Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Tumor necrosis factor receptor superfamily member 13C

Gene

Tnfrsf13c

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.1 Publication

GO - Biological processi

  • adaptive immune response Source: UniProtKB-KW
  • B cell costimulation Source: MGI
  • B cell homeostasis Source: MGI
  • positive regulation of B cell proliferation Source: MGI
  • positive regulation of germinal center formation Source: MGI
  • positive regulation of interferon-gamma biosynthetic process Source: MGI
  • positive regulation of T cell proliferation Source: MGI
  • regulation of immune response Source: MGI
  • T cell costimulation Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Biological processi

Adaptive immunity, Immunity

Enzyme and pathway databases

ReactomeiR-MMU-5668541. TNFR2 non-canonical NF-kB pathway.
R-MMU-5676594. TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Tumor necrosis factor receptor superfamily member 13C
Alternative name(s):
B-cell maturation defect
B-cell-activating factor receptor
BAFF receptor
Short name:
BAFF-R
BLyS receptor 3
CD_antigen: CD268
Gene namesi
Name:Tnfrsf13c
Synonyms:Baffr, Bcmd, Br3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 15

Organism-specific databases

MGIiMGI:1919299. Tnfrsf13c.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 7171ExtracellularSequence analysisAdd
BLAST
Transmembranei72 – 9221Helical; Signal-anchor for type III membrane proteinSequence analysisAdd
BLAST
Topological domaini93 – 17583CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • external side of plasma membrane Source: MGI
  • integral component of membrane Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Involvement in diseasei

Defects in Tnfrsf13c are a cause of severe B-cell deficiency. B-cell deficient strain A/WySnJ has a 4.7 kb insertion in the BAFFR gene leading to an altered C-terminus. The mutant RNA is not detectable. B-cell lymphopoiesis is normal, but the life span of peripheral B-cells is much reduced.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 175175Tumor necrosis factor receptor superfamily member 13CPRO_0000058934Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi22 ↔ 35By similarity
Glycosylationi23 – 231N-linked (GlcNAc...)Sequence analysis
Disulfide bondi27 ↔ 38By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ9D8D0.
PRIDEiQ9D8D0.

PTM databases

PhosphoSiteiQ9D8D0.

Expressioni

Tissue specificityi

Highly expressed in spleen and testis; detected at lower levels in lung and thymus.

Gene expression databases

BgeeiQ9D8D0.
ExpressionAtlasiQ9D8D0. baseline and differential.
GenevisibleiQ9D8D0. MM.

Interactioni

Protein-protein interaction databases

BioGridi215117. 3 interactions.
STRINGi10090.ENSMUSP00000086564.

Structurei

3D structure databases

ProteinModelPortaliQ9D8D0.
SMRiQ9D8D0. Positions 16-42.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati21 – 3818TNFR-Cys; truncatedAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni29 – 346Essential for TNFSF13B/TALL1/BAFF/BLyS bindingBy similarity

Sequence similaritiesi

Contains 1 TNFR-Cys repeat.Curated

Keywords - Domaini

Signal-anchor, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410JCDG. Eukaryota.
ENOG41114DK. LUCA.
GeneTreeiENSGT00390000015844.
HOGENOMiHOG000132919.
HOVERGENiHBG055867.
InParanoidiQ9D8D0.
KOiK05151.
OrthoDBiEOG7FBRM4.
PhylomeDBiQ9D8D0.

Family and domain databases

InterProiIPR022338. TNFR_13C.
IPR015336. TNFR_13C_TALL-1-bd.
[Graphical view]
PfamiPF09256. BaffR-Tall_bind. 1 hit.
[Graphical view]
PRINTSiPR01964. TNFACTORR13C.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9D8D0-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MGARRLRVRS QRSRDSSVPT QCNQTECFDP LVRNCVSCEL FHTPDTGHTS
60 70 80 90 100
SLEPGTALQP QEGSALRPDV ALLVGAPALL GLILALTLVG LVSLVSWRWR
110 120 130 140 150
QQLRTASPDT SEGVQQESLE NVFVPSSETP HASAPTWPPL KEDADSALPR
160 170
HSVPVPATEL GSTELVTTKT AGPEQ
Length:175
Mass (Da):18,798
Last modified:June 1, 2001 - v1
Checksum:i28BC7C1A02FB87EF
GO
Isoform 2 (identifier: Q9D8D0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     133-143: Missing.

