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Protein

Tumor necrosis factor ligand superfamily member 13

Gene

Tnfsf13

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

Functioni

Cytokine that binds to TNFRSF13B/TACI and to TNFRSF17/BCMA. Plays a role in the regulation of tumor cell growth. May be involved in monocyte/macrophage-mediated immunological processes.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei95 – 962Cleavage; by furinBy similarity

GO - Biological processi

  • immunoglobulin mediated immune response Source: MGI
  • immunoglobulin production in mucosal tissue Source: MGI
  • positive regulation of cell proliferation Source: MGI
  • positive regulation of germinal center formation Source: MGI
  • positive regulation of isotype switching to IgA isotypes Source: MGI
  • regulation of immune response Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Cytokine

Keywords - Biological processi

Immunity

Enzyme and pathway databases

ReactomeiREACT_274491. HuR stabilizes mRNA.

Names & Taxonomyi

Protein namesi
Recommended name:
Tumor necrosis factor ligand superfamily member 13
Alternative name(s):
A proliferation-inducing ligand
Short name:
APRIL
CD_antigen: CD256
Gene namesi
Name:Tnfsf13
Synonyms:April
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:1916833. Tnfsf13.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Propeptidei1 – 9595By similarityPRO_0000034526Add
BLAST
Chaini96 – 241146Tumor necrosis factor ligand superfamily member 13PRO_0000034527Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi115 – 1151N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi187 ↔ 2021 Publication

Post-translational modificationi

The soluble form derives from the membrane form by proteolytic processing.

Keywords - PTMi

Cleavage on pair of basic residues, Disulfide bond, Glycoprotein

Proteomic databases

PRIDEiQ9D777.

PTM databases

PhosphoSiteiQ9D777.

Expressioni

Gene expression databases

BgeeiQ9D777.
ExpressionAtlasiQ9D777. baseline.
GenevisibleiQ9D777. MM.

Interactioni

Subunit structurei

Homotrimer.Curated

Protein-protein interaction databases

IntActiQ9D777. 2 interactions.
STRINGi10090.ENSMUSP00000018896.

Structurei

Secondary structure

1
241
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi108 – 11710Combined sources
Turni120 – 1223Combined sources
Beta strandi125 – 14218Combined sources
Beta strandi145 – 1484Combined sources
Beta strandi152 – 16211Combined sources
Beta strandi165 – 1673Combined sources
Beta strandi172 – 1765Combined sources
Beta strandi181 – 1866Combined sources
Turni195 – 1973Combined sources
Beta strandi200 – 21011Combined sources
Beta strandi215 – 2228Combined sources
Turni231 – 2333Combined sources
Beta strandi234 – 2407Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1U5XX-ray1.80A104-241[»]
1U5YX-ray2.30A/B/D104-241[»]
1U5ZX-ray2.40A104-241[»]
1XU1X-ray1.90A/B/D104-241[»]
1XU2X-ray2.35A/B/D104-241[»]
3K48X-ray2.80A/B/D104-241[»]
ProteinModelPortaliQ9D777.
SMRiQ9D777. Positions 105-241.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9D777.

Family & Domainsi

Sequence similaritiesi

Belongs to the tumor necrosis factor family.Curated

Phylogenomic databases

HOGENOMiHOG000036810.
HOVERGENiHBG104367.
InParanoidiQ9D777.
KOiK05475.
PhylomeDBiQ9D777.

Family and domain databases

Gene3Di2.60.120.40. 1 hit.
InterProiIPR021184. TNF_CS.
IPR006052. TNF_dom.
IPR008983. Tumour_necrosis_fac-like_dom.
[Graphical view]
PfamiPF00229. TNF. 1 hit.
[Graphical view]
SMARTiSM00207. TNF. 1 hit.
[Graphical view]
SUPFAMiSSF49842. SSF49842. 1 hit.
PROSITEiPS00251. TNF_1. 1 hit.
PS50049. TNF_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9D777-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPASSPGHMG GSVREPALSV ALWLSWGAVL GAVTCAVALL IQQTELQSLR
60 70 80 90 100
REVSRLQRSG GPSQKQGERP WQSLWEQSPD VLEAWKDGAK SRRRRAVLTQ
110 120 130 140 150
KHKKKHSVLH LVPVNITSKA DSDVTEVMWQ PVLRRGRGLE AQGDIVRVWD
160 170 180 190 200
TGIYLLYSQV LFHDVTFTMG QVVSREGQGR RETLFRCIRS MPSDPDRAYN
210 220 230 240
SCYSAGVFHL HQGDIITVKI PRANAKLSLS PHGTFLGFVK L
Length:241
Mass (Da):26,889
Last modified:June 1, 2001 - v1
Checksum:i4B96D03BDBC712A4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti120 – 1201Missing in AAG22534 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF294825 mRNA. Translation: AAG22534.1.
AK009514 mRNA. Translation: BAB26332.1.
BC069900 mRNA. Translation: AAH69900.1.
RefSeqiNP_001152977.1. NM_001159505.1.
NP_076006.2. NM_023517.2.
UniGeneiMm.8983.

Genome annotation databases

GeneIDi69583.
KEGGimmu:69583.
UCSCiuc007jrd.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF294825 mRNA. Translation: AAG22534.1.
AK009514 mRNA. Translation: BAB26332.1.
BC069900 mRNA. Translation: AAH69900.1.
RefSeqiNP_001152977.1. NM_001159505.1.
NP_076006.2. NM_023517.2.
UniGeneiMm.8983.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1U5XX-ray1.80A104-241[»]
1U5YX-ray2.30A/B/D104-241[»]
1U5ZX-ray2.40A104-241[»]
1XU1X-ray1.90A/B/D104-241[»]
1XU2X-ray2.35A/B/D104-241[»]
3K48X-ray2.80A/B/D104-241[»]
ProteinModelPortaliQ9D777.
SMRiQ9D777. Positions 105-241.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ9D777. 2 interactions.
STRINGi10090.ENSMUSP00000018896.

PTM databases

PhosphoSiteiQ9D777.

Proteomic databases

PRIDEiQ9D777.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi69583.
KEGGimmu:69583.
UCSCiuc007jrd.1. mouse.

Organism-specific databases

CTDi8741.
MGIiMGI:1916833. Tnfsf13.

Phylogenomic databases

HOGENOMiHOG000036810.
HOVERGENiHBG104367.
InParanoidiQ9D777.
KOiK05475.
PhylomeDBiQ9D777.

Enzyme and pathway databases

ReactomeiREACT_274491. HuR stabilizes mRNA.

Miscellaneous databases

EvolutionaryTraceiQ9D777.
NextBioi329846.
PROiQ9D777.
SOURCEiSearch...

Gene expression databases

BgeeiQ9D777.
ExpressionAtlasiQ9D777. baseline.
GenevisibleiQ9D777. MM.

Family and domain databases

Gene3Di2.60.120.40. 1 hit.
InterProiIPR021184. TNF_CS.
IPR006052. TNF_dom.
IPR008983. Tumour_necrosis_fac-like_dom.
[Graphical view]
PfamiPF00229. TNF. 1 hit.
[Graphical view]
SMARTiSM00207. TNF. 1 hit.
[Graphical view]
SUPFAMiSSF49842. SSF49842. 1 hit.
PROSITEiPS00251. TNF_1. 1 hit.
PS50049. TNF_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Lung.
  2. "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].
    Strain: C57BL/6J.
    Tissue: Tongue.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: 129.
    Tissue: Mammary gland.
  4. Cited for: FUNCTION, TRANSGENIC MICE.
  5. "Structures of APRIL-receptor complexes: like BCMA, TACI employs only a single cysteine-rich domain for high affinity ligand binding."
    Hymowitz S.G., Patel D.R., Wallweber H.J., Runyon S., Yan M., Yin J., Shriver S.K., Gordon N.C., Pan B., Skelton N.J., Kelley R.F., Starovasnik M.A.
    J. Biol. Chem. 280:7218-7227(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 104-241 IN COMPLEX WITH HUMAN TNFRSF17, DISULFIDE BONDS.

Entry informationi

Entry nameiTNF13_MOUSE
AccessioniPrimary (citable) accession number: Q9D777
Secondary accession number(s): Q9ERP1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: June 1, 2001
Last modified: June 24, 2015
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

Transgenic mice develop lymphoid tumors that originate from expansion of the peritoneal B-1 B-cell population. Aging transgenic mice develop progressive hyperplasia in mesenteric lymph nodes and Peyer patches, disorganization of affected lymphoid tissues, mucosal and capsular infiltration, and eventual tumor cell infiltration into non-lymphoid tissues such as kidney and liver (PubMed:15488762).1 Publication

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

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 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.