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FLASH GENE
Symbol LTB contributors: - updated : 30-08-2007
HGNC name lymphotoxin beta (TNF superfamily, member 3)
HGNC id 6711
Location 6p21.3      Physical location : 2.833.875 - 31.550.202
Synonym name
  • tumor necrosis factor C, cytokine
  • Synonym symbol(s) TNFC, TNFSF3, p33
    DNA
    TYPE functioning gene
    STRUCTURE 1.00 kb     4 Exon(s)
    10 Kb 5' upstream gene genomic sequence study
    MAPPING cloned Y linked   status confirmed
    Map pter - HLA-B - LTA - LTB - cen
    Physical map
    HLA-B 6p21.3 major histocompatibility complex, class I, B MICA 6p21.3 MHC class I polypeptide-related sequence A HCP5 6p21.3 HLA complex P5 MICB 6p21.3 MHC class I polypeptide-related sequence B PPIP9 6p21.3 peptidylprolyl isomerase (cyclophilin) pseudogene 9 BAT1 6p21.33 HLA-B associated transcript 1 ATP6V1G2 6p21.3 ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G isoform 2 NFKBIL1 6p21.3 nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 1 LTA 6p21.3 lymphotoxin alpha (TNF superfamily, member 1) TNF 6p21.3 tumor necrosis factor (TNF superfamily, member 2) LTB 6p21.3 lymphotoxin beta (TNF superfamily, member 3) LST1 6p21.3 leukocyte specific transcript 1 NCR3 6p21.3 natural cytotoxicity triggering receptor 3 AIF1 6p21.3 allograft inflammatory factor 1 BAT2 6p21.33 HLA-B associated transcript 2 BAT3 6p21.33 HLA-B associated transcript 3 APOM 6p21.31 apolipoprotein M C6orf47 6p21.3 chromosome 6 open reading frame 47 BAT4 6p21.33 HLA-B associated transcript 4 CSNK2B 6p21.3 casein kinase 2, beta polypeptide LY6G5B 6p21.3 lymphocyte antigen 6 complex, locus G5B LY6G5C 6p21.3 lymphocyte antigen 6 complex, locus G5C BAT5 6p21.33 HLA-B associated transcript 5 LY6G6D 6p21.3 lymphocyte antigen 6 complex, locus G6D LY6G6E 6p21.3 lymphocyte antigen 6 complex, locus G6E LY6G6C 6p21.3 lymphocyte antigen 6 complex, locus G6C C6orf25 6p21.3 chromosome 6 open reading frame 25 DDAH2 6p21.3 dimethylarginine dimethylaminohydrolase 2
    RNA
    TRANSCRIPTS type messenger
    identificationnb exonstypebpproduct
    ProteinkDaAAspecific expressionYearPubmed
    - - 894 25 244 - Warzocha
  • 4 exons
  • can form the heterotrimeric complex with lymphotoxin-alpha
  • - splicing 848 7 77 - Warzocha
  • 3 exons: lacking an exon in the coding region compared to variant 1
  • having a premature stop codon and lacking the majority of the extracellular domain compared to isoform a
  • being probably non-functional
  • being unable to complex with lymphotoxin-alpha suggesting a function for lymphotoxin-beta which is independent of lympyhotoxin-alpha
  • EXPRESSION
    Type
    constitutive of
       expressed in (based on citations)
    organ(s)
    SystemOrgan level 1Organ level 2Organ level 3Organ level 4LevelPubmedSpeciesStageRna symbol
    Lymphoid/Immunelymph node   moderately
     spleen   moderately
     tonsils   predominantly
    tissue
    SystemTissueTissue level 1Tissue level 2LevelPubmedSpeciesStageRna symbol
    Blood / hematopoietic    
    cells
    SystemCellPubmedSpeciesStageRna symbol
    Lymphoid/Immunemacrophage
    cell lineage
    cell lines
    fluid/secretion highly in lymph
    at STAGE
    PROTEIN
    PHYSICAL PROPERTIES
    STRUCTURE
    motifs/domains
  • an extracellular C terminus
  • a ligand binding region
  • conjugated GlycoP
    mono polymer heteromer , trimer
    HOMOLOGY
    interspecies homolog to murine Ltb (74.7 pc)
    homolog to rattus Ltb (75.8 pc)
    Homologene
    FAMILY
  • tumors necrosis factor (ligand) TNF superfamily
  • CATEGORY signaling cytokine
    SUBCELLULAR LOCALIZATION extracellular
        plasma membrane
    text
  • single-pass type II membrane protein
  • basic FUNCTION
  • may play a specific role in immune response regulation
  • providing the membrane anchor for the attachment of the heterotrimeric complex to the cell surface
  • being the primary ligand for the lymphotoxin-beta receptor
  • being an inducer of the inflammatory response system
  • involved in normal development of lymphoid tissue
  • CELLULAR PROCESS
    PHYSIOLOGICAL PROCESS immunity/defense
    PATHWAY
    metabolism
    signaling signal transduction
    a component
  • heterotrimer of either two LTB and one LTA subunits or (less prevalent) one LTB and two LTA subunits
  • INTERACTION
    DNA
    RNA
    small molecule
    protein
  • binding to LTBR/TNFRSF3
  • cell & other
    REGULATION
    ASSOCIATED DISORDERS
    corresponding disease(s)
    Susceptibility
    Variant & Polymorphism
    Candidate gene
    Marker
    Therapy target
    ANIMAL & CELL MODELS