1.10.533.10. 1 hit.
    InterProiIPR011029. DEATH-like_dom.
    IPR000488. Death_domain.
    IPR001368. TNFR/NGFR_Cys_rich_reg.
    IPR022323. TNFR_11.
    IPR017371. TNFR_11B.
    [Graphical view]
    PfamiPF00531. Death. 1 hit.
    PF00020. TNFR_c6. 1 hit.
    [Graphical view]
    PIRSFiPIRSF038065. TNFR_11B. 1 hit.
    PRINTSiPR01961. TNFACTORR11.
    PR01975. TNFACTORR11B.
    SMARTiSM00005. DEATH. 1 hit.
    SM00208. TNFR. 4 hits.
    [Graphical view]
    SUPFAMiSSF47986. SSF47986. 2 hits.
    PROSITEiPS50017. DEATH_DOMAIN. 1 hit.
    PS00652. TNFR_NGFR_1. 1 hit.
    PS50050. TNFR_NGFR_2. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    O08712-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNKWLCCALL VLLDIIEWTT QETLPPKYLH YDPETGHQLL CDKCAPGTYL    50
    KQHCTVRRKT LCVPCPDHSY TDSWHTSDEC VYCSPVCKEL QSVKQECNRT 100
    HNRVCECEEG RYLEIEFCLK HRSCPPGSGV VQAGTPERNT VCKKCPDGFF 150
    SGETSSKAPC IKHTNCSTFG LLLIQKGNAT HDNVCSGNRE ATQKCGIDVT 200
    LCEEAFFRFA VPTKIIPNWL SVLVDSLPGT KVNAESVERI KRRHSSQEQT 250
    FQLLKLWKHQ NRDQEMVKKI IQDIDLCESS VQRHLGHSNL TTEQLLALME 300
    SLPGKKISPE EIERTRKTCK SSEQLLKLLS LWRIKNGDQD TLKGLMYALK 350
    HLKTSHFPKT VTHSLRKTMR FLHSFTMYRL YQKLFLEMIG NQVQSVKISC 400
    L 401
    Length:401
    Mass (Da):45,923
    Last modified:July 1, 1997 - v1
    Checksum:iCAA6102D3B312470
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti138 – 1381R → P in strain: 129/Ola and NIH Swiss. 1 Publication
    Natural varianti161 – 1611I → R in strain: 129/Ola and NIH Swiss. 1 Publication
    Natural varianti165 – 1651N → D in strain: 129/Ola and NIH Swiss. 1 Publication
    Natural varianti288 – 2881S → A in strain: 129/Ola and NIH Swiss. 1 Publication
    Natural varianti296 – 2961L → R in strain: 129/Ola and NIH Swiss. 1 Publication

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U94331 mRNA. Translation: AAB53708.1.
    AB013898 mRNA. Translation: BAA28269.1.
    AB013903 Genomic DNA. Translation: BAA33388.1.
    CCDSiCCDS27468.1.
    RefSeqiNP_032790.3. NM_008764.3.
    UniGeneiMm.15383.

    Genome annotation databases

    EnsembliENSMUST00000079772; ENSMUSP00000078705; ENSMUSG00000063727.
    GeneIDi18383.
    KEGGimmu:18383.
    UCSCiuc007vrk.1. mouse.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U94331 mRNA. Translation: AAB53708.1 .
    AB013898 mRNA. Translation: BAA28269.1 .
    AB013903 Genomic DNA. Translation: BAA33388.1 .
    CCDSi CCDS27468.1.
    RefSeqi NP_032790.3. NM_008764.3.
    UniGenei Mm.15383.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4E4D X-ray 2.70 R 22-197 [» ]
    ProteinModelPortali O08712.
    SMRi O08712. Positions 28-162.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-59980N.

    PTM databases

    PhosphoSitei O08712.

    Proteomic databases

    PRIDEi O08712.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000079772 ; ENSMUSP00000078705 ; ENSMUSG00000063727 .
    GeneIDi 18383.
    KEGGi mmu:18383.
    UCSCi uc007vrk.1. mouse.

    Organism-specific databases

    CTDi 4982.
    MGIi MGI:109587. Tnfrsf11b.

    Phylogenomic databases

    eggNOGi NOG80702.
    HOGENOMi HOG000273896.
    HOVERGENi HBG061495.
    InParanoidi O08712.
    KOi K05148.
    OMAi DIDLCEN.
    OrthoDBi EOG786H2Q.
    PhylomeDBi O08712.
    TreeFami TF331157.

    Miscellaneous databases

    NextBioi 293972.
    PROi O08712.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O08712.
    Bgeei O08712.
    Genevestigatori O08712.

    Family and domain databases

    Gene3Di 1.10.533.10. 1 hit.
    InterProi IPR011029. DEATH-like_dom.
    IPR000488. Death_domain.
    IPR001368. TNFR/NGFR_Cys_rich_reg.
    IPR022323. TNFR_11.
    IPR017371. TNFR_11B.
    [Graphical view ]
    Pfami PF00531. Death. 1 hit.
    PF00020. TNFR_c6. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF038065. TNFR_11B. 1 hit.
    PRINTSi PR01961. TNFACTORR11.
    PR01975. TNFACTORR11B.
    SMARTi SM00005. DEATH. 1 hit.
    SM00208. TNFR. 4 hits.
    [Graphical view ]
    SUPFAMi SSF47986. SSF47986. 2 hits.
    PROSITEi PS50017. DEATH_DOMAIN. 1 hit.
    PS00652. TNFR_NGFR_1. 1 hit.
    PS50050. TNFR_NGFR_2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: BALB/c.
      Tissue: Kidney.
    2. "Structure of the mouse osteoclastogenesis inhibitory factor (OCIF) gene and its expression in embryogenesis."
      Mizuno A., Murakami A., Nakagawa N., Yasuda H., Tsuda E., Morinaga T., Higashio K.
      Gene 215:339-343(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], VARIANTS PRO-138; ARG-161; ASP-165; ALA-288 AND ARG-296.
      Strain: 129/Ola and NIH Swiss.
      Tissue: Fibroblast.
    3. "Osteoprotegerin reverses osteoporosis by inhibiting endosteal osteoclasts and prevents vascular calcification by blocking a process resembling osteoclastogenesis."
      Min H., Morony S., Sarosi I., Dunstan C.R., Capparelli C., Scully S., Van G., Kaufman S., Kostenuik P.J., Lacey D.L., Boyle W.J., Simonet W.S.
      J. Exp. Med. 192:463-474(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    4. "RANKL employs distinct binding modes to engage RANK and the osteoprotegerin decoy receptor."
      Nelson C.A., Warren J.T., Wang M.W., Teitelbaum S.L., Fremont D.H.
      Structure 20:1971-1982(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.7 ANGSTROMS) OF 22-197 IN COMPLEX WITH TNFSF11/RANKL, DISULFIDE BONDS.

    Entry informationi

    Entry nameiTR11B_MOUSE
    AccessioniPrimary (citable) accession number: O08712
    Secondary accession number(s): O70202
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 27, 2002
    Last sequence update: July 1, 1997
    Last modified: October 1, 2014
    This is version 117 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3