Tumor necrosis factor receptor superfamily member 16 precursor

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Reviewed, UniProtKB/Swiss-Prot P07174 (TNR16_RAT)

Last modified July 22, 2008. Version 86. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
    Tumor necrosis factor receptor superfamily member 16
Alternative name(s):
    Low-affinity nerve growth factor receptor
      Short name=NGF receptor
    Gp80-LNGFR
    p75 ICD
    Low affinity neurotrophin receptor p75NTR
    CD_antigen=CD271

Gene names

Name:	Ngfr
Synonyms:	Tnfrsf16

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

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Protein attributes

Sequence length	425 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	Low affinity receptor which can bind to NGF, BDNF, NT-3, and NT-4. Can mediate cell survival as well as cell death of neural cells.
Subunit structure	Homodimer; disulfide-linked. Interacts with p75NTR-associated cell death executor. Interacts with NGFRAP1/BEX3. Interacts with TRAF2, TRAF4, TRAF6, PTPN13 and RANBP9. Interacts through TRAF6 with SQSTM1 which bridges NGFR to NTRK1 By similarity. Interacts with BEX1. Interacts with ARMS and NTRK1. Can form a ternary complex with NTRK1 and ARMS and this complex is affected by the expression levels of ARMS. An increase in ARMS expression leads to a decreased association of NGFR and NTRK1. Interacts with LINGO1 By similarity.
Subcellular location	Membrane; Single-pass type I membrane protein.
Domain	Death domain is responsible for interaction with RANBP9. The extracellular domain is responsible for interaction with NTRK1.
Post-translational modification	N- and O-glycosylated. Phosphorylated on serine residues.
Sequence similarities	Contains 1 death domain. Contains 4 TNFR-Cys repeats.

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Ontologies

Keywords
Biological process	Apoptosis Differentiation Neurogenesis
Cellular component	Membrane
Domain	Repeat Signal Transmembrane
Molecular function	Developmental protein Receptor
PTM	Glycoprotein Phosphoprotein
Technical term	3D-structure
Gene Ontology (GO)
None. [Check GOA]

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Molecule processing

Signal peptide

1 – 29

Chain

30 – 425

396

Tumor necrosis factor receptor superfamily member 16

Regions

Topological domain

30 – 251

222

Extracellular Potential

Transmembrane

252 – 273

Potential

Topological domain

274 – 425

152

Cytoplasmic Potential

Repeat

32 – 65

TNFR-Cys 1

Repeat

67 – 108

TNFR-Cys 2

Repeat

109 – 147

TNFR-Cys 3

Repeat

149 – 189

TNFR-Cys 4

Domain

354 – 419

Death

Region

327 – 342

Mediates interaction with ARMS

Compositional bias

198 – 249

Ser/Thr-rich

Amino acid modifications

Glycosylation

N-linked (GlcNAc...) Potential

Glycosylation

N-linked (GlcNAc...) Potential

Disulfide bond

33 ↔ 44

By similarity

Disulfide bond

45 ↔ 58

By similarity

Disulfide bond

48 ↔ 65

By similarity

Disulfide bond

68 ↔ 84

By similarity

Disulfide bond

87 ↔ 100

By similarity

Disulfide bond

90 ↔ 108

By similarity

Disulfide bond

110 ↔ 123

By similarity

Disulfide bond

126 ↔ 139

By similarity

Disulfide bond

129 ↔ 147

By similarity

Disulfide bond

150 ↔ 165

By similarity

Disulfide bond

168 ↔ 181

By similarity

Disulfide bond

171 ↔ 189

By similarity

Secondary structure

425

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P07174-1 [UniParc].

Last modified April 1, 1988. Version 1.
Checksum: B2E152D94D3827F8
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FASTA

425

45,433

        10         20         30         40         50         60 
MRRAGAACSA MDRLRLLLLL ILGVSSGGAK ETCSTGLYTH SGECCKACNL GEGVAQPCGA 

        70         80         90        100        110        120 
NQTVCEPCLD NVTFSDVVSA TEPCKPCTEC LGLQSMSAPC VEADDAVCRC AYGYYQDEET 

       130        140        150        160        170        180 
GHCEACSVCE VGSGLVFSCQ DKQNTVCEEC PEGTYSDEAN HVDPCLPCTV CEDTERQLRE 

       190        200        210        220        230        240 
CTPWADAECE EIPGRWIPRS TPPEGSDSTA PSTQEPEVPP EQDLVPSTVA DMVTTVMGSS 

       250        260        270        280        290        300 
QPVVTRGTTD NLIPVYCSIL AAVVVGLVAY IAFKRWNSCK QNKQGANSRP VNQTPPPEGE 

       310        320        330        340        350        360 
KLHSDSGISV DSQSLHDQQT HTQTASGQAL KGDGNLYSSL PLTKREEVEK LLNGDTWRHL 

       370        380        390        400        410        420 
AGELGYQPEH IDSFTHEACP VRALLASWGA QDSATLDALL AALRRIQRAD IVESLCSEST 


ATSPV

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References

[1]	"Gene transfer and molecular cloning of the rat nerve growth factor receptor." Radeke M.J., Misko T.P., Hsu C., Herzenberg L.A., Shooter E.M. Nature 325:593-597(1987) [PubMed: 3027580] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"Regulatory elements and transcriptional regulation by testosterone and retinoic acid of the rat nerve growth factor receptor promoter." Metsis M., Timmusk T., Allikmets R., Saarma M., Persson H. Gene 121:247-254(1992) [PubMed: 1446821] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-22. Tissue: Liver.
[3]	"An evolutionarily conserved transmembrane protein that is a novel downstream target of neurotrophin and ephrin receptors." Kong H., Boulter J., Weber J.L., Lai C., Chao M.V. J. Neurosci. 21:176-185(2001) [PubMed: 11150334] [Abstract] Cited for: INTERACTION WITH ARMS.
[4]	"Ternary complex with Trk, p75, and an ankyrin-rich membrane spanning protein." Chang M.-S., Arevalo J.C., Chao M.V. J. Neurosci. Res. 78:186-192(2004) [PubMed: 15378608] [Abstract] Cited for: INTERACTION WITH NTRK1 AND ARMS, DOMAIN.
[5]	"Bex1, a novel interactor of the p75 neurotrophin receptor, links neurotrophin signaling to the cell cycle." Vilar M., Murillo-Carretero M., Mira H., Magnusson K., Besset V., Ibanez C.F. EMBO J. 25:1219-1230(2006) [PubMed: 16498402] [Abstract] Cited for: INTERACTION WITH BEX1.
[6]	"NMR structure of the death domain of the p75 neurotrophin receptor." Liepinsh E., Ilag L.L., Otting G., Ibanez C.F. EMBO J. 16:4999-5005(1997) [PubMed: 9305641] [Abstract] Cited for: STRUCTURE BY NMR OF 334-418.

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Cross-references

Sequence databases

X05137 mRNA. Translation: CAA28783.1.
X61269 Genomic DNA. No translation available.

PIR

A26431.

RefSeq

NP_036742.1.

UniGene

Rn.10980

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1NGR	NMR	-	A	334-418	[»]
1SG1	X-ray	2.40	X	30-190	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP:5715N.

IntAct

P07174.

PTM databases

PhosphoSite

P07174.

Genome annotation databases

Ensembl

ENSRNOG00000005392. Rattus norvegicus. [Contig view]

GeneID

24596.

KEGG

rno:24596.

Organism-specific databases

RGD

3177. Ngfr.

Phylogenomic databases

HOVERGEN

P07174.

Gene expression databases

ArrayExpress

P07174.

GermOnline

ENSRNOG00000005392. Rattus norvegicus.

Family and domain databases

InterPro

IPR000488. Death.
IPR011029. DEATH_like.
IPR001368. TNFR_c6.
[Graphical view]

Gene3D

G3DSA:1.10.533.10. DEATH_like. 1 hit.

Pfam

PF00531. Death. 1 hit.
PF00020. TNFR_c6. 4 hits.
[Graphical view]

SMART

SM00005. DEATH. 1 hit.
SM00208. TNFR. 4 hits.
[Graphical view]

PROSITE

PS50017. DEATH_DOMAIN. 1 hit.
PS00652. TNFR_NGFR_1. 3 hits.
PS50050. TNFR_NGFR_2. 4 hits.
[Graphical view]

ProDom

P07174.
[Graphical view] [Entries sharing at least one domain]

BLOCKS

Search...

Other Resources

LinkHub

P07174.

ProtoNet

Search...

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Entry information

Entry name

TNR16_RAT

Accession

Primary (citable) accession number: P07174

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 1, 1988
Last sequence update:	April 1, 1988
Last modified:	July 22, 2008
This is version 86 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Keywords

Gene Ontology (GO)

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other Resources

Entry information

Relevant documents