Human Gene NGFR (ENST00000172229.8) Description and Page Index
  Description: Homo sapiens nerve growth factor receptor (NGFR), mRNA. (from RefSeq NM_002507)
RefSeq Summary (NM_002507): Nerve growth factor receptor contains an extracellular domain containing four 40-amino acid repeats with 6 cysteine residues at conserved positions followed by a serine/threonine-rich region, a single transmembrane domain, and a 155-amino acid cytoplasmic domain. The cysteine-rich region contains the nerve growth factor binding domain. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: BC050309.1, M14764.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000172229.8/ ENSP00000172229.3 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Gencode Transcript: ENST00000172229.8
Gencode Gene: ENSG00000064300.9
Transcript (Including UTRs)
   Position: hg38 chr17:49,495,293-49,515,008 Size: 19,716 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg38 chr17:49,495,418-49,513,009 Size: 17,592 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:49,495,293-49,515,008)mRNA (may differ from genome)Protein (427 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
HPRDLynxMGIneXtProtOMIMPubMed
ReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TNR16_HUMAN
DESCRIPTION: RecName: Full=Tumor necrosis factor receptor superfamily member 16; AltName: Full=Gp80-LNGFR; AltName: Full=Low affinity neurotrophin receptor p75NTR; AltName: Full=Low-affinity nerve growth factor receptor; Short=NGF receptor; AltName: Full=p75 ICD; AltName: CD_antigen=CD271; Flags: Precursor;
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: Homodimer; disulfide-linked. Interacts with p75NTR- associated cell death executor. Interacts with TRAF2, TRAF4, TRAF6, PTPN13 and RANBP9. Interacts through TRAF6 with SQSTM1 which bridges NGFR to NTRK1. Interacts with BEX1 and NGFRAP1/BEX3. Interacts with KIDINS220 and NTRK1. Can form a ternary complex with NTRK1 and KIDINS220 and this complex is affected by the expression levels of KIDINS220. An increase in KIDINS220 expression leads to a decreased association of NGFR and NTRK1. Interacts with NTRK2; may regulate the ligand specificity of the NTRK2 receptor (By similarity). Interacts with LINGO1.
INTERACTION: P05067:APP; NbExp=4; IntAct=EBI-1387782, EBI-77613; P33681:CD80; NbExp=3; IntAct=EBI-1387782, EBI-1031024; P25233:Ndn (xeno); NbExp=3; IntAct=EBI-1387782, EBI-1801080; Q9CPR8:Ndnl2 (xeno); NbExp=3; IntAct=EBI-1387782, EBI-5529102;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
DOMAIN: Death domain is responsible for interaction with RANBP9.
DOMAIN: The extracellular domain is responsible for interaction with NTRK1 (By similarity).
PTM: N- and O-glycosylated.
PTM: O-linked glycans consist of Gal(1-3)GalNAc core elongated by 1 or 2 NeuNAc.
PTM: Phosphorylated on serine residues.
SIMILARITY: Contains 1 death domain.
SIMILARITY: Contains 4 TNFR-Cys repeats.

-  MalaCards Disease Associations
  MalaCards Gene Search: NGFR
Diseases sorted by gene-association score: infiltrative basal cell carcinoma (22), prurigo nodularis (18), anhidrosis (10), olfactory neuroblastoma (8), tetraploidy (7), skin sarcoma (7), spinal cord injury (7), diabetic neuropathy (7), dupuytren contracture (7), noma (7), rabies (6), type c thymoma (6), clear cell acanthoma (6), malignant spindle cell melanoma (6), aleutian mink disease (6), epulis (6), neurilemmoma (5), cellular schwannoma (5), plexiform schwannoma (5), congenital epulis (5), hemangiopericytoma, malignant (5), breast fibroadenoma (4), medulloblastoma (3), pheochromocytoma (3), mood disorder (2), uveal melanoma (2), hirschsprung disease 1 (1), amyotrophic lateral sclerosis 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 102.35 RPKM in Nerve - Tibial
Total median expression: 418.33 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -68.50125-0.548 Picture PostScript Text
3' UTR -816.501999-0.408 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000488 - Death
IPR011029 - DEATH-like
IPR001368 - TNFR/NGFR_Cys_rich_reg
IPR022325 - TNFR_16

