Tumor necrosis factor receptor superfamily member 3 precursor

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P36941 (TNR3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 130. History...

Clusters with 100%, 90%, 50% identity |

Documents (6) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Tumor necrosis factor receptor superfamily member 3

Alternative name(s):
Lymphotoxin-beta receptor
Tumor necrosis factor C receptor
Tumor necrosis factor receptor 2-related protein
Tumor necrosis factor receptor type III
Short name=TNF-RIII
Short name=TNFR-III

Gene names

Name:	LTBR
Synonyms:	D12S370, TNFCR, TNFR3, TNFRSF3

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	435 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Receptor for the heterotrimeric lymphotoxin containing LTA and LTB, and for TNFS14/LIGHT. Promotes apoptosis via TRAF3 and TRAF5. May play a role in the development of lymphoid organs. Ref.4 Ref.6
Subunit structure	Self-associates. Associates with TRAF3, TRAF4 and TRAF5. Interacts with HCV core protein. Ref.7 Ref.8 Ref.9 Ref.10
Subcellular location	Membrane; Single-pass type I membrane protein.
Sequence similarities	Contains 4 TNFR-Cys repeats.

Ontologies

Keywords
Biological process	Apoptosis Host-virus interaction
Cellular component	Membrane
Coding sequence diversity	Polymorphism
Domain	Repeat Signal Transmembrane Transmembrane helix
Molecular function	Receptor
PTM	Disulfide bond Glycoprotein Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	apoptotic process Inferred from electronic annotation. Source: UniProtKB-KW cellular response to mechanical stimulus Inferred from expression pattern PubMed 19593445. Source: UniProtKB positive regulation of I-kappaB kinase/NF-kappaB cascade Inferred from expression pattern PubMed 12761501. Source: UniProtKB positive regulation of JNK cascade Inferred from mutant phenotype PubMed 20732415. Source: UniProtKB positive regulation of extrinsic apoptotic signaling pathway Inferred from mutant phenotype PubMed 20732415. Source: UniProtKB signal transduction Traceable author statement Ref.4. Source: ProtInc virus-host interaction Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
itself		2	EBI-3509981,EBI-3509981
ZMYND11	Q15326	5	EBI-3509981,EBI-2799565

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 30

Potential

Chain

31 – 435

405

Tumor necrosis factor receptor superfamily member 3

PRO_0000034552

Regions

Topological domain

31 – 227

197

Extracellular Potential

Transmembrane

228 – 248

Helical; Potential

Topological domain

249 – 435

187

Cytoplasmic Potential

Repeat

42 – 81

TNFR-Cys 1

Repeat

82 – 124

TNFR-Cys 2

Repeat

125 – 168

TNFR-Cys 3

Repeat

169 – 211

TNFR-Cys 4

Amino acid modifications

Modified residue

323

Phosphoserine Ref.11

Glycosylation

N-linked (GlcNAc...) Potential

Glycosylation

177

N-linked (GlcNAc...) Potential

Disulfide bond

43 ↔ 58

By similarity

Disulfide bond

59 ↔ 72

By similarity

Disulfide bond

62 ↔ 80

By similarity

Disulfide bond

83 ↔ 98

By similarity

Disulfide bond

101 ↔ 116

By similarity

Disulfide bond

104 ↔ 124

By similarity

Disulfide bond

126 ↔ 132

By similarity

Disulfide bond

139 ↔ 148

By similarity

Disulfide bond

142 ↔ 167

By similarity

Disulfide bond

170 ↔ 185

By similarity

Natural variations

Natural variant

274

V → I.
Corresponds to variant rs35681405 [ dbSNP | Ensembl ].

VAR_052346

Sequences

Sequence

Length

Mass (Da)

Tools

P36941 [UniParc].

Last modified June 1, 1994. Version 1.
Checksum: 624626E6022F656F
Show »

FASTA

435

46,709

        10         20         30         40         50         60 
MLLPWATSAP GLAWGPLVLG LFGLLAASQP QAVPPYASEN QTCRDQEKEY YEPQHRICCS 

        70         80         90        100        110        120 
RCPPGTYVSA KCSRIRDTVC ATCAENSYNE HWNYLTICQL CRPCDPVMGL EEIAPCTSKR 

       130        140        150        160        170        180 
KTQCRCQPGM FCAAWALECT HCELLSDCPP GTEAELKDEV GKGNNHCVPC KAGHFQNTSS 

       190        200        210        220        230        240 
PSARCQPHTR CENQGLVEAA PGTAQSDTTC KNPLEPLPPE MSGTMLMLAV LLPLAFFLLL 

       250        260        270        280        290        300 
ATVFSCIWKS HPSLCRKLGS LLKRRPQGEG PNPVAGSWEP PKAHPYFPDL VQPLLPISGD 

       310        320        330        340        350        360 
VSPVSTGLPA APVLEAGVPQ QQSPLDLTRE PQLEPGEQSQ VAHGTNGIHV TGGSMTITGN 

       370        380        390        400        410        420 
IYIYNGPVLG GPPGPGDLPA TPEPPYPIPE EGDPGPPGLS TPHQEDGKAW HLAETEHCGA 

       430 
TPSNRGPRNQ FITHD

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Construction and evaluation of a hncDNA library of human 12p transcribed sequences derived from a somatic cell hybrid." Baens M., Chaffanet M., Cassiman J.-J., van den Berghe H., Marynen P. Genomics 16:214-218(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Liver.
[2]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[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]. Tissue: Lung.
[4]	"A lymphotoxin-beta-specific receptor." Crowe P.D., VanArsdale T.L., Walter B.N., Ware C.F., Hession C., Ehrenfels B., Browning J.L., Din W.S., Goodwin R.G., Smith C.A. Science 264:707-710(1994) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[5]	"The cytoplasmic domain of the lymphotoxin-beta receptor mediates cell death in HeLa cells." Wu M.-Y., Wang P.-Y., Han S.-H., Hsieh S.-L. J. Biol. Chem. 274:11868-11873(1999) [PubMed] [Europe PMC] [Abstract] Cited for: CHARACTERIZATION.
[6]	"The lymphotoxin-beta receptor is necessary and sufficient for LIGHT-mediated apoptosis of tumor cells." Rooney I.A., Butrovich K.D., Glass A.A., Borboroglu S., Benedict C.A., Whitbeck J.C., Cohen G.H., Eisenberg R.J., Ware C.F. J. Biol. Chem. 275:14307-14315(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[7]	"TRAF5, an activator of NF-kappaB and putative signal transducer for the lymphotoxin-beta receptor." Nakano H., Oshima H., Chung W., Williams-Abbott L., Ware C.F., Yagita H., Okumura K. J. Biol. Chem. 271:14661-14664(1996) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH TRAF3.
[8]	"Hepatitis C virus core protein interacts with the cytoplasmic tail of lymphotoxin-beta receptor." Matsumoto M., Hsieh T.-Y., Zhu N., VanArsdale T., Hwang S.B., Jeng K.-S., Gorbalenya A.E., Lo S.-Y., Ou J.-H., Ware C.F., Lai M.M.C. J. Virol. 71:1301-1309(1997) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH HCV CORE PROTEIN.
[9]	"TRAF-4 expression in epithelial progenitor cells. Analysis in normal adult, fetal, and tumor tissues." Krajewska M., Krajewski S., Zapata J.M., VanArsdale T., Gascoyne R.D., Berern K., McFadden D., Shabaik A., Hugh J., Reynolds A., Clevenger C.V., Reed J.C. Am. J. Pathol. 152:1549-1561(1998) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH TRAF4.
[10]	"Cloning and characterization of a cDNA encoding the human homolog of tumor necrosis factor receptor-associated factor 5 (TRAF5)." Mizushima S., Fujita M., Ishida T., Azuma S., Kato K., Hirai M., Otsuka M., Yamamoto T., Inoue J. Gene 207:135-140(1998) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH TRAF5.
[11]	"Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle." Daub H., Olsen J.V., Bairlein M., Gnad F., Oppermann F.S., Korner R., Greff Z., Keri G., Stemmann O., Mann M. Mol. Cell 31:438-448(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-323, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[12]	"Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. Tissue: Cervix carcinoma.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

L04270 mRNA. Translation: AAA36757.1.
CH471116 Genomic DNA. Translation: EAW88801.1.
CH471116 Genomic DNA. Translation: EAW88802.1.
BC026262 mRNA. Translation: AAH26262.1.

IPI

IPI00006097.

PIR

I54182.

RefSeq

NP_001257916.1. NM_001270987.1.
NP_002333.1. NM_002342.2.

UniGene

Hs.1116.
Hs.591047.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1RF3	X-ray	3.50	B	385-408	[»]

ProteinModelPortal

P36941.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-2928N.

IntAct

P36941. 6 interactions.

STRING

9606.ENSP00000228918.

PTM databases

PhosphoSite

P36941.

Polymorphism databases

DMDM

549090.

Proteomic databases

PaxDb

P36941.

PeptideAtlas

P36941.

PRIDE

P36941.

Protocols and materials databases

DNASU

4055.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000228918; ENSP00000228918; ENSG00000111321.

GeneID

4055.

KEGG

hsa:4055.

UCSC

uc001qny.1. human.

Organism-specific databases

CTD

4055.

GeneCards

GC12P006467.

HGNC

HGNC:6718. LTBR.

HPA

CAB026202.

MIM

600979. gene.

neXtProt

NX_P36941.

PharmGKB

PA30481.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG38845.

HOGENOM

HOG000294180.

HOVERGEN

HBG023187.

InParanoid

P36941.

K03159.

OMA

TVTGNIY.

OrthoDB

EOG41ZFC0.

PhylomeDB

P36941.

Gene expression databases

ArrayExpress

P36941.

Bgee

P36941.

CleanEx

HS_LTBR.

Genevestigator

P36941.

GermOnline

ENSG00000111321. Homo sapiens.

Family and domain databases

InterPro

IPR001368. TNFR/NGFR_Cys_rich_reg.
IPR017349. TNFR_3_LTBR.
[Graphical view]

Pfam

PF00020. TNFR_c6. 2 hits.
[Graphical view]

PIRSF

PIRSF037999. TNFR_3_LTBR. 1 hit.

PRINTS

PR01920. TNFACTORR3.

SMART

SM00208. TNFR. 4 hits.
[Graphical view]

PROSITE

PS00652. TNFR_NGFR_1. 2 hits.
PS50050. TNFR_NGFR_2. 3 hits.
[Graphical view]

ProtoNet

Search...

Other

ChEMBL

CHEMBL1250360.

ChiTaRS

LTBR. human.

EvolutionaryTrace

P36941.

GenomeRNAi

4055.

NextBio

15888.

SOURCE

Search...

Entry information

Entry name

TNR3_HUMAN

Accession

Primary (citable) accession number: P36941
Secondary accession number(s): D3DUR2

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 1994
Last sequence update:	June 1, 1994
Last modified:	May 1, 2013
This is version 130 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.

Relevant documents

Human chromosome 12

Human chromosome 12: entries, gene names and cross-references to MIM

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Natural variations

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Polymorphism databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents