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LTBR lymphotoxin beta receptor [ Homo sapiens (human) ]

Gene ID: 4055, updated on 13-Mar-2020

Summary

Official Symbol
LTBRprovided by HGNC
Official Full Name
lymphotoxin beta receptorprovided by HGNC
Primary source
HGNC:HGNC:6718
See related
Ensembl:ENSG00000111321 MIM:600979
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TNFCR; TNFR3; D12S370; TNFR-RP; TNFRSF3; TNFR2-RP; LT-BETA-R; TNF-R-III
Summary
This gene encodes a member of the tumor necrosis factor receptor superfamily. The major ligands of this receptor include lymphotoxin alpha/beta and tumor necrosis factor ligand superfamily member 14. The encoded protein plays a role in signalling during the development of lymphoid and other organs, lipid metabolism, immune response, and programmed cell death. Activity of this receptor has also been linked to carcinogenesis. Alternatively spliced transcript variants encoding multiple isoforms have been observed. [provided by RefSeq, Aug 2012]
Expression
Ubiquitous expression in prostate (RPKM 23.4), placenta (RPKM 23.0) and 25 other tissues See more
Orthologs

Genomic context

See LTBR in Genome Data Viewer
Location:
12p13.31
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (6375160..6391571)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (6484534..6500737)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984500 Neighboring gene sodium channel epithelial 1 subunit alpha Neighboring gene uncharacterized LOC105369626 Neighboring gene ribosomal protein L31 pseudogene 10 Neighboring gene CD27 antisense RNA 1 Neighboring gene signal recognition particle 14 pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat upregulates the expression of lymphotoxin beta receptor (TNFR superfamily, member 3, LTBR) gene in mammary epithelial cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
apoptotic process IEA
Inferred from Electronic Annotation
more info
 
cellular response to mechanical stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
immune response IEA
Inferred from Electronic Annotation
more info
 
myeloid dendritic cell differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of I-kappaB kinase/NF-kappaB signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of I-kappaB kinase/NF-kappaB signaling IEP
Inferred from Expression Pattern
more info
PubMed 
positive regulation of JNK cascade IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of extrinsic apoptotic signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
tumor necrosis factor-mediated signaling pathway TAS
Traceable Author Statement
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
tumor necrosis factor receptor superfamily member 3
Names
lymphotoxin B receptor
lymphotoxin beta receptor (TNFR superfamily, member 3)
tumor necrosis factor C receptor
tumor necrosis factor receptor 2-related protein
tumor necrosis factor receptor type III

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_033039.2 RefSeqGene

    Range
    4793..21199
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001270987.2NP_001257916.1  tumor necrosis factor receptor superfamily member 3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC005840, AK027080, AK293187, BC026262, DC424721
    Consensus CDS
    CCDS59233.1
    UniProtKB/Swiss-Prot
    P36941
    Related
    ENSP00000440875.1, ENST00000539925.5
    Conserved Domains (3) summary
    cd00185
    Location:151191
    TNFRSF; CRD2 [structural motif]
    cd10578
    Location:4149
    TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
    cl22855
    Location:129191
    TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)
  2. NM_002342.3NP_002333.1  tumor necrosis factor receptor superfamily member 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_002333.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK027080, BC026262, DA679291, L04270
    Consensus CDS
    CCDS8544.1
    UniProtKB/Swiss-Prot
    P36941
    Related
    ENSP00000228918.4, ENST00000228918.9
    Conserved Domains (4) summary
    cd00185
    Location:170210
    TNFRSF; CRD2 [structural motif]
    cd10578
    Location:11168
    TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
    cl22855
    Location:148210
    TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)
    cl27169
    Location:264342
    ZipA; ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    6375160..6391571
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005253688.2XP_005253745.1  tumor necrosis factor receptor superfamily member 3 isoform X1

    See identical proteins and their annotated locations for XP_005253745.1

    Conserved Domains (3) summary
    cd00185
    Location:170210
    TNFRSF; CRD2 [structural motif]
    cd10578
    Location:11168
    TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
    cl22855
    Location:148210
    TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)
  2. XM_006718983.3XP_006719046.1  tumor necrosis factor receptor superfamily member 3 isoform X2

    See identical proteins and their annotated locations for XP_006719046.1

    Related
    ENSP00000437647.1, ENST00000536876.5
    Conserved Domains (3) summary
    cd00185
    Location:170210
    TNFRSF; CRD2 [structural motif]
    cd10578
    Location:11168
    TNFRSF3; Tumor necrosis factor receptor superfamily member 3 (TNFRSF3), also known as lymphotoxin beta receptor (LTBR)
    cl22855
    Location:148210
    TNFRSF; Tumor necrosis factor receptor superfamily (TNFRSF)
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