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Protein

Tumor necrosis factor ligand superfamily member 13B

Gene

TNFSF13B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Cytokine that binds to TNFRSF13B/TACI and TNFRSF17/BCMA. TNFSF13/APRIL binds to the same 2 receptors. Together, they form a 2 ligands -2 receptors pathway involved in the stimulation of B- and T-cell function and the regulation of humoral immunity. A third B-cell specific BAFF-receptor (BAFFR/BR3) promotes the survival of mature B-cells and the B-cell response.1 Publication
Isoform 2 seems to inhibit isoform 1 secretion and bioactivity.By similarity
Isoform 3: Acts as a transcription factor for its own parent gene, in association with NF-kappa-B p50 subunit, at least in autoimmune and proliferative B-cell diseases. The presence of Delta4BAFF is essential for soluble BAFF release by IFNG/IFN-gamma-stimulated monocytes and for B-cell survival. It can directly or indirectly regulate the differential expression of a large number of genes involved in the innate immune response and the regulation of apoptosis.1 Publication

GO - Molecular functioni

  • cytokine activity Source: UniProtKB-KW
  • signaling receptor binding Source: ProtInc
  • tumor necrosis factor receptor binding Source: InterPro

GO - Biological processi

Keywordsi

Molecular functionCytokine
Biological processImmunity

Enzyme and pathway databases

ReactomeiR-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-5669034 TNFs bind their physiological receptors
R-HSA-5676594 TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway
SIGNORiQ9Y275

Names & Taxonomyi

Protein namesi
Recommended name:
Tumor necrosis factor ligand superfamily member 13B
Alternative name(s):
B lymphocyte stimulator
Short name:
BLyS
B-cell-activating factor
BAFF
Dendritic cell-derived TNF-like molecule
TNF- and APOL-related leukocyte expressed ligand 1
Short name:
TALL-1
CD_antigen: CD257
Cleaved into the following 2 chains:
Gene namesi
Name:TNFSF13B
Synonyms:BAFF, BLYS, TALL1, TNFSF20, ZTNF4
ORF Names:UNQ401/PRO738
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 13

Organism-specific databases

EuPathDBiHostDB:ENSG00000102524.11
HGNCiHGNC:11929 TNFSF13B
MIMi603969 gene
neXtProtiNX_Q9Y275

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 46CytoplasmicSequence analysisAdd BLAST46
Transmembranei47 – 67Helical; Signal-anchor for type II membrane proteinSequence analysisAdd BLAST21
Topological domaini68 – 285ExtracellularSequence analysisAdd BLAST218

Keywords - Cellular componenti

Cell membrane, Membrane, Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi10673
OpenTargetsiENSG00000102524
PharmGKBiPA434

Chemistry databases

ChEMBLiCHEMBL2364158
DrugBankiDB08879 Belimumab
DB04272 Citric Acid

Polymorphism and mutation databases

BioMutaiTNFSF13B
DMDMi13124573

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000345281 – 285Tumor necrosis factor ligand superfamily member 13b, membrane formAdd BLAST285
ChainiPRO_0000034529134 – 285Tumor necrosis factor ligand superfamily member 13b, soluble formAdd BLAST152

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi124N-linked (GlcNAc...) asparagine1
Disulfide bondi232 ↔ 245
Glycosylationi242N-linked (GlcNAc...) (high mannose) asparagine1

Post-translational modificationi

The soluble form derives from the membrane form by proteolytic processing.
Isoform 2 is not efficiently shed from the membrane unlike isoform 1.By similarity
N-glycosylated.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei133 – 134Cleavage2

Keywords - PTMi

Cleavage on pair of basic residues, Disulfide bond, Glycoprotein

Proteomic databases

EPDiQ9Y275
PaxDbiQ9Y275
PeptideAtlasiQ9Y275
PRIDEiQ9Y275
ProteomicsDBi85677
85678 [Q9Y275-2]

PTM databases

iPTMnetiQ9Y275
PhosphoSitePlusiQ9Y275

Expressioni

Tissue specificityi

Abundantly expressed in peripheral blood Leukocytes and is specifically expressed in monocytes and macrophages. Also found in the spleen, lymph node, bone marrow, T-cells and dendritic cells. A lower expression seen in placenta, heart, lung, fetal liver, thymus, and pancreas. Isoform 2 is expressed in many myeloid cell lines.1 Publication

Inductioni

Up-regulated by exposure to IFNG/IFN-gamma. Down-regulated by phorbol myristate acetate/ionomycin treatment.