Pfam Domains:
PF00531 - Death domain
PF00020 - TNFR/NGFR cysteine-rich region

Protein Data Bank (PDB) 3-D Structure
MuPIT help

3EWV
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P08138
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004888 transmembrane signaling receptor activity
GO:0005031 tumor necrosis factor-activated receptor activity
GO:0005035 death receptor activity
GO:0005515 protein binding
GO:0005516 calmodulin binding
GO:0015026 coreceptor activity
GO:0017137 Rab GTPase binding
GO:0031625 ubiquitin protein ligase binding
GO:0038023 signaling receptor activity
GO:0043121 neurotrophin binding
GO:0048406 nerve growth factor binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0006915 apoptotic process
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0006954 inflammatory response
GO:0006955 immune response
GO:0007165 signal transduction
GO:0007266 Rho protein signal transduction
GO:0007275 multicellular organism development
GO:0007399 nervous system development
GO:0007411 axon guidance
GO:0010977 negative regulation of neuron projection development
GO:0030154 cell differentiation
GO:0031293 membrane protein intracellular domain proteolysis
GO:0032496 response to lipopolysaccharide
GO:0032922 circadian regulation of gene expression
GO:0033209 tumor necrosis factor-mediated signaling pathway
GO:0042593 glucose homeostasis
GO:0043065 positive regulation of apoptotic process
GO:0043066 negative regulation of apoptotic process
GO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043281 regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0048011 neurotrophin TRK receptor signaling pathway
GO:0048511 rhythmic process
GO:0050771 negative regulation of axonogenesis
GO:0050772 positive regulation of axonogenesis
GO:0051402 neuron apoptotic process
GO:0097190 apoptotic signaling pathway
GO:1900182 positive regulation of protein localization to nucleus
GO:1902895 positive regulation of pri-miRNA transcription from RNA polymerase II promoter
GO:1903588 negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis
GO:1904646 cellular response to beta-amyloid
GO:2001273 regulation of glucose import in response to insulin stimulus

Cellular Component:
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005768 endosome
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0043005 neuron projection