Show »
Length:164
Mass (Da):17,576
Checksum:iD4B67752267BC706
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei133 – 14311Missing in isoform 2. 1 PublicationVSP_006506Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF373847 mRNA. Translation: AAK91827.1.
AK008142 mRNA. Translation: BAB25490.1.
CCDSiCCDS27684.1. [Q9D8D0-1]
RefSeqiNP_082351.1. NM_028075.2. [Q9D8D0-1]
UniGeneiMm.240047.

Genome annotation databases

EnsembliENSMUST00000089161; ENSMUSP00000086564; ENSMUSG00000068105. [Q9D8D0-1]
GeneIDi72049.
KEGGimmu:72049.
UCSCiuc007wyj.1. mouse. [Q9D8D0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF373847 mRNA. Translation: AAK91827.1.
AK008142 mRNA. Translation: BAB25490.1.
CCDSiCCDS27684.1. [Q9D8D0-1]
RefSeqiNP_082351.1. NM_028075.2. [Q9D8D0-1]
UniGeneiMm.240047.

3D structure databases

ProteinModelPortaliQ9D8D0.
SMRiQ9D8D0. Positions 16-42.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi215117. 3 interactions.
STRINGi10090.ENSMUSP00000086564.

PTM databases

PhosphoSiteiQ9D8D0.

Proteomic databases

PaxDbiQ9D8D0.
PRIDEiQ9D8D0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000089161; ENSMUSP00000086564; ENSMUSG00000068105. [Q9D8D0-1]
GeneIDi72049.
KEGGimmu:72049.
UCSCiuc007wyj.1. mouse. [Q9D8D0-1]

Organism-specific databases

CTDi115650.
MGIiMGI:1919299. Tnfrsf13c.

Phylogenomic databases

eggNOGiENOG410JCDG. Eukaryota.
ENOG41114DK. LUCA.
GeneTreeiENSGT00390000015844.
HOGENOMiHOG000132919.
HOVERGENiHBG055867.
InParanoidiQ9D8D0.
KOiK05151.
OrthoDBiEOG7FBRM4.
PhylomeDBiQ9D8D0.

Enzyme and pathway databases

ReactomeiR-MMU-5668541. TNFR2 non-canonical NF-kB pathway.
R-MMU-5676594. TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway.

Miscellaneous databases

NextBioi335312.
PROiQ9D8D0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9D8D0.
ExpressionAtlasiQ9D8D0. baseline and differential.
GenevisibleiQ9D8D0. MM.

Family and domain databases

InterProiIPR022338. TNFR_13C.
IPR015336. TNFR_13C_TALL-1-bd.
[Graphical view]
PfamiPF09256. BaffR-Tall_bind. 1 hit.
[Graphical view]
PRINTSiPR01964. TNFACTORR13C.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
    Strain: BALB/cJ.
    Tissue: B-cell lymphoma.
  2. "Identification of a novel receptor for B lymphocyte stimulator that is mutated in a mouse strain with severe B cell deficiency."
    Yan M., Brady J.R., Chan B., Lee W.P., Hsu B., Harless S.M., Cancro M.P., Grewal I.S., Dixit V.M.
    Curr. Biol. 11:1547-1552(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), DISEASE.
    Strain: A/J.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: C57BL/6J.
    Tissue: Small intestine.
  4. "Competition for BLyS-mediated signaling through Bcmd/BR3 regulates peripheral B lymphocyte numbers."
    Harless S.M., Lentz V.M., Sah A.P., Hsu B.L., Clise-Dwyer K., Hilbert D.M., Hayes C.E., Cancro M.P.
    Curr. Biol. 11:1986-1989(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Spleen.

Entry informationi

Entry nameiTR13C_MOUSE
AccessioniPrimary (citable) accession number: Q9D8D0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 27, 2002
Last sequence update: June 1, 2001
Last modified: November 11, 2015
This is version 105 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

Complete proteome, Reference proteome

Documents

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.