Gene expression databases

BgeeiENSG00000102524 Expressed in 176 organ(s), highest expression level in blood
CleanExiHS_TNFSF13B
ExpressionAtlasiQ9Y275 baseline and differential
GenevisibleiQ9Y275 HS

Organism-specific databases

HPAiCAB009188

Interactioni

Subunit structurei

Homotrimer. Isoform 2 heteromultimerizes with isoform 1, probably limiting the amount of functional isoform 1 on the cell surface. Isoform 3 is unlikely form trimers or bind to BAFF receptors.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
TNFRSF13BO148367EBI-519169,EBI-519160

GO - Molecular functioni

Protein-protein interaction databases

BioGridi115915, 54 interactors
CORUMiQ9Y275
DIPiDIP-6225N
IntActiQ9Y275, 2 interactors
STRINGi9606.ENSP00000365048

Structurei

Secondary structure

1285
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ9Y275
SMRiQ9Y275
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Y275

Family & Domainsi

Sequence similaritiesi

Belongs to the tumor necrosis factor family.Curated

Keywords - Domaini

Signal-anchor, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IHQ4 Eukaryota
ENOG4111XFQ LUCA
GeneTreeiENSGT00530000063837
HOGENOMiHOG000036810
HOVERGENiHBG061472
InParanoidiQ9Y275
KOiK05476
OMAiMDDSTER
OrthoDBiEOG091G0GBQ
PhylomeDBiQ9Y275
TreeFamiTF332331

Family and domain databases

CDDicd00184 TNF, 1 hit
Gene3Di2.60.120.40, 1 hit
InterProiView protein in InterPro
IPR006052 TNF_dom
IPR008983 Tumour_necrosis_fac-like_dom
PfamiView protein in Pfam
PF00229 TNF, 1 hit
SUPFAMiSSF49842 SSF49842, 1 hit
PROSITEiView protein in PROSITE
PS50049 TNF_2, 1 hit

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q9Y275-1) [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
MDDSTEREQS RLTSCLKKRE EMKLKECVSI LPRKESPSVR SSKDGKLLAA
60 70 80 90 100
TLLLALLSCC LTVVSFYQVA ALQGDLASLR AELQGHHAEK LPAGAGAPKA
110 120 130 140 150
GLEEAPAVTA GLKIFEPPAP GEGNSSQNSR NKRAVQGPEE TVTQDCLQLI
160 170 180 190 200
ADSETPTIQK GSYTFVPWLL SFKRGSALEE KENKILVKET GYFFIYGQVL
210 220 230 240 250
YTDKTYAMGH LIQRKKVHVF GDELSLVTLF RCIQNMPETL PNNSCYSAGI
260 270 280
AKLEEGDELQ LAIPRENAQI SLDGDVTFFG ALKLL
Length:285
Mass (Da):31,223
Last modified:November 1, 1999 - v1
Checksum:i48ED0D7AB38C8867
GO
Isoform 2 (identifier: Q9Y275-2) [UniParc]FASTAAdd to basket
Also known as: DeltaBAFF

The sequence of this isoform differs from the canonical sequence as follows:
     142-160: Missing.

Show »
Length:266
Mass (Da):29,137
Checksum:i6BD06F90061152C6
GO
Isoform 3 (identifier: Q9Y275-3) [UniParc]FASTAAdd to basket
Also known as: Delta4BAFF

The sequence of this isoform differs from the canonical sequence as follows:
     162-164: SYT → FIY
     165-285: Missing.

Show »
Length:164
Mass (Da):17,578
Checksum:iF74F5E404973B730
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_013483105A → T1 PublicationCorresponds to variant dbSNP:rs201543678Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_041183142 – 160Missing in isoform 2. 1 PublicationAdd BLAST19
Alternative sequenceiVSP_047591162 – 164SYT → FIY in isoform 3. 1 Publication3
Alternative sequenceiVSP_047592165 – 285Missing in isoform 3. 1 PublicationAdd BLAST121

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF136293 mRNA Translation: AAD29421.1
AF116456 mRNA Translation: AAD25356.1
AF132600 mRNA Translation: AAD21092.1
AY302751 mRNA Translation: AAP83164.1
HM636064 mRNA Translation: ADK91575.1
AF186114 mRNA Translation: AAF01432.1
AF134715 mRNA Translation: AAF60219.1
AY129225 mRNA Translation: AAN08421.1
EF064706 Genomic DNA Translation: ABK41889.1
AY358881 mRNA Translation: AAQ89240.1
CR541818 mRNA Translation: CAG46617.1
AL157762 Genomic DNA No translation available.
CH471085 Genomic DNA Translation: EAX09099.1
BC020674 mRNA Translation: AAH20674.1
AB073225 Genomic DNA Translation: BAB90856.1
CCDSiCCDS45067.1 [Q9Y275-2]
CCDS9509.1 [Q9Y275-1]
RefSeqiNP_001139117.1, NM_001145645.2 [Q9Y275-2]
NP_006564.1, NM_006573.4 [Q9Y275-1]
UniGeneiHs.525157

Genome annotation databases

EnsembliENST00000375887; ENSP00000365048; ENSG00000102524 [Q9Y275-1]
ENST00000430559; ENSP00000389540; ENSG00000102524 [Q9Y275-2]
ENST00000542136; ENSP00000445334; ENSG00000102524 [Q9Y275-3]
GeneIDi10673
KEGGihsa:10673
UCSCiuc001vqr.4 human [Q9Y275-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Web resourcesi

Protein Spotlight

Proteic grace - Issue 77 of December 2006

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF136293 mRNA Translation: AAD29421.1
AF116456 mRNA Translation: AAD25356.1
AF132600 mRNA Translation: AAD21092.1
AY302751 mRNA Translation: AAP83164.1
HM636064 mRNA Translation: ADK91575.1
AF186114 mRNA Translation: AAF01432.1
AF134715 mRNA Translation: AAF60219.1
AY129225 mRNA Translation: AAN08421.1
EF064706 Genomic DNA Translation: ABK41889.1
AY358881 mRNA Translation: AAQ89240.1
CR541818 mRNA Translation: CAG46617.1
AL157762 Genomic DNA No translation available.
CH471085 Genomic DNA Translation: EAX09099.1
BC020674 mRNA Translation: AAH20674.1
AB073225 Genomic DNA Translation: BAB90856.1
CCDSiCCDS45067.1 [Q9Y275-2]
CCDS9509.1 [Q9Y275-1]
RefSeqiNP_001139117.1, NM_001145645.2 [Q9Y275-2]
NP_006564.1, NM_006573.4 [Q9Y275-1]
UniGeneiHs.525157

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1JH5X-ray3.00A/B/C/D/E/F/G/H/I/J142-285[»]
1KD7X-ray2.80A/B/C/K/L/M133-285[»]
1KXGX-ray2.00A/B/C/D/E/F134-285[»]
1OQDX-ray2.60A/B/C/D/E/F/G/H/I/J142-285[»]
1OQEX-ray2.50A/B/C/D/E/F/G/H/I/J142-285[»]
1OSGX-ray3.00A/B/C/D/E/F82-285[»]
3V56X-ray3.00A/B/C/D/E/F82-285[»]
4V46X-ray3.30A0/A1/A2/A3/A4/A5/A6/A7/A8/A9/AA/AB/AC/AD/AE/AF/AG/AH/AI/AJ/AK/AL/AM/AN/AO/AP/AQ/AR/AS/AT/AU/AV/AW/AX/AY/AZ/Aa/Ab/Ac/Ad/Ae/Af/Ag/Ah/Ai/Aj/Ak/Al/Am/An/Ao/Ap/Aq/Ar/As/At/Au/Av/Aw/Ax138-285[»]
4ZCHX-ray2.43A/B140-285[»]
5Y9JX-ray2.05A134-285[»]
6FXNX-ray2.90A/B/C/J/K/L134-285[»]
ProteinModelPortaliQ9Y275
SMRiQ9Y275
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115915, 54 interactors
CORUMiQ9Y275
DIPiDIP-6225N
IntActiQ9Y275, 2 interactors
STRINGi9606.ENSP00000365048

Chemistry databases

ChEMBLiCHEMBL2364158
DrugBankiDB08879 Belimumab
DB04272 Citric Acid

PTM databases

iPTMnetiQ9Y275
PhosphoSitePlusiQ9Y275

Polymorphism and mutation databases

BioMutaiTNFSF13B
DMDMi13124573

Proteomic databases

EPDiQ9Y275
PaxDbiQ9Y275
PeptideAtlasiQ9Y275
PRIDEiQ9Y275
ProteomicsDBi85677
85678 [Q9Y275-2]

Protocols and materials databases

DNASUi10673
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000375887; ENSP00000365048; ENSG00000102524 [Q9Y275-1]
ENST00000430559; ENSP00000389540; ENSG00000102524 [Q9Y275-2]
ENST00000542136; ENSP00000445334; ENSG00000102524 [Q9Y275-3]
GeneIDi10673
KEGGihsa:10673
UCSCiuc001vqr.4 human [Q9Y275-1]

Organism-specific databases

CTDi10673
DisGeNETi10673
EuPathDBiHostDB:ENSG00000102524.11
GeneCardsiTNFSF13B
HGNCiHGNC:11929 TNFSF13B
HPAiCAB009188
MIMi603969 gene
neXtProtiNX_Q9Y275
OpenTargetsiENSG00000102524
PharmGKBiPA434
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IHQ4 Eukaryota
ENOG4111XFQ LUCA
GeneTreeiENSGT00530000063837
HOGENOMiHOG000036810
HOVERGENiHBG061472
InParanoidiQ9Y275
KOiK05476
OMAiMDDSTER
OrthoDBiEOG091G0GBQ
PhylomeDBiQ9Y275
TreeFamiTF332331

Enzyme and pathway databases

ReactomeiR-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-5669034 TNFs bind their physiological receptors
R-HSA-5676594 TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway
SIGNORiQ9Y275

Miscellaneous databases

ChiTaRSiTNFSF13B human
EvolutionaryTraceiQ9Y275
GeneWikiiB-cell_activating_factor
GenomeRNAii10673
PROiPR:Q9Y275
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000102524 Expressed in 176 organ(s), highest expression level in blood
CleanExiHS_TNFSF13B
ExpressionAtlasiQ9Y275 baseline and differential
GenevisibleiQ9Y275 HS

Family and domain databases

CDDicd00184 TNF, 1 hit
Gene3Di2.60.120.40, 1 hit
InterProiView protein in InterPro
IPR006052 TNF_dom
IPR008983 Tumour_necrosis_fac-like_dom
PfamiView protein in Pfam
PF00229 TNF, 1 hit
SUPFAMiSSF49842 SSF49842, 1 hit
PROSITEiView protein in PROSITE
PS50049 TNF_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiTN13B_HUMAN
AccessioniPrimary (citable) accession number: Q9Y275
Secondary accession number(s): E0ADT7, Q6FHD6, Q7Z5J2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 21, 2001
Last sequence update: November 1, 1999
Last modified: September 12, 2018
This is version 188 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 13
    Human chromosome 13: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Human cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  5. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  6. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  7. Protein Spotlight
    Protein Spotlight articles and cited UniProtKB/Swiss-Prot entries
  8. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
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Main funding by: National Institutes of Health

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