-  Descriptions from all associated GenBank mRNAs
  LF209275 - JP 2014500723-A/16778: Polycomb-Associated Non-Coding RNAs.
MA444852 - JP 2018138019-A/16778: Polycomb-Associated Non-Coding RNAs.
AK313654 - Homo sapiens cDNA, FLJ94232, Homo sapiens nerve growth factor receptor (TNFR superfamily, member16) (NGFR), mRNA.
LF213988 - JP 2014500723-A/21491: Polycomb-Associated Non-Coding RNAs.
MA449565 - JP 2018138019-A/21491: Polycomb-Associated Non-Coding RNAs.
JA482181 - Sequence 164 from Patent WO2011072091.
JE980473 - Sequence 164 from Patent EP2862929.
BC050309 - Homo sapiens nerve growth factor receptor (TNFR superfamily, member 16), mRNA (cDNA clone MGC:48326 IMAGE:5263715), complete cds.
M14764 - Human nerve growth factor receptor mRNA, complete cds.
AK303278 - Homo sapiens cDNA FLJ51424 complete cds, highly similar to Tumor necrosis factor receptor superfamilymember 16 precursor.
LF327419 - JP 2014500723-A/134922: Polycomb-Associated Non-Coding RNAs.
MA562996 - JP 2018138019-A/134922: Polycomb-Associated Non-Coding RNAs.
JD449492 - Sequence 430516 from Patent EP1572962.
JD380189 - Sequence 361213 from Patent EP1572962.
JD216662 - Sequence 197686 from Patent EP1572962.
JD406445 - Sequence 387469 from Patent EP1572962.
JD360008 - Sequence 341032 from Patent EP1572962.
JD192945 - Sequence 173969 from Patent EP1572962.
JD161191 - Sequence 142215 from Patent EP1572962.
LF327418 - JP 2014500723-A/134921: Polycomb-Associated Non-Coding RNAs.
MA562995 - JP 2018138019-A/134921: Polycomb-Associated Non-Coding RNAs.
JD270843 - Sequence 251867 from Patent EP1572962.
JD147561 - Sequence 128585 from Patent EP1572962.
JD515109 - Sequence 496133 from Patent EP1572962.
JD189551 - Sequence 170575 from Patent EP1572962.
JD191167 - Sequence 172191 from Patent EP1572962.
LF327417 - JP 2014500723-A/134920: Polycomb-Associated Non-Coding RNAs.
MA562994 - JP 2018138019-A/134920: Polycomb-Associated Non-Coding RNAs.
JD445496 - Sequence 426520 from Patent EP1572962.
JD351501 - Sequence 332525 from Patent EP1572962.
JD382488 - Sequence 363512 from Patent EP1572962.
LF327416 - JP 2014500723-A/134919: Polycomb-Associated Non-Coding RNAs.
MA562993 - JP 2018138019-A/134919: Polycomb-Associated Non-Coding RNAs.
JD335923 - Sequence 316947 from Patent EP1572962.
JD459396 - Sequence 440420 from Patent EP1572962.
JD206927 - Sequence 187951 from Patent EP1572962.
JD273999 - Sequence 255023 from Patent EP1572962.
JD210060 - Sequence 191084 from Patent EP1572962.
LF327415 - JP 2014500723-A/134918: Polycomb-Associated Non-Coding RNAs.
MA562992 - JP 2018138019-A/134918: Polycomb-Associated Non-Coding RNAs.
JD477953 - Sequence 458977 from Patent EP1572962.
JD484168 - Sequence 465192 from Patent EP1572962.
JD173216 - Sequence 154240 from Patent EP1572962.
JD381348 - Sequence 362372 from Patent EP1572962.
JD103246 - Sequence 84270 from Patent EP1572962.
JD391251 - Sequence 372275 from Patent EP1572962.
JD449924 - Sequence 430948 from Patent EP1572962.
JD449703 - Sequence 430727 from Patent EP1572962.
JD392235 - Sequence 373259 from Patent EP1572962.
JD194993 - Sequence 176017 from Patent EP1572962.
JD161314 - Sequence 142338 from Patent EP1572962.
JD497146 - Sequence 478170 from Patent EP1572962.
JD478778 - Sequence 459802 from Patent EP1572962.
JD100098 - Sequence 81122 from Patent EP1572962.
LF327414 - JP 2014500723-A/134917: Polycomb-Associated Non-Coding RNAs.
MA562991 - JP 2018138019-A/134917: Polycomb-Associated Non-Coding RNAs.
JD138969 - Sequence 119993 from Patent EP1572962.
JD268685 - Sequence 249709 from Patent EP1572962.
JD172598 - Sequence 153622 from Patent EP1572962.
JD346860 - Sequence 327884 from Patent EP1572962.
JD390586 - Sequence 371610 from Patent EP1572962.
JD551316 - Sequence 532340 from Patent EP1572962.
JD310185 - Sequence 291209 from Patent EP1572962.
JD464333 - Sequence 445357 from Patent EP1572962.
JD192981 - Sequence 174005 from Patent EP1572962.
JD413246 - Sequence 394270 from Patent EP1572962.
JD127224 - Sequence 108248 from Patent EP1572962.
JD431692 - Sequence 412716 from Patent EP1572962.
JD232137 - Sequence 213161 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04060 - Cytokine-cytokine receptor interaction
hsa04722 - Neurotrophin signaling pathway

BioCarta from NCI Cancer Genome Anatomy Project
h_ngfPathway - Nerve growth factor pathway (NGF)
h_erkPathway - Erk1/Erk2 Mapk Signaling pathway
h_cdk5Pathway - Phosphorylation of MEK1 by cdk5/p35 down regulates the MAP kinase pathway

Reactome (by CSHL, EBI, and GO)

Protein P08138 (Reactome details) participates in the following event(s):

R-HSA-193636 p75NTR interacts with the NOGO receptor
R-HSA-193653 NGF homodimer binds to p75NTR
R-HSA-193668 p75NTR and RHOA-GDI interact
R-HSA-193679 alpha-secretase cleaves the p75NTR extracellular domain
R-HSA-193700 p75NTR ICD signals to NF-kB
R-HSA-193702 Part of the ICD migrates to the nucleus
R-HSA-193682 gamma-secretase cleaves the p75NTR transmembrane domain
R-HSA-209532 The p75NTR C-terminal fragment enters endosomes
R-HSA-193642 Binding of pro-NGF to p75NTR:sortilin
R-HSA-193646 NGF binding to p75NTR inactivates RHOA
R-HSA-209573 p75NTR:NgR complex interacts with the axonal inhibitor LINGO1
R-HSA-193643 PRDM4 (SC1) binds to p75NTR
R-HSA-193650 p75NTR binds to NADE
R-HSA-193656 p75NTR interacts with RIP2
R-HSA-193677 NRIF binds to p75NTR
R-HSA-193686 p75NTR interacts with IRAK:MYD88
R-HSA-205115 NGF:p75NTR complex binds to NRAGE
R-HSA-205112 gamma-secretase cleaves p75NTR, releasing NRIF and TRAF6
R-HSA-193655 Myelin components can interact with p75NTR:NgR:LINGO1
R-HSA-204981 14-3-3epsilon attentuates NADE-related apoptosis
R-HSA-204958 NRAGE sequesters CHE1 in the cytoplasm
R-HSA-193669 TRAF6 binds to p75NTR:NRIF
R-HSA-193703 IKKbeta is activated
R-HSA-193694 p62 is recruited and forms a complex with TRAF6
R-HSA-193665 MYD88 dissociates
R-HSA-193647 IRAK is activated
R-HSA-193695 IRAK interacts with TRAF6
R-HSA-193672 Sphingomyelinase is activated by the NGF:p75NTR complex
R-HSA-9012761 The p75NTR:NgR:MDGI binds RHOA-GDI
R-HSA-205117 p75NTR:NADE promotes caspase2/3 activation
R-HSA-205132 NRAGE activates JNK
R-HSA-193705 IKKbeta phosphorylates IkB causing NF-kB to dissociate
R-HSA-193641 IKK-beta is recruited
R-HSA-193684 p62 recruits an atypical PKC
R-HSA-193696 The p75NTR:NgR:MDGI complex reduces RHOA-GDI activity, displacing RHOA
R-HSA-204949 NRIF and TRAF6 may activate JNK
R-HSA-193634 Axonal growth inhibition (RHOA activation)
R-HSA-205017 NFG and proNGF binds to p75NTR
R-HSA-209563 Axonal growth stimulation
R-HSA-193692 Regulated proteolysis of p75NTR
R-HSA-193670 p75NTR negatively regulates cell cycle via SC1
R-HSA-205025 NADE modulates death signalling
R-HSA-209543 p75NTR recruits signalling complexes
R-HSA-205043 NRIF signals cell death from the nucleus
R-HSA-193648 NRAGE signals death through JNK
R-HSA-193697 p75NTR regulates axonogenesis
R-HSA-193704 p75 NTR receptor-mediated signalling
R-HSA-209560 NF-kB is activated and signals survival
R-HSA-204998 Cell death signalling via NRAGE, NRIF and NADE
R-HSA-193639 p75NTR signals via NF-kB
R-HSA-193681 Ceramide signalling
R-HSA-73887 Death Receptor Signalling
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: B2R961, NM_002507, P08138, TNFRSF16, TNR16_HUMAN, uc002ioz.1, uc002ioz.2, uc002ioz.3, uc002ioz.4, uc002ioz.5, uc002ioz.6
UCSC ID: uc002ioz.6
RefSeq Accession: NM_002507
Protein: P08138 (aka TNR16_HUMAN or TR16_HUMAN)
CCDS: CCDS11549.